DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1))
neuraminidase (NA) gene, complete cds.
ACCESSION EU486854
VERSION EU486854.1 GI:168203841
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1373)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..1373
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="6"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203841&from=9&to=1358&view=gbwithparts) 9..1358
/gene="NA"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203841&from=9&to=1358&view=gbwithparts) 9..1358
/gene="NA"
/codon_start=1
/product="neuraminidase"
/protein_id="ACA21690.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21690.1)"
/db_xref="GI:168203842"
/translation="MNPNQKIITIGSICMVIGIVSLMLQIGNMISIWVSHSIQTGNQR
QVEPISNTKFLTEKAVASLTLAGNSSLCPISGWAVYSKDNSIRIGSRGDV FVIREPFV
SCSHLECRTFFLTQGALLNDKHSNGTVKDRSPHRTLMSCPVGEAPSPYNS RFESVAWS
ASACHDGTSWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNNILRTQESE CACVNGSC
FTVMTDGPSNGQASYKIFKMEKGKVVKSVELDAPNYHYEECSCYPDAGEI TCVCRDNW
HGSNRPWVSFNRNLEYQIGYICSGVFGDNPRPNDGTGSCGPVSPNGAYGV KGFSFKYG
NGVWIGRTKSTNSRSGFEMIWDPNGWTGTDSSFSVKQDIVAITDWSGYSG SFVQHPEL
TGLDCIRPCFWVELIRGRPKESTIWTSGSSISFCGVNSDTVSWSWPDGAE LPFTIDK"
ORIGIN
1 agttcaaaat gaatccaaat cagaagataa taaccatcgg atcaatctgt atggtaattg
61 gaatagttag cttaatgtta caaattggga acatgatctc aatatgggtc agtcattcaa
121 ttcagacagg gaatcaacgc caagttgaac caatcagcaa tactaaattt cttactgaga
181 aagctgtggc ttcattaaca ttagcgggca attcatcact ttgccccatt agcggatggg
241 ctgtatacag taaggacaac agtataagga tcggttccag gggggatgtg tttgttataa
301 gagagccgtt cgtctcatgc tcccacttgg agtgcagaac tttcttttta actcagggag
361 ccttgctgaa tgacaagcac tccaatggga ctgtcaaaga cagaagccct cacagaacat
421 taatgagttg tcctgtgggt gaggctccct ccccatataa ctcaaggttt gagtctgttg
481 cttggtcagc aagtgcttgc catgatggca ccagttggtt gaccattgga atttctggtc
541 cagacaatgg ggctgtggct gtattgaaat acaatggcat aataacagac accatcaaga
601 gttggaggaa caacatactg agaacccaag agtctgaatg tgcatgtgta aatggctctt
661 gctttactgt aatgactgat ggaccaagta atgggcaggc atcatataag atcttcaaaa
721 tggaaaaagg aaaagtggtt aaatcagtcg aattggatgc tcctaattat cactatgagg
781 agtgctcctg ttatcctgat gccggcgaaa tcacatgtgt gtgcagggat aattggcatg
841 gctcaaatag gccatgggta tctttcaatc gaaatttgga gtatcaaata ggatatatat
901 gcagtggagt tttcggagac aatccacgcc ccaatgatgg aacaggtagt tgtggtccgg
961 tgtcccctaa cggggcatat ggggtaaaag ggttttcatt taaatacggc aatggtgttt
1021 ggattgggag aaccaaaagc actaattcca ggagcggctt tgaaatgatt tgggatccaa
1081 atgggtggac tggaacggac agtagctttt cggtgaagca agatatcgta gcaataactg
1141 attggtcagg atatagcggg agttttgtcc agcatccaga actgacagga ttagattgca
1201 taagaccttg tttctgggtt gagttaatca gagggcggcc taaagagagc acaatttgga
1261 ccagtggaag cagcatatct ttttgtggtg taaatagtga cactgttagt tggtcttggc
1321 cagacggtgc tgagttgcca ttcaccattg acaagtagtt tgttcaaaaa act
http://www.recombinomics.com/News/02250803/H5N1_Rostov_Match.html
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase
basic protein 2 (PB2) gene, complete cds.
ACCESSION EU486848
VERSION EU486848.1 GI:168203827
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 2316)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..2316
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="1"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203827&from=16&to=2295&view=gbwithparts) 16..2295
/gene="PB2"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203827&from=16&to=2295&view=gbwithparts) 16..2295
/gene="PB2"
/codon_start=1
/product="polymerase basic protein 2"
/protein_id="ACA21682.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21682.1)"
/db_xref="GI:168203828"
/translation="MERIKELRDLMSQSRTREILTKTTVDHMAIIKKYTSGRQEKNPA
LRMKWMMAMKYPITADKRIMEMIPERNERGQTLWSKTNDAGSDRVMVSPL AVTWWNRN
GPTTSTVHYPKVYKTYFEKVERLRHGTFGPVHFRNQVKIRRRVDTNPGHA DLSAKEAQ
DVIMEVVFPNEVGARILTSESQLTITKEKKEELQDCKIAPLMVAYMLERE LVRKTRFL
PVAGGTSSVYIEVLHLTQGTCWEQMYTPGGEVRNDDVDQSLIIAARNIVR RATVSADP
LASLLEMCHSTQIGGIRMVDILRQNPTEEQAVDICKAAMGLRISSSFSFG GFTFKRTS
GSSITKEEEVLTGNLQTLKIRVHEGYEEFTMVGQRATAILRKATRRLIQL IVSGRNEQ
SIAEAIIVAMVFSQEDCMIKAVRGDLNFVNRANQRLNPMHQLLRHFQKDA KVLFQNWG
TEPIDNVMGMIGILPDMTPSTEMSLRGVRVSKMGVDEYSSTERVVVSIDR FLRVRDQR
GNVLLSPEEVSETQGTEKLTITYSSSMMWEINGPESVLVNTYQWIIRNWE TVKIQWSQ
DPTMLYNKMEFEPFQSLVPKAARGQYSGFVRTLFQQMRDVLGTFDTVQII KLLPFAAA
PPKQSRMQFSSLTVNVRGSGMRILIRGNSPVFNYNKATKRLTVLGKDAGA LTEDPDEG
TAGVESAVLRGFLILGKEDKRYGPALSINELSNLAKGEKANVLIGQGDVV LVMKRKRD
SSILTDSQTATKRIRMAIN"
ORIGIN
1 tcaaatatat tcaatatgga gagaataaag gaattaagag atctaatgtc acagtcccgc
61 actcgcgaga tactaacaaa gaccactgtg gaccatatgg ccataatcaa gaaatacaca
121 tcaggaagac aagagaagaa ccctgctctc agaatgaaat ggatgatggc aatgaaatat
181 ccaatcacag cggacaagag aataatggag atgattcctg aaaggaatga acgaggacag
241 acactctgga gcaagacaaa tgatgctgga tcggacaggg tgatggtgtc tcccctagct
301 gtaacttggt ggaataggaa tgggccgacg acaagtacag ttcattatcc aaaggtttac
361 aaaacatact ttgagaaggt tgaaaggtta agacatggaa ccttcggtcc cgttcatttc
421 cgaaaccaag ttaaaatacg ccgccgagtt gatacaaatc ctggccatgc agatctcagt
481 gctaaagaag cacaagatgt catcatggag gtcgttttcc caaatgaagt gggagctaga
541 atattgactt cagagtcaca attgacaata acgaaagaga agaaagaaga gctccaagat
601 tgtaagattg ctcccttaat ggttgcatac atgttggaaa gggaactggt ccgcaaaacc
661 agattcctac cagtagcagg cggaacaagc agtgtgtaca tcgaggtatt gcatttgact
721 caaggaacct gctgggaaca gatgtacact ccaggcggag aagtaagaaa tgacgatgtt
781 gaccagagtt tgatcattgc cgccagaaac attgttagga gagcaacggt atcagcggat
841 ccactggcat cactgcttga gatgtgtcac agcacacaaa ttggtgggat aaggatggtg
901 gacatcctta ggcaaaatcc aactgaggaa caagctgtgg atatatgcaa agcagcaatg
961 ggtctgagga ttagttcatc ctttagcttt ggaggcttca ctttcaaaag aacaagtgga
1021 tcatccatca cgaaggaaga ggaagtgctt acaggcaacc tccaaacatt gaaaataaga
1081 gtacatgaag ggtatgagga attcacaatg gttggacaga gggcaacagc catcctgagg
1141 aaagcaacca gaagactgat tcagttgata gtgagtggaa gaaacgaaca atcaatcgct
1201 gaggcaatca ttgtagcaat ggtgttctca caggaggatt gcatgataaa agcagtccga
1261 ggcgatctga atttcgtaaa cagagcaaac caaagattaa accccatgca tcaactcctg
1321 agacactttc aaaaggacgc aaaagtgcta tttcagaatt ggggaactga acccattgat
1381 aatgtcatgg ggatgatcgg aatattacct gacatgactc ccagcacaga aatgtcactg
1441 agaggagtaa gagttagtaa aatgggagta gatgagtatt ccagtacaga gagagtagtt
1501 gtaagcattg accgcttctt aagggttcga gaccagcggg ggaacgtact cttatctccc
1561 gaagaggtca gcgaaaccca gggaacagag aagttgacaa taacatattc atcatcaatg
1621 atgtgggaaa tcaacggtcc tgagtcagtg cttgttaaca cttaccaatg gatcatcaga
1681 aactgggaga ccgtgaaaat tcagtggtct caggacccca cgatgctgta caataaaatg
1741 gagtttgaac cgttccaatc cttggtacct aaagctgcca gaggtcaata cagtggattt
1801 gtgagaacat tattccaaca aatgcgtgac gtactgggga catttgatac tgtccagata
1861 ataaagctgc taccatttgc agcagcccca ccgaagcaga gcagaatgca gttttcttct
1921 ctaactgtga atgtgagagg ctcaggaatg agaatactca taagaggcaa ttcccctgta
1981 ttcaactaca ataaggcaac caaaagactt actgttcttg gaaaagacgc aggtgcatta
2041 acagaggatc cagatgaggg gacagccgga gtggaatctg cagtactgag ggggttccta
2101 attttaggca aggaggacaa aagatatgga ccagcattga gcatcaatga actgagcaat
2161 cttgcaaaag gggagaaagc taatgtgctg ataggacaag gagacgtggt gttggtaatg
2221 aaacggaaac gggactctag catacttact gacagccaga cagcgaccaa aagaattcgg
2281 atggccatca attagtgtcg aattgtttaa aaacga
http://www.recombinomics.com/News/02250803/H5N1_Rostov_Match.htmlCommentary (http://www.recombinomics.com/feed.xml) [/URL]
Rostov Chicken and Starling H5N1 Sequences Match
Recombinomics Commentary 17:04
February 25, 2008
Wild bird H5N1 sequences associated with a poultry outbreak in Rostov on December 14, 2007 are being released at Genbank. Complete sequences for all eight gene segments were generated, and the starling sequences, A/[URL="http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=EU486854.1"]starling/Rostov-on-Don/37 (http://www.newsnow.co.uk/nn/Recombinomics)/2007 are virtually identical to the chicken H5N1 sequences, A/chicken/Rostov-on-Don/35 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=166798263)/2007. Five of the gene segments (PB1, PA, HA, NP, NS) are exact matches, while the other three gene segments (PB2, NA, MP) differ by one nucleotide each.
This high level of identity parallels results from an outbreak in Krasnodar, where chicken and whooper swan sequences were over 99.95% (http://www.recombinomics.com/News/12030701/H5N1_Krasnodar_Match.html) identical (6 differences in over 12,000 positions). These examples demonstrate the level of identity in isolates from a common source and provide additional compelling data linking poultry outbreaks to H5N1 circulating in wild birds in the region of the outbreak. The above sequences were clade 2.2.3. As noted previously, the Krasnodar sequences trace back to the Uva Lake wild bird outbreak in the summer of 2006 as do most of the recent sequences from Europe, as well as 2007 isolates in Kuwait (http://www.recombinomics.com/News/02210802/H5N1_Kuwait_G743A.html) and Saudi Arabia (http://www.recombinomics.com/News/02180802/H5N1_Uva_Saudi.html). However, although all of these sequences trace back to Uva Lake (http://www.recombinomics.com/News/11300701/H5N1_Uva_Lake.html), they are readily distinguished from each other (but these recent sequences also have NA (G743A (http://www.recombinomics.com/News/11290702/H5N1_G743A_Migration.html))..
The recent outbreak in mute swans in England are also closely related, although the percent identity is well below the 99.9% which is characteristic of a common as seen above or seen in chicken, duck, and cat isolates from Romania, which had identical HA sequences (http://www.recombinomics.com/News/01080802/H5N1_Romania_Uva_Lake.html).
Thus, sequence analysis can be used to trace origins and readily distinguish between infections by a common source, or independent introductions (http://www.recombinomics.com/News/01310806/H5N1_Wild_Birds_England.html), as seen in the mute swan (http://www.recombinomics.com/News/02060802/H5N1_Swan_Surveillance.html) population in Dorset, England.
.
0000000001111111111111111111111222 0000000000001111111111122222 00000000001111111122 000000000000000011111111 000000000000000111 000000000000001111 00000000 00000000
0112366780011111134446677789999001 1334456699990136788899900112 01235568880135668911 011112223455578801244567 011222456678889112 011122333356780012 01266689 11233668
6591758841701334516774911272569188 1371342312581988015733638362 83161510076553061714 945680894111764641369731 207067853545886199 133817024411261116 16907993 79506032
6028777632416450811037819226058091 2854207481744730182528128961 15631986765813802123 314731269719320710374236 851199059745587709 807702442868331790 53105300 15363563
-codon-position----------------------------- 22 1 1 1 1 12 1 1 21 1 11 2 1 1 1 12 21 1 1 1 2 112 121 21 2 1 2 1 2 1
---Index------------------------------------AGAAAGTTGGGGTTAGATACTCATTGCCGGCGCG TTTGCGGCTTGCCTAAACGTAGGACCCG TTGAACAGACATTGGGGGGC GCAATTCTCAACGATCACTAAGCG TCCAAACGATTGGCGGAT GCCGTGAAGGATGACCCG CCTGTTGA TGCCAATA
1 >A/Ck/Rostov-on-Don/35/07,12,14 G.GGGACCTAAACC.AGCGTATGCCA..AATATA .CCATAA...A.TCCTGTAC.....TT. CCAG.TGAGTCCGAAAATA. TTGGCCTATGGTA.CTGTA.GA.. CT.GG..A.CCTATAAGC ..TTA.GG..CCAGTT.A .TCACCAG .ATTGGCG
2 >A/Starling/Rostov-on-Don/39/07,12/15 G.GGGACCTAAACC.AGCGTATGC.A..AATATA .CCATAA...A.TCCTGTAC.....TT. CCAGGTGAGTCCGAAAATA. TTGGCCTATGGTA.CTGTA.GA.. CT.GG..A.CCTATAAGC ..TTA.GGA.CCAGTT.A .TCA.CAG .ATTGGCG
3 >A/Ck/Rostov/22-1/07,12/14 G...GACC.AAA..C.GCG..TG..A...AT..A CCCATAA.CCA.TCCTGTACG.A.TTT. .CA..T...T.CGA.A.TAT TTGGCCTATGGT.GCTGTA.G..T CT.GG.TA.CCTAT.AGC .....A....CC..TTTA TTCA.C.. ..TT.GCG
4 >A/Ck/Moscow obl.Odintsovo/1/07,02/16 GAG.GA.C.AAA..C.GCG..TG..ATT...... CCCA.AAA..A.TCCT.TA..AAG.T.A .CA..T...T.C.A.A.TAT ---------GGT.GCT.TACG... CTTGGG..RCC.AT.AGC -T.....G.ACCA.TT-- .TCA.... ..TT.GCG
5 >A/Ck/Moscow/2/07,02/16 GAG.GA.C.AAA..C.GCG..TG..A...A.AT. CCCA.AAA..ATTCCT.TA..AAG.T.A .CA..T...T.C.A.A.TA- .TG.CCT.TGGT.GCT.TA.G.A- CTTGGG..GCC.AT.AGC AT.....G.ACCA.TT.. TTCA.... G.TT.GCG
6 >A/Qinghai-strain/index/05,02/10 .................................. ............................ ...................- .......................- .................. .................. ........ ........
called *39,*35,*22-1 is a bit unusual.
First *22-1 has fewer mutations from original Qinghai than expected.
Only 103 mutations for *22-1 as compared to 125 for *35 and 125 for *39 too.
The counts of nucleotide-differences in *39 from original Qinghai which do not occur in *22-1
for the 8 segments are: 12+0+9+2+1+8+2+0.
While the other way round the counts of nucleotide-differences from original Qinghai which
are in *22-1 but not in *39 for the 8 segments are: 1+6+1+2+1+2+1+0
This all happens on the genetical background of 13+13+9+14+11+4+3+5=72
mutations distant from original Qinghai, which are common to all Moscow and Rostov viruses,
which let us name "BWR" for "basic West-Russia".
*39 has 53=16+4+10+6+3+9+3+2 differences from BWR, while *22-1 has 31=5+10+2+6+3+3+2+0
This may indicate reassortment where *39 got segments 1,3,6 and *22-1 got segment 2 from
a more mutated variant and the other segments from a more preserved virus (this is rare,
but apparantly happens occasionally, as in England/Hungary Feb.2007)
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase
basic protein 1 (PB1) gene, complete cds.
ACCESSION EU486849
VERSION EU486849.1 GI:168203829
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 2316)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..2316
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="2"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203829&from=13&to=2286&view=gbwithparts) 13..2286
/gene="PB1"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203829&from=13&to=2286&view=gbwithparts) 13..2286
/gene="PB1"
/codon_start=1
/product="polymerase basic protein 1"
/protein_id="ACA21683.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21683.1)"
/db_xref="GI:168203830"
/translation="MDVNPTLLFLKVPVQNAISTTFPYTGDPPYSHGTGTGYTMDTVN
RTHQYSEKGKWTTNTETGAPQLNPIDGPLPEDNEPSGYAQTDCVLEAMAF LEESHPGI
FENSCLETMETVQQTRVDKLTQGRQTYDWTLNRNQPAATALANTIEIFRS NGLTANES
GRLIDFLKDVMESMDKEEMEITTHFQRKRRVRDNMTKKMVTQRTIGKKKQ RLNKKSYL
IRALTLNTMTKDAERGKLKRRAIATPGMQIRGFVYFVETLARSICEKLEQ SGLPVGGN
EKKAKLANVVRKMMTNSQDTELSFTITGDNTKWNENQNPRMFLAMITYIT RNQPEWFR
NVLSIAPIMFSNKMARLGRGYMFESKSMKLRTQIPAEMLANIDLKYFNEL TKKKIEKI
RPLLIDGTASLSPGMMMGMFNMLSTVLGVSILNLGQKRYTKTTYWWDGLQ SSDDFALI
VNAPNHEGIQAGVDRFYRTCKLVGINMSKKKSYINRTGTFEFTSFFYRYG FVANFSME
LPSFGVSGINESADMSIGVTVIKNNMINNDLGPATAQMALQLFIKDYRYT YRCHRGDT
QIQTRRSFELKKLWEQTRSKAGLLVSDGGPNLYNIRNLHIPEVCLKWELM DKDYQGRL
CNPLNPFVSHKEIESVNNAVVMPAHGPAKSMEYDAVATTHSWIPKRNRSI LNTSQRGI
LEDEQMYQKCCNLFEKFFPSSSYRRPVGISSMVEAMVSRARIDARIDFES GRIKKEEF
AEIMKICSTIEELRRPK"
ORIGIN
1 caaaccattt gaatggatgt caatccgact ttacttttct tgaaagtacc agtgcaaaat
61 gctataagta ccacattccc ttatactgga gaccctccat acagccatgg gacagggaca
121 ggatacacca tggacacagt caacagaaca caccaatatt cagaaaaggg gaagtggaca
181 acaaacacag agactggagc accccaactc aacccgattg atggaccact acctgaggat
241 aatgagccca gtggttatgc acaaacagat tgtgtattgg aagcaatggc tttccttgaa
301 gaatcccacc cagggatctt tgaaaactcg tgtcttgaaa cgatggaaac tgttcaacaa
361 acaagagtgg ataaactgac ccaaggccgt cagacctatg actggacatt gaatagaaac
421 caaccagctg caaccgcttt ggctaacact atagaaatct tcagatcgaa cggtctaaca
481 gccaatgaat cgggacggct aatagatttc ctcaaggatg tgatggaatc aatggataag
541 gaagaaatgg aaataacaac acatttccag agaaagagaa gagtgagaga caacatgacc
601 aaaaagatgg tcacacaaag aacaataggg aagaaaaaac aaaggctgaa caaaaagagc
661 tacctgataa gagcactgac actgaataca atgacaaaag atgcagaaag aggcaaattg
721 aagaggcgag caattgcaac acccggaatg caaatcagag gattcgtgta ctttgttgaa
781 acattagcga ggagtatctg tgagaaactt gagcaatctg gactcccagt tggagggaat
841 gagaagaagg ctaaattggc aaacgtcgtg aggaagatga tgactaactc acaagatact
901 gaactctcct ttacaattac tggagacaat actaaatgga atgagaatca gaatcctagg
961 atgtttctag caatgataac atacatcaca aggaaccagc cagaatggtt tcggaatgtc
1021 ttaagtattg cccctataat gttctcaaac aaaatggcaa gattaggaag aggatacatg
1081 ttcgaaagta agagcatgaa gttgcgaaca caaataccag cagaaatgct tgcaaacatt
1141 gatcttaaat acttcaatga attaacgaaa aagaaaattg aaaaaataag acctctatta
1201 atagatggca cagcctcatt gagccctgga atgatgatgg gcatgttcaa catgctgagt
1261 acagttctgg gagtctcaat cttgaacctt ggacagaaaa ggtacaccaa aaccacatat
1321 tggtgggacg gactccaatc ctctgatgat ttcgctctca tcgtaaatgc accgaatcat
1381 gagggaatac aagccggagt ggatagattt tataggactt gtaaattagt tggaatcaac
1441 atgagcaaga agaagtctta cataaatcgg acagggacat ttgaattcac gagctttttc
1501 taccgctatg gatttgtagc caatttcagt atggagctgc ccagttttgg agtgtctgga
1561 attaatgaat cggccgacat gagcattggt gttacagtga taaagaacaa tatgataaac
1621 aacgaccttg ggccagcaac agctcagatg gctcttcagc tattcatcaa ggactacaga
1681 tacacatacc gttgccacag aggggatacg cagatccaaa cgaggagatc attcgagctg
1741 aagaagctgt gggagcaaac ccgttcaaag gcaggactgt tggtttcaga tggaggacca
1801 aatctataca atatccgaaa tctccatatt cctgaggtct gcttgaaatg ggaattgatg
1861 gataaagatt accagggcag actgtgcaat cctctgaatc cgttcgtcag ccataaggaa
1921 attgaatctg tcaacaatgc tgtagtaatg ccagctcatg gcccggccaa gagtatggaa
1981 tatgatgccg ttgcaactac gcattcatgg attcctaaaa ggaatcgttc cattctcaat
2041 acgagtcaaa ggggaattct tgaggatgaa cagatgtacc agaagtgctg caatctattc
2101 gagaaattct tccccagcag ttcatatcgg aggccagttg gaatttccag tatggtggag
2161 gccatggtgt ctagggctcg aattgacgca cgaattgatt tcgagtctgg aaggattaag
2221 aaagaagagt ttgctgagat catgaagatc tgttccacca ttgaagagct cagacggcca
2281 aaatagtgaa tttagcttgt ccttcgtgaa aaaatg
23: EU486855 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203843) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203843))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203843);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) hemagglutinin (HA) gene, complete cds
gi168203843gbEU486855.1[168203843]
24: EU486854 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203841) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203841))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203841);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) neuraminidase (NA) gene, complete cds
gi168203841gbEU486854.1[168203841]
25: EU486853 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203838) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203838))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203838);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) membrane ion channel M2 (M) and matrix protein 1 (M) genes, complete cds
gi168203838gbEU486853.1[168203838]
26: EU486852 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203835) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203835))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203835);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) nonstructural protein 2 (NS2) and nonstructural protein 1 (NS1) genes, complete cds
gi168203835gbEU486852.1[168203835]
27: EU486851 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203833) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203833))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203833);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) nucleoprotein(NP) gene, complete cds
gi168203833gbEU486851.1[168203833]
28: EU486850 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203831) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203831))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203831);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase acidic protein (PA) gene, complete cds
gi168203831gbEU486850.1[168203831]
29: EU486849 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203829) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203829))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203829);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase basic protein 1 (PB1) gene, complete cds
gi168203829gbEU486849.1[168203829]
30: EU486848 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=168203827) http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Reports (javascript:PopUpMenu2_Set(Reports168203827))http://www.ncbi.nlm.nih.gov/coreweb/images/tabs/pixel.gif
Links (javascript:PopUpMenu2_Set(Menu168203827);)Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase basic protein 2 (PB2) gene, complete cds
gi168203827gbEU486848.1[168203827]
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) polymerase
acidic protein (PA) gene, complete cds.
ACCESSION EU486850
VERSION EU486850.1 GI:168203831
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 2208)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..2208
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="3"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203831&from=13&to=2163&view=gbwithparts) 13..2163
/gene="PA"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203831&from=13&to=2163&view=gbwithparts) 13..2163
/gene="PA"
/codon_start=1
/product="polymerase acidic protein"
/protein_id="ACA21684.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21684.1)"
/db_xref="GI:168203832"
/translation="MEDFVRQCFNPMIVELAEKAMKEYGEDPKIETNKFAAICTHLEV
CFMYSDFHFIDERSESIIVESGDPNALLKHRFEIIEGRDRTMAWTVVNSI CNTTGVEK
PKFLPDLYDYKENRFIEIGVTRREVHTYYLEKANKIKSEKTHIHIFSFTG EEMATKAD
YTLDEESRARVKTRLFTIRQEMASRGLWDSFRQSERGEETIEEKFEITGT MRRLADQS
LPPNFSSLENFRAYVDGFEPNGCIEGKLSQMSKEVNARIEPFLKTTPRPL KLPDGPPC
SQRSKFLLMDALKLSIEDPSHEGEGIPLYDAIKCMKTFFGWKEPNIVKPH EKGINPNY
LLTWKQVLAELQDIENEEKIPKTKNMKKTSQLRWALGENMAPEKVDFEDC KDVSDLRQ
YDSDEPESRSLASWIQSEFNKACELTDSSWIELDEIGEDVAPIEHIASMR RNYFTAEV
AHCRATEYIMKGVYINTALLNASCAAMDDFQLIPMISKCRTKEGRRKTNL YGFIIKGR
SHLRNDTDVVNFVSMEFSLTDPRLEPHKWEKYCVLEIGDMLLRTAIGQVS RPMFLYVR
TNGTSKIKMKWGMEMRRCLLQSLQQIESMIEAESSVKEKDMTKEFFENKS ETWPIGES
PKGVEEGSIGKVCRTLLAKSVFNSLYASSQLEGFSAESRKLLLIAQALRD NLEPGTFD
LGGLYEAIEECLINDPWVLLNASWFNSFLAHALK"
ORIGIN
1 tactgattca aaatggaaga ttttgtgcga caatgcttca atccaatgat tgtcgagctt
61 gcggaaaagg caatgaaaga atatggggaa gacccgaaaa tcgaaacgaa caaatttgct
121 gcaatatgca cacacttgga ggtctgcttc atgtattcgg attttcactt tattgatgaa
181 cggagtgaat caataattgt agaatctgga gatccgaacg cattattaaa acaccgattt
241 gaaataattg aaggaagaga ccgaacgatg gcctggactg tggtgaatag tatttgcaac
301 accacaggag tcgagaaacc taaatttctc ccagatttgt atgactacaa agagaaccga
361 ttcattgaaa ttggggtgac acggagggaa gttcatacat actatctgga gaaggccaac
421 aagataaaat ccgagaagac acatattcac atattctcat tcacagggga ggaaatggca
481 accaaagcgg actacaccct tgatgaagag agcagggcaa gagttaaaac caggctgttc
541 accataagac aggaaatggc cagtaggggt ttatgggatt cctttcgtca atccgagaga
601 ggcgaagaga caattgaaga aaaatttgag atcactggaa ccatgcgcag acttgccgac
661 caaagtctcc caccgaactt ctccagcctt gaaaacttta gagcctatgt ggatggattc
721 gaaccgaacg gctgcattga gggcaagctt tctcaaatgt caaaagaagt gaatgctaga
781 attgagccat ttttgaagac aacgccacgc cctctcaagt tacctgatgg gcctccttgc
841 tctcagcggt cgaaattcct gctgatggat gcccttaaat taagtattga agacccgagt
901 catgaggggg aggggatacc actatacgat gcaatcaaat gcatgaagac atttttcggg
961 tggaaggagc ccaacatcgt gaaaccacat gaaaagggta taaaccccaa ttacctcctg
1021 acttggaagc aagtgctggc agaactccaa gatattgaaa atgaggagaa aatccccaaa
1081 acaaagaaca tgaaaaaaac aagccagttg aggtgggcac tcggtgagaa catggcacca
1141 gagaaagtag actttgagga ctgcaaagac gttagcgatc taagacagta tgacagtgat
1201 gaaccagaat ctagatcact agcaagctgg attcagagtg aattcaacaa ggcatgtgaa
1261 ttgacagact cgagttggat tgaacttgat gaaataggag aggatgttgc tccaattgag
1321 cacattgcaa gtatgagaag gaactatttt acagcggaag tagcccattg cagagccact
1381 gaatacataa tgaagggagt gtacataaac acagccctgt tgaatgcatc ctgtgcagcc
1441 atggatgact ttcaactgat tccaatgata agcaaatgca gaaccaaaga aggaagacgg
1501 aaaactaatc tgtatggatt cattataaaa ggaagatccc acttaaggaa tgataccgat
1561 gtggtaaatt ttgtgagtat ggaattctct cttactgatc cgaggttgga gccacacaaa
1621 tgggaaaagt actgtgtcct cgagatagga gacatgctcc tccggactgc aataggtcaa
1681 gtttcaaggc ccatgttcct gtatgtgaga accaacggaa cctccaagat caaaatgaaa
1741 tggggcatgg aaatgagacg atgccttctt caatcccttc aacaaattga aagcatgatt
1801 gaagccgaat cttctgtcaa agaaaaggac atgaccaaag aattctttga aaacaaatca
1861 gaaacatggc cgatcggaga atcccccaaa ggagtggagg aaggctccat cggaaaggtg
1921 tgcagaacct tgctggcgaa gtctgtgttc aacagtttat atgcatcttc acaactcgag
1981 ggtttttcag ctgaatcaag aaaattgctt ctcattgctc aggcacttag ggacaacctg
2041 gaacctggga ccttcgatct tggagggcta tatgaagcaa ttgaggagtg cctgattaac
2101 gatccctggg ttttgcttaa tgcatcttgg ttcaactcct tcctcgcaca tgcactgaaa
2161 tagttggggc aatgctacta cttgctatcc atactgtcca aaaaagta
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1))
hemagglutinin (HA) gene, complete cds.
ACCESSION EU486855
VERSION EU486855.1 GI:168203843
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1754)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..1754
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="4"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203843&from=17&to=1723&view=gbwithparts) 17..1723
/gene="HA"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203843&from=17&to=1723&view=gbwithparts) 17..1723
/gene="HA"
/codon_start=1
/product="hemagglutinin"
/protein_id="ACA21691.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21691.1)"
/db_xref="GI:168203844"
/translation="MEKIVLLLAIVSLVKSDQICIGYHANNSTEHVDTIMEKNVTVTH
AQDILEKAHNGRLCDLDGVKPLILRDCSVAGWLLGNPMCDEFLNVPEWSY IVEKNNPA
NDLCYPGNFNDYEELKHLLSRINHFEKIQIIPKSSWSDHEASSGVSSACP YQGRSSFF
RNVVWLIKKNDAYPTIKRSYNNTNQEDLLVLWGIHHPNDAAEQTRLYQNP TTYISVGT
STLNQRLVPKIATRSKVNGQSGRMEFFWTILKPNDAINFESNGNFIAPEN AYKIVKKG
DSTIMKSELEYGNCNTKCQTPIGAINSSMPFHNIHPLTIGECPKYVKSNR LVLATGLR
NSPQGERRRKKRGLFGAIAGFIEGGWQGMVDGWYGYHHSNEQGSGYAADK ESTQKAID
GVTNKVNSIIDKMNTQFEAVGREFNNLERRIENLNKKMEDGFLDVWTYNA ELLVLMEN
ERTLDFHDSNVKNLYDKVRLQLRDNAKELGNGCFEFYHRCDNECMESVRN GTYDYPQY
SEEARLKREEISGVKLESIGTYQILSIYSTVASSLALAIMVAGLSLWMCS NGSLQCRI
CI"
ORIGIN
1 ggtccaatct gtcaaaatgg agaaaatagt gcttcttctt gcaatagtca gtcttgttaa
61 aagtgatcag atttgcattg gttaccatgc aaacaactcg acagagcatg ttgacacaat
121 aatggaaaag aacgtcactg ttacacacgc ccaagatata ctggaaaagg cacacaacgg
181 gaggctctgc gatctagacg gagtgaagcc tctaatctta agagattgta gtgtagctgg
241 atggctcctc gggaacccaa tgtgtgacga attcctcaat gtgccggaat ggtcttatat
301 agtggagaag aacaatccag ccaatgacct ctgttaccca gggaatttca acgactatga
361 agaattgaaa cacctattga gcagaataaa ccattttgag aaaattcaga tcatccccaa
421 aagttcttgg tcggatcatg aagcctcatc aggggtgagc tcagcatgtc cataccaggg
481 aaggtcctcc ttttttagaa atgtggtatg gcttatcaaa aagaacgatg catatccaac
541 aataaagaga agttacaata ataccaacca agaagatctt ttggtactat gggggattca
601 ccatccaaat gatgcggcag agcagacaag gctctatcaa aacccaacca cctatatttc
661 cgttgggaca tcaacactaa accagagatt ggtaccaaaa atagctacta gatccaaggt
721 aaacgggcaa agtggaagga tggagttctt ttggacaatt ttaaaaccga atgatgcaat
781 aaactttgag agtaatggaa atttcattgc tccagaaaat gcatacaaaa ttgtcaagaa
841 aggggactca acaatcatga aaagtgaatt ggaatatggt aattgcaaca ccaagtgtca
901 aactccaata ggggcgataa actctagtat gccattccac aacatccacc ctctcaccat
961 cggggaatgc cccaaatatg tgaaatcaaa cagattagtc cttgcgactg ggctcagaaa
1021 tagccctcaa ggagagagaa gaagaaaaaa gagagggcta tttggagcta tagcaggttt
1081 tatagaggga ggatggcagg gaatggtaga tggttggtat gggtatcacc atagcaacga
1141 gcaggggagt gggtacgctg cagacaaaga atccactcaa aaggcaatag atggagtcac
1201 caataaggtc aactcgatca ttgacaaaat gaacactcag tttgaggcag ttggaaggga
1261 atttaataac ttagaaagga gaatagaaaa tttaaacaag aagatggaag acggattcct
1321 agatgtctgg acttataatg ctgaacttct ggttctcatg gaaaatgaga gaactctaga
1381 ctttcatgac tcaaatgtca agaaccttta cgacaaggtc cgactacagc ttagggataa
1441 tgcaaaggag cttggtaacg gttgtttcga gttctatcac agatgtgata atgaatgtat
1501 ggaaagtgtg agaaacggaa cgtatgacta cccgcagtat tcagaagaag caagattaaa
1561 aagagaggaa ataagtggag taaaattaga atcaatagga acttaccaaa tactgtcaat
1621 ttattcaaca gtggcgagct ccctagcact ggcaatcatg gtggctggtc tatctttatg
1681 gatgtgctcc aatggatcgt tacaatgcag aatttgcatt taaatttgtg agttcagatt
1741 gtagttaaaa acac
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1)) membrane
ion channel M2 (M) and matrix protein 1 (M) genes, complete cds.
ACCESSION EU486853
VERSION EU486853.1 GI:168203838
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1002)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..1002
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="7"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203838&from=14&to=995&view=gbwithparts) 14..995
/gene="M2"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203838&itemID=2&view=gbwithparts) join(14..39,728..995)
/gene="M2"
/codon_start=1
/product="membrane ion channel"
/protein_id="ACA21689.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21689.1)"
/db_xref="GI:168203840"
/translation="MSLLTEVETPTRNEWECRCSDSSDPLVVAASIIGILHLILWILD
RLFFKCIYRRLKYGLKRGPSTEGIPESMREEYRQEQRNAVDVDDGHFVNI ELE"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203838&from=14&to=772&view=gbwithparts) 14..772
/gene="M1"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203838&from=14&to=772&view=gbwithparts) 14..772
/gene="M1"
/codon_start=1
/product="matrix protein 1"
/protein_id="ACA21688.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21688.1)"
/db_xref="GI:168203839"
/translation="MSLLTEVETYVLSIIPSGPLKAEIAQKLEDVFAGKNTDLEALME
WLKTRPILSPLTKGMLGFVFTLTVPSERGLQRRRFVQNALNGNGDPNNMD RAVKLYKK
LKREITFHGAKEVALSYSTGALASCMGLIYNRMGTVTTEVAFGLVCATCE QIADSQHR
SHRQMATITNPLIRHENRMVLASTTAKAMEQMAGSSEQAAEAMEVANQAR QMVQAMRT
IGTHPNSSAGLRDNLLENLQAYQKRMGVQMQRFK"
ORIGIN
1 tagatgttga aagatgagtc ttctaaccga ggtcgaaacg tacgttctct ctatcatccc
61 gtcaggcccc ctcaaagccg agatcgcgca gaaacttgaa gatgtctttg caggaaagaa
121 caccgatctc gaggctctca tggagtggct aaagacaaga ccaatcctgt cacctttgac
181 taaagggatg ttgggatttg tattcacgct caccgtgccc agtgagcgag gactgcagcg
241 tagacgcttt gtccagaatg ccctaaatgg aaatggagat ccaaataata tggatagggc
301 agtcaagcta tataagaagc tgaaaagaga aataacattc catggggcta aggaggtcgc
361 actcagctac tcaaccggtg cactcgccag ttgcatgggt ctcatataca acagaatggg
421 cacagtgact acggaagtgg cttttggcct agtgtgtgcc acttgtgagc agattgcaga
481 ttcacagcat cggtctcaca gacagatggc aactatcacc aacccactaa tcaggcatga
541 gaacagaatg gtgctggcca gcactacagc taaggctatg gagcagatgg cgggatcaag
601 tgagcaggca gcagaagcca tggaggtcgc taatcaggct aggcagatgg tgcaggcaat
661 gagaacaatt gggactcatc ctaactctag tgctggtctg agagacaatc ttcttgaaaa
721 tttgcaggcc taccagaaac gaatgggagt gcagatgcag cgattcaagt gatcctcttg
781 ttgttgccgc aagtatcatt gggatcttgc acttgatatt gtggattctt gatcgtcttt
841 tcttcaaatg catttatcgt cgccttaaat acggtttgaa aagagggcct tctacggaag
901 gaatacctga gtctatgagg gaagagtatc ggcaggaaca gcggaatgct gtggatgttg
961 acgatggtca ttttgtcaac atagaattgg agtaaaaaac ta
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1))
nonstructural protein 2 (NS2) and nonstructural protein 1 (NS1)
genes, complete cds.
ACCESSION EU486852
VERSION EU486852.1 GI:168203835
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 850)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..850
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="8"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203835&from=15&to=837&view=gbwithparts) 15..837
/gene="NS2"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203835&itemID=2&view=gbwithparts) join(15..44,502..837)
/gene="NS2"
/codon_start=1
/product="nonstructural protein 2"
/protein_id="ACA21687.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21687.1)"
/db_xref="GI:168203837"
/translation="MDSNTVSSFQDILMRMSKMQLASSSEDLNGMITQFESLKLYRDS
LGEALVRMGDFHSLQTRNGKWREQLSQKFEEIRWLIEEIRHRLKITENSF EQITFMQA
LQLLLEVEQEIRTFSFQLI"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203835&from=15&to=692&view=gbwithparts) 15..692
/gene="NS1"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203835&from=15&to=692&view=gbwithparts) 15..692
/gene="NS1"
/codon_start=1
/product="nonstructural protein 1"
/protein_id="ACA21686.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21686.1)"
/db_xref="GI:168203836"
/translation="MDSNTVSSFQVDCFLWHVRKRFADQELGDAPFLDRLRRDQKSLR
GRGNTLGLDIETATRAGKQIVERILEEESDEALKMPASRYLTDMTLEEMS RDWFMLMP
KQKVTGSLCIKMDQAIMDKTIILKANFSVIYDRLETLILLRAFTEEGAIV GEISPLPS
LPGHTNEDVKNAIGVLIGGLEWNDNTVRVSEIIQRFAWRSIGEDGRLPLP PDQKRKMA
RTIESKV"
ORIGIN
1 gtgacaaaaa cataatggat tccaacactg tgtcaagctt tcaggtagac tgctttcttt
61 ggcatgtccg caaacgattt gcagaccaag aactgggtga tgccccattc cttgaccggc
121 ttcgccgaga tcagaagtcc ctaagaggaa gaggcaacac tcttggtctg gacatcgaaa
181 cagctactcg tgcgggaaag cagatagtag agcgaattct ggaggaggag tctgatgagg
241 cacttaaaat gccagcttca cgctacttaa ctgatatgac tctcgaggaa atgtcaaggg
301 actggttcat gctcatgcct aagcagaaag tgacaggttc cctttgcatc aaaatggacc
361 aggcaataat ggataagacc atcatattga aagcaaactt cagtgtgatt tatgaccggt
421 tagagaccct aatactactt agagctttca cagaagaagg agcaatcgtg ggagaaatct
481 caccattacc ttctcttcca ggacatacta atgaggatgt caaaaatgca attggcgtcc
541 tcatcggagg acttgaatgg aatgataaca cagttcgagt ctctgaaatt atacagagat
601 tcgcttggag aagcattggt gaggatggga gacttccact ccctccagac cagaaacgga
661 aaatggcgag aacaattgag tcaaaagttt gaagaaataa ggtggctgat tgaagaaata
721 cgacatagat tgaaaattac agaaaacagc ttcgaacaga taacgtttat gcaagcctta
781 caactactgc ttgaagtgga gcaagagata agaaccttct cgtttcagct tatttagtaa
841 taaaaaacac
called *39,*35,*22-1 is a bit unusual.
First *22-1 has fewer mutations from original Qinghai than expected.
Only 103 mutations for *22-1 as compared to 125 for *35 and 125 for *39 too.
The counts of nucleotide-differences in *39 from original Qinghai which do not occur in *22-1
for the 8 segments are: 12+0+9+2+1+8+2+0.
While the other way round the counts of nucleotide-differences from original Qinghai which
are in *22-1 but not in *39 for the 8 segments are: 1+6+1+2+1+2+1+0
This all happens on the genetical background of 13+13+9+14+11+4+3+5=72
mutations distant from original Qinghai, which are common to all Moscow and Rostov viruses,
which let us name "BWR" for "basic West-Russia".
*39 has 53=16+4+10+6+3+9+3+2 differences from BWR, while *22-1 has 31=5+10+2+6+3+3+2+0
This may indicate reassortment where *39 got segments 1,3,6 and *22-1 got segment 2 from
a more mutated variant and the other segments from a more preserved virus (this is rare,
but apparantly happens occasionally, as in England/Hungary Feb.2007)
Please. They are different locations and different introductions. The Rostove isolates are all clade 2.2.3, but the "on-Dom" sequences are different and match each other.
H5N1 evolves via recombination, which is why the same NA change G743A is on multiple genetic backgrounds.
DEFINITION Influenza A virus (A/pigeon/Rostov-on-Don/6/2007(H5N1))
hemagglutinin (HA) gene, complete cds.
ACCESSION EU441937
VERSION EU441937.1 GI:168445542
KEYWORDS .
SOURCE Influenza A virus (A/pigeon/Rostov-on-Don/6/2007(H5N1))
ORGANISM Influenza A virus (A/pigeon/Rostov-on-Don/6/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=501226)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1754)
AUTHORS Poglazov,A.B., Shlyapnikova,O.V. and Prilipov,A.G.
TITLE Influenza A virus (A/pigeon/Rostov-on-Don/6/07(H5N1)) hemagglutinin
(HA)
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 1754)
AUTHORS Poglazov,A.B., Shlyapnikova,O.V. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (04-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU441930-EU441937 represent sequences
from the 8 segments of Influenza A virus
(A/pigeon/Rostov-on-Don/6/2007(H5N1)).
FEATURES Location/Qualifiers
source 1..1754
/organism="Influenza A virus
(A/pigeon/Rostov-on-Don/6/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/pigeon/Rostov-on-Don/6/2007"
/serotype="H5N1"
/db_xref="taxon:501226 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=501226)"
/country="Russia: farmstead Gulyaj-Borisovka,
Zernogradskij district, Rostov region"
/collection_date="14-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168445542&from=17&to=1723&view=gbwithparts) 17..1723
/gene="HA"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168445542&from=17&to=1723&view=gbwithparts) 17..1723
/gene="HA"
/codon_start=1
/product="hemagglutinin"
/protein_id="ACA23997.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA23997.1)"
/db_xref="GI:168445543"
/translation="MEKIVLLLAIVSLVKSDQICIGYHANNSTEHVDTIMEKNVTVTH
AQDILEKAHNGRLCDLDGVKPLILRDCSVAGWLLGNPMCDEFLNVPEWSY IVEKNNPA
NDLCYPGNFNDYEELKHLLSRINHFEKIQIIPKSSWSDHEASSGVSSACP YQGRSSFF
RNVVWLIKKNDAYPTIKRSYNNTNQEDLLVLWGIHHPNDAAEQTRLYQNP TTYISVGT
STLNQRLVPKIATRSKVNGQSGRMEFFWTILKPNDAINFESNGNFIAPEN AYKIVKKG
DSTIMKSELEYGNCNTKCQTPIGAINSSMPFHNIHPLTIGECPKYVKSNR LVLATGLR
NSPQGERRRKKRGLFGAIAGFIEGGWQGMVDGWYGYHHSNEQGSGYAADK ESTQKAID
GVTNKVNSIIDKMNTQFEAVGREFNNLERRIENLNKKMEDGFLDVWTYNA ELLVLMEN
ERTLDFHDSNVKNLYDKVRLQLRDNAKELGNGCFEFYHRCDNECMESVRN GTYDYPQY
SEEARLKREEISGVKLESIGTYQILSIYSTVASSLALAIMVAGLSLWMCS NGSLQCRI
CI"
ORIGIN
1 ggtccaatct gtcaaaatgg agaaaatagt gcttcttctt gcaatagtca gtcttgttaa
61 aagtgatcag atttgcattg gttaccatgc aaacaactcg acagagcatg ttgacacaat
121 aatggaaaag aacgtcactg ttacacacgc ccaagatata ctggaaaagg cacacaacgg
181 gaggctctgc gatctagacg gagtgaagcc tctaatctta agagattgta gtgtagctgg
241 atggctcctc gggaacccaa tgtgtgacga attcctcaat gtgccggaat ggtcttatat
301 agtggagaag aacaatccag ccaatgacct ctgttaccca gggaatttca acgactatga
361 agaattgaaa cacctattga gcagaataaa ccattttgag aaaattcaga tcatccccaa
421 aagttcttgg tcggatcatg aagcctcatc aggggtgagc tcagcatgtc cataccaggg
481 aaggtcctcc ttttttagaa atgtggtatg gcttatcaaa aagaacgatg catatccaac
541 aataaagaga agttacaata ataccaacca agaagatctt ttggtactat gggggattca
601 ccatccaaat gatgcggcag agcagacaag gctctatcaa aacccaacca cctatatttc
661 cgttgggaca tcaacactaa accagagatt ggtaccaaaa atagctacta g
DEFINITION Influenza A virus (A/starling/Rostov-on-Don/39/07(H5N1))
nucleoprotein(NP) gene, complete cds.
ACCESSION EU486851
VERSION EU486851.1 GI:168203833
KEYWORDS .
SOURCE Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1))
ORGANISM Influenza A virus (A/starling/Rostov-on-Don/39/2007(H5N1)) (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)
Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
Influenzavirus A.
REFERENCE 1 (bases 1 to 1540)
AUTHORS Shlyapnikova,O.V., Poglazov,A.B. and Prilipov,A.G.
TITLE Direct Submission
JOURNAL Submitted (13-FEB-2008) Molecular Genetics, Ivanovsky Virology
Institute RAMS, Gamalei, 16, Moscow 123098, Russia
COMMENT GenBank Accession Numbers EU486848-EU486855 represent sequences
from the 8 segments of Influenza A virus
(A/starling/Rostov-on-Don/39/07(H5N1)).
FEATURES Location/Qualifiers
source 1..1540
/organism="Influenza A virus
(A/starling/Rostov-on-Don/39/2007(H5N1))"
/mol_type="viral cRNA"
/strain="A/starling/Rostov-on-Don/39/07"
/serotype="H5N1"
/db_xref="taxon:503649 (http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=503649)"
/segment="5"
/country="Russia: farmstead Gulyaj-Borisovka, district
Zernogradskij, Rostov"
/collection_date="15-Dec-2007"
gene (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203833&from=34&to=1530&view=gbwithparts) 34..1530
/gene="NP"
CDS (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=168203833&from=34&to=1530&view=gbwithparts) 34..1530
/gene="NP"
/codon_start=1
/product="nucleoprotein"
/protein_id="ACA21685.1 (http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=ACA21685.1)"
/db_xref="GI:168203834"
/translation="MASQGTKRSHEQMETGGERQNATEIRASVGRMISGIGRFYIQMC
TELKLSDYEGRLIQNSITIERMVLSAFDERRNRYLEEHPSAGKDPRKTGG PIYRRRDG
KWVRELILYDKEEIRRIWRQANNGEDATAGLTHLMIWHSNLNDATYQRTR ALVRTGMD
PRMCSLMQGSTLPRRSGAAGAAVKGVGTMVMELIRMIKRGINDRNFWRGE NGRRTRIA
YERMCNILKGKFQTAAQRAMMDQVRESRNPGNAEIEDLIFLARSALILRG SVAHKSCL
PACVYGLAVASGYDFEREGYSLVGIDPFRLLQNSQVFSLIRPNENPTHKS QLVWMACH
SAAFEDLRVSSFIRGTRVVPRGQLSTRGVQIASNENMETMDSNTLELRSR YWAIRTRS
GGNTSQQRASAGQISIQPTFSVQRNLPFERATIMAAFTGNTEGRTSDMRT EIIRMMES
ARPEDVSFQGRGVFELSDEKATNPIVPSFDMNNEGSYFFGDNAEEYDN"
ORIGIN
1 gtagataatc actcaccgag tgacatcaac atcatggcgt ctcaaggcac caaacgatct
61 catgaacaga tggaaactgg tggagaacgc cagaatgcta ctgagatcag ggcatctgtt
121 ggaagaatga ttagtggtat cgggaggttc tacatacaga tgtgcacaga actcaaactc
181 agtgactatg aagggaggct tatccagaac agcataacaa tagagagaat ggtgctctct
241 gcatttgatg aacgaaggaa cagatacctg gaagaacacc ccagtgcggg gaaggacccg
301 aggaaaactg gaggtccaat ttataggagg agagacggga aatgggtgag agagctgatt
361 ctgtacgaca aagaggagat caggaggatt tggcgtcaag cgaacaatgg agaggacgca
421 actgctggtc tcacccacct gatgatatgg cattccaatc taaatgatgc cacatatcag
481 agaacgagag ctctcgtacg tactggaatg gaccccagga tgtgctctct gatgcaaggg
541 tcaactctcc cgaggagatc tggagctgcc ggtgcagcag tgaagggagt agggacaatg
601 gtgatggagc tgattcggat gataaaacga gggatcaacg accggaattt ctggagaggc
661 gaaaatggaa gaagaacaag gattgcatac gagagaatgt gcaacatcct caaagggaaa
721 ttccaaacag cagcacaaag agcaatgatg gatcaggtgc gagagagcag aaatcccggg
781 aatgctgaaa ttgaagatct catttttctg gcacggtctg cactcatcct gagaggatca
841 gtagcccata agtcctgctt gcctgcttgt gtgtacggac ttgctgttgc cagtggatat
901 gactttgaga gagaaggata ttctctggtt ggaatagatc ctttccgtct gcttcaaaac
961 agccaggtct ttagtctcat tagaccaaat gagaatccaa cacataagag tcaattagtg
1021 tggatggcat gccactctgc agcatttgag gaccttagag tctcaagttt catcagaggg
1081 acaagagtgg tcccaagagg acagctatcc accagagggg ttcaaattgc ttcaaatgag
1141 aacatggaaa caatggactc caacactctt gaactgagaa gtagatattg ggctataaga
1201 accagaagcg gaggaaacac cagccagcag agggcatctg caggacagat aagcattcag
1261 cccactttct cggtacagag aaaccttccc ttcgaaagag cgaccattat ggcagcattc
1321 acaggaaata ccgagggcag aacgtctgac atgagaactg aaatcataag aatgatggaa
1381 agtgccagac cagaagatgt gtcattccag gggcggggag tcttcgagct ctcggacgaa
1441 aaggcaacga acccgatcgt gccttccttt gacatgaata atgaaggatc ttatttcttc
1501 ggagacaatg cagaggagta tgacaattaa agaaaaatac
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