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GenBank sequences from pandemic (H1N1) 2009 viruses


All submitted influenza sequences are available in GenBank as soon as they are processed. The pandemic (H1N1) 2009 virus sequences are listed on this page and are available for BLAST searching here, and are also available in the NCBI Influenza Virus Sequence Database, and can be retrieved with sequences from other influenza viruses for further analyses using tools integrated to the database. Go to a tutorial for instructions downloading these sequences. A complete list of GenBank sequences for these viruses can also be obtained through a special genome project page or directly from here. The result of RPS-BLAST against PDB database, and a summary of amino acid differences in proteins of these viruses are available at Riken National Institute of Japan.

The following pandemic (H1N1) 2009 virus sequences were submitted to NCBI and are available in GenBank:

2009 Flu Info

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July 15, 2009, 13 submitted by CDC; 74 by Hospital Clinic, Spain:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Catalonia/401/2009(H1N1)) GQ379863
Influenza A virus
(A/Catalonia/403/2009(H1N1)) GQ379825 GQ379864
Influenza A virus
(A/Catalonia/405/2009(H1N1)) GQ379826 GQ379865
Influenza A virus
(A/Catalonia/408/2009(H1N1)) GQ379827 GQ379866
Influenza A virus
(A/Catalonia/410/2009(H1N1)) GQ379828 GQ379867
Influenza A virus
(A/Catalonia/412/2009(H1N1)) GQ379829 GQ379868
Influenza A virus
(A/Catalonia/414/2009(H1N1)) GQ379830
Influenza A virus
(A/Catalonia/417/2009(H1N1)) GQ379831 GQ379869
Influenza A virus
(A/Catalonia/423/2009(H1N1)) GQ379832 GQ379870
Influenza A virus
(A/Catalonia/442/2009(H1N1)) GQ379833 GQ379871
Influenza A virus
(A/Catalonia/443/2009(H1N1)) GQ379834 GQ379872
Influenza A virus
(A/Catalonia/456/2009(H1N1)) GQ379835 GQ379873
Influenza A virus
(A/Catalonia/458/2009(H1N1)) GQ379836 GQ379874
Influenza A virus
(A/Catalonia/467/2009(H1N1)) GQ379837 GQ379875
Influenza A virus
(A/Catalonia/470/2009(H1N1)) GQ379838 GQ379876
Influenza A virus
(A/Catalonia/475/2009(H1N1)) GQ379839 GQ379877
Influenza A virus
(A/Catalonia/476/2009(H1N1)) GQ379840 GQ379878
Influenza A virus
(A/Catalonia/478/2009(H1N1)) GQ379841 GQ379879
Influenza A virus
(A/Catalonia/479/2009(H1N1)) GQ379842 GQ379880
Influenza A virus
(A/Catalonia/480/2009(H1N1)) GQ379843 GQ379881
Influenza A virus
(A/Catalonia/481/2009(H1N1)) GQ379844 GQ379882
Influenza A virus
(A/Catalonia/482/2009(H1N1)) GQ379845
Influenza A virus
(A/Catalonia/483/2009(H1N1)) GQ379846
Influenza A virus
(A/Catalonia/490/2009(H1N1)) GQ379847 GQ379883
Influenza A virus
(A/Catalonia/496/2009(H1N1)) GQ379848 GQ379884
Influenza A virus
(A/Catalonia/497/2009(H1N1)) GQ379849 GQ379885
Influenza A virus
(A/Catalonia/498/2009(H1N1)) GQ379850 GQ379886
Influenza A virus
(A/Catalonia/500/2009(H1N1)) GQ379851 GQ379887
Influenza A virus
(A/Catalonia/502/2009(H1N1)) GQ379852 GQ379888
Influenza A virus
(A/Catalonia/503/2009(H1N1)) GQ379853 GQ379889
Influenza A virus
(A/Catalonia/508/2009(H1N1)) GQ379854 GQ379890
Influenza A virus
(A/Catalonia/510/2009(H1N1)) GQ379855 GQ379891
Influenza A virus
(A/Catalonia/517/2009(H1N1)) GQ379856 GQ379892
Influenza A virus
(A/Catalonia/518/2009(H1N1)) GQ379857 GQ379893
Influenza A virus
(A/Catalonia/519/2009(H1N1)) GQ379858 GQ379894
Influenza A virus
(A/Catalonia/521/2009(H1N1)) GQ379859 GQ379895
Influenza A virus
(A/Catalonia/522/2009(H1N1)) GQ379860 GQ379896
Influenza A virus
(A/Catalonia/523/2009(H1N1)) GQ379861 GQ379897
Influenza A virus
(A/Catalonia/551/2009(H1N1)) GQ379862 GQ379898
Influenza A virus
(A/Mexico/3955/2009(H1N1)) GQ379821
Influenza A virus
(A/Mexico/4108/2009(H1N1)) GQ379815 GQ379812 GQ379814
Influenza A virus
(A/Mexico/4482/2009(H1N1)) GQ379819 GQ379820 GQ379817 GQ379818
Influenza A virus
(A/Mexico/4486/2009(H1N1)) GQ379824 GQ379816
Influenza A virus
(A/Mexico/4603/2009(H1N1)) GQ379813
Influenza A virus
(A/Mexico/InDRE4114/2009(H1N1)) GQ379822 GQ379823

July 14, 2009, 4 submitted by University of Milan, Italy; 82 by CDC; 2 by National Virus Reference Laboratory, Ireland; 8 by Federal Service for Surveillance on Consumer Rights Protection and Human Well-Being, Russia; 12 by National Institute of Infectious Diseases, Japan:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Alaska/04/2009(H1N1)) GQ377035 GQ377034 GQ377033
Influenza A virus
(A/Arizona/01/2009(H1N1)) GQ377066 GQ377065
Influenza A virus
(A/Arizona/05/2009(H1N1)) GQ377057 GQ377058
Influenza A virus
(A/California/04/2009(H1N1)) GQ377049
Influenza A virus
(A/California/07/2009(H1N1)) GQ377078
Influenza A virus
(A/California/08/2009(H1N1)) GQ377051 GQ377054 GQ377053 GQ377052 GQ377050
GQ377079
Influenza A virus
(A/California/12/2009(H1N1)) GQ377093 GQ377092 GQ377094
Influenza A virus
(A/California/19/2009(H1N1)) GQ377101 GQ377100
Influenza A virus
(A/California/20/2009(H1N1)) GQ377085 GQ377084
Influenza A virus
(A/California/24/2009(H1N1)) GQ377095
Influenza A virus
(A/Colorado/03/2009(H1N1)) GQ377090
Influenza A virus
(A/Dublin/11/2009(H1N1)) GQ375278
Influenza A virus
(A/Dublin/12/2009(H1N1)) GQ375279
Influenza A virus
(A/Illinois/02/2009(H1N1)) GQ377036
Influenza A virus
(A/Illinois/03/2009(H1N1)) GQ377059
Influenza A virus
(A/Italy/104/2009(H1N1)) GQ374890
Influenza A virus
(A/Italy/106/2009(H1N1)) GQ374891
Influenza A virus
(A/Italy/126/2009(H1N1)) GQ374892
Influenza A virus
(A/Italy/86/2009(H1N1)) GQ374889
Influenza A virus
(A/Iwate/1/2009(H1N1)) GQ375888 GQ375887 GQ375886 GQ375885 GQ375883 GQ375884
Influenza A virus
(A/Kansas/02/2009(H1N1)) GQ377055
Influenza A virus
(A/Massachusetts/06/2009(H1N1)) GQ377038 GQ377039
Influenza A virus
(A/Montana/07/2009(H1N1)) GQ377043 GQ377041 GQ377040 GQ377042
Influenza A virus
(A/Moscow/03/2009(H1N1)) GQ375281 GQ375282 GQ375283 GQ375284 GQ375285 GQ375286 GQ375287 GQ375288
Influenza A virus
(A/Nebraska/02/2009(H1N1)) GQ377082
Influenza A virus
(A/New York/09/2009(H1N1)) GQ377097 GQ377096
Influenza A virus
(A/New York/12/2009(H1N1)) GQ377032
Influenza A virus
(A/New York/13/2009(H1N1)) GQ377089
Influenza A virus
(A/New York/20/2009(H1N1)) GQ377076
Influenza A virus
(A/New York/25/2009(H1N1)) GQ377091
Influenza A virus
(A/New York/45/2009(H1N1)) GQ377103 GQ377102 GQ377104
Influenza A virus
(A/New York/59/2009(H1N1)) GQ377068 GQ377069 GQ377067 GQ377070
Influenza A virus
(A/Ohio/07/2009(H1N1)) GQ377080
GQ377099 GQ377081 GQ377056 GQ377098
Influenza A virus
(A/Ohio/11/2009(H1N1)) GQ377037
Influenza A virus
(A/Oregon/07/2009(H1N1)) GQ377087 GQ377086 GQ377088
Influenza A virus
(A/Osaka/180/2009(H1N1)) GQ375894 GQ375893 GQ375892 GQ375890 GQ375889 GQ375891
Influenza A virus
(A/South Carolina/13/2009(H1N1)) GQ377077
Influenza A virus
(A/Tennessee/07/2009(H1N1)) GQ377045 GQ377044
Influenza A virus
(A/Texas/04/2009(H1N1)) GQ377072 GQ377071 GQ377073
Influenza A virus
(A/Texas/06/2009(H1N1)) GQ377083
Influenza A virus
(A/Texas/20/2009(H1N1)) GQ377061 GQ377060 GQ377062
Influenza A virus
(A/Texas/39/2009(H1N1)) GQ377047 GQ377046
Influenza A virus
(A/Utah/04/2009(H1N1)) GQ377107 GQ377106 GQ377105
Influenza A virus
(A/Virginia/05/2009(H1N1)) GQ377064 GQ377063
Influenza A virus
(A/Washington/17/2009(H1N1)) GQ377048
Influenza A virus
(A/Washington/18/2009(H1N1)) GQ377075 GQ377074
Influenza A virus
(A/reassortant/IDCDC-RG18(Texas/05/2009 x Puerto Rico/8/1934)(H1N1)) GQ374893 GQ374894
Influenza A virus
(A/reassortant/IDCDC-RG20(Texas/05/2009 x Puerto Rico/8/1934)(H1N1)) GQ374895 GQ374896
Influenza A virus
(A/reassortant/IDCDC-RG22(Texas/05/2009 x Puerto Rico/8/1934)(H1N1)) GQ374897 GQ374898

July 13, 2009, 7 submitted by Ontario Agency for Health Protection and Promotion, Canada:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Toronto/3141/2009(H1N1)) GQ373259 GQ373260 GQ373261 GQ373262 GQ373263 GQ373264 GQ373265

July 10, 2009, 8 submitted by Fr.-Loeffler-Institut, Germany:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Regensburg/D6/2009(H1N1)) FN401581 FN401580 FN401579 FN401574 FN401577 FN401575 FN401576 FN401578

July 09, 2009, 24 submitted by Robert Koch Institute, Germany; 6 by Adolfo Lutz Institute, Brazil; 6 by The Swedish Institute for Infectious Disease Control, Sweden; 27 by National Centre for Foreign Animal Diseases, Canada:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Bayern/62/2009(H1N1)) GQ365655 GQ365656 GQ365657 GQ365658 GQ365659 GQ365660 GQ365661 GQ365662
Influenza A virus
(A/Brandenburg/19/2009(H1N1)) GQ365663 GQ365664 GQ365665 GQ365666 GQ365667 GQ365668 GQ365669 GQ365670
Influenza A virus
(A/Brandenburg/20/2009(H1N1)) GQ365671 GQ365672 GQ365673 GQ365674 GQ365675 GQ365676 GQ365677 GQ365678
Influenza A virus
(A/Distrito Federal/2611/2009(H1N1)) GQ368667 GQ368668
Influenza A virus
(A/Mato Grosso/2329/2009(H1N1)) GQ368665 GQ368666
Influenza A virus
(A/Sao Paulo/1454/2009(H1N1)) GQ368663
Influenza A virus
(A/Sao Paulo/2233/2009(H1N1)) GQ368664
Influenza A virus
(A/Stockholm/37/2009(H1N1)) GQ369275 GQ369276
Influenza A virus
(A/Stockholm/41/2009(H1N1)) GQ369279 GQ369278 GQ369280
Influenza A virus
(A/Stockholm/45/2009(H1N1)) GQ369277
Influenza A virus
(A/swine/Alberta/OTH-33-1/2009(H1N1)) GQ369403 GQ369404 GQ369405
Influenza A virus
(A/swine/Alberta/OTH-33-14/2009(H1N1)) GQ369415 GQ369416
Influenza A virus
(A/swine/Alberta/OTH-33-2/2009(H1N1)) GQ369406 GQ369407 GQ369408
Influenza A virus
(A/swine/Alberta/OTH-33-21/2009(H1N1)) GQ369417 GQ369418 GQ369419
Influenza A virus
(A/swine/Alberta/OTH-33-22/2009(H1N1)) GQ369420 GQ369421
Influenza A virus
(A/swine/Alberta/OTH-33-23/2009(H1N1)) GQ369422 GQ369423 GQ369424
Influenza A virus
(A/swine/Alberta/OTH-33-24/2009(H1N1)) GQ369425 GQ369426 GQ369427
Influenza A virus
(A/swine/Alberta/OTH-33-25/2009(H1N1)) GQ369428 GQ369429
Influenza A virus
(A/swine/Alberta/OTH-33-3/2009(H1N1)) GQ369409 GQ369410 GQ369411
Influenza A virus
(A/swine/Alberta/OTH-33-7/2009(H1N1)) GQ369412 GQ369413 GQ369414

July 08, 2009, 15 submitted by WHO Collaborating Centre for Reference and Research on Influenza, UK; 8 by WRAIR; 7 by Zhejiang University, China; 35 by The Swedish Institute for Infectious Disease Control, Sweden; 2 by Biogentec, Chile; 52 by National Institute of Infectious Diseases, Japan; 2 by Instituto Adolfo Lutz, Brazil :
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Akita/1/2009(H1N1)) GQ365417 GQ365416 GQ365415 GQ365410 GQ365413 GQ365412 GQ365411 GQ365414
Influenza A virus
(A/Castro/JXP/2009(H1N1)) GQ359772
Influenza A virus
(A/Fukushima/1/2009(H1N1)) GQ365425 GQ365424 GQ365423 GQ365418 GQ365421 GQ365420 GQ365419 GQ365422
Influenza A virus
(A/Israel/276/2009(H1N1)) CY041965 CY041966 CY041967 CY041968 CY041969 CY041970 CY041971 CY041972
Influenza A virus
(A/Israel/277/2009(H1N1)) CY041973 CY041974 CY041975
Influenza A virus
(A/Israel/70/2009(H1N1)) CY041976 CY041977 CY041978 CY041979
Influenza A virus
(A/Iwate/1/2009(H1N1)) GQ365426 GQ365427
Influenza A virus
(A/Iwate/2/2009(H1N1)) GQ365435 GQ365434 GQ365433 GQ365428 GQ365431 GQ365430 GQ365429 GQ365432
Influenza A virus
(A/Kagoshima/1/2009(H1N1)) GQ365443 GQ365442 GQ365441 GQ365436 GQ365439 GQ365438 GQ365437 GQ365440
Influenza A virus
(A/Osaka/180/2009(H1N1)) GQ365444 GQ365445*
Influenza A virus
(A/Puerto Montt/Bio87/2009(H1N1)) GQ359771
Influenza A virus
(A/Sao Paulo/2303/2009(H1N1)) GQ367490 GQ367491
Influenza A virus
(A/Sapporo/1/2009(H1N1)) GQ365453 GQ365452 GQ365451 GQ365446 GQ365449 GQ365448 GQ365447 GQ365450
Influenza A virus
(A/Stockholm/30/2009(H1N1)) GQ359769 GQ359770
Influenza A virus
(A/Stockholm/31/2009(H1N1)) GQ359765 GQ359766 GQ359767 GQ359768
Influenza A virus
(A/Stockholm/32/2009(H1N1)) GQ360064 GQ360066 GQ360065
Influenza A virus
(A/Stockholm/33/2009(H1N1)) GQ360060 GQ360062 GQ360061 GQ360063
Influenza A virus
(A/Stockholm/34/2009(H1N1)) GQ360059
Influenza A virus
(A/Stockholm/35/2009(H1N1)) GQ365368 GQ365370 GQ365369
Influenza A virus
(A/Stockholm/36/2009(H1N1)) GQ365366 GQ365365 GQ365367
Influenza A virus
(A/Stockholm/38/2009(H1N1)) GQ365680 GQ365681
Influenza A virus
(A/Stockholm/39/2009(H1N1)) GQ365688 GQ365687 GQ365689
Influenza A virus
(A/Stockholm/40/2009(H1N1)) GQ365682 GQ365683
Influenza A virus
(A/Stockholm/42/2009(H1N1)) GQ365363 GQ365364
Influenza A virus
(A/Stockholm/43/2009(H1N1)) GQ367304 GQ367303 GQ367305
Influenza A virus
(A/Stockholm/44/2009(H1N1)) GQ365685 GQ365684 GQ365686
Influenza A virus
(A/Utsunomiya/2/2009(H1N1)) GQ365454 GQ365461 GQ365460 GQ365455 GQ365458 GQ365457 GQ365456 GQ365459
Influenza A virus
(A/WRAIR/0573N/2009(H1N1)) CY041980 CY041981 CY041982 CY041983 CY041984 CY041985 CY041986 CY041987
Influenza A virus
(A/Zhejiang/DTID-ZJU01/2009(H1N1)) GQ359764 GQ359763 GQ359758 GQ359761 GQ359760 GQ359759 GQ359762
* This sequence has the H274Y mutation that might confer resistance to Oseltamivir.

July 07, 2009, 24 submitted by Hospital Clinic, Spain; 1 by Instituto Adolfo Lutz, Brazil:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Catalonia/385/2009(H1N1)) GQ355303 GQ355295 GQ355287
Influenza A virus
(A/Catalonia/386/2009(H1N1)) GQ355304 GQ355296 GQ355288
Influenza A virus
(A/Catalonia/387/2009(H1N1)) GQ355305 GQ355297 GQ355289
Influenza A virus
(A/Catalonia/390/2009(H1N1)) GQ355306 GQ355298 GQ355290
Influenza A virus
(A/Catalonia/394/2009(H1N1)) GQ355307 GQ355299 GQ355291
Influenza A virus
(A/Catalonia/397/2009(H1N1)) GQ355308 GQ355300 GQ355292
Influenza A virus
(A/Catalonia/398/2009(H1N1)) GQ355309 GQ355301 GQ355293
Influenza A virus
(A/Catalonia/399/2009(H1N1)) GQ355310 GQ355302 GQ355294
Influenza A virus
(A/Sao Paulo/2303/2009(H1N1)) GQ356787

July 06, 2009, 8 submitted by Beijing Institute of Microbiology and Epidemiology, China; 8 by University of Padova, Italy; 3 by Centre for Health Protection, Hong Kong; 2 by University of Florence, Italy; 8 by WRAIR:
PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Beijing/502/2009(H1N1)) GQ290112 GQ290111 GQ290105 GQ290106 GQ290109 GQ290107 GQ290108 GQ290110
Influenza A virus
(A/Firenze/10/2009(H1N1)) GQ351319 GQ351320
Influenza A virus
(A/Hong Kong/2369/2009(H1N1)) GQ351314 GQ351316* GQ351315
Influenza A virus
(A/Italy/85/2009(H1N1)) GQ351287 GQ351288 GQ351289 GQ351290 GQ351291 GQ351292 GQ351293 GQ351294
Influenza A virus
(A/Santo Domingo/572N/2009(H1N1)) CY041957 CY041958 CY041959 CY041960 CY041961 CY041962 CY041963 CY041964