GenBank sequences from 2009 H1N1 influenza outbreak
All submitted influenza sequences are available in GenBank as soon as they are processed. The 2009 H1N1 influenza 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.
The following 2009 H1N1 influenza virus sequences were submitted to NCBI and are available in GenBank:
May 06, 2009, 102 submitted by CDC:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/Arizona/01/2009(H1N1))GQ117067 GQ117063 GQ117064 GQ117066 GQ117065 Influenza A virus
(A/Arizona/02/2009(H1N1))GQ117076 GQ117075 GQ117079 GQ117074 GQ117077 GQ117078 Influenza A virus
(A/California/04/2009(H1N1))GQ117044 Influenza A virus
(A/California/14/2009(H1N1))GQ117035 GQ117034 GQ117037 GQ117040 GQ117033 GQ117036 GQ117039 GQ117038 Influenza A virus
(A/Colorado/03/2009(H1N1))GQ117119 GQ117117 GQ117118 Influenza A virus
(A/Indiana/09/2009(H1N1))GQ117093 GQ117095 GQ117097 GQ117092 GQ117094 GQ117096 Influenza A virus
(A/Kansas/02/2009(H1N1))GQ117059 GQ117057 GQ117058 Influenza A virus
(A/Kansas/03/2009(H1N1))GQ117062 GQ117060 GQ117061 Influenza A virus
(A/Massachusetts/06/2009(H1N1))GQ117043 GQ117041 GQ117042 Influenza A virus
(A/Massachusetts/07/2009(H1N1))GQ117103 GQ117101 GQ117102 Influenza A virus
(A/Michigan/02/2009(H1N1))GQ117109 GQ117112 GQ117107 GQ117108 GQ117111 GQ117110 Influenza A virus
(A/Minnesota/02/2009(H1N1))GQ117070 GQ117069 GQ117068 GQ117071 GQ117073 GQ117072 Influenza A virus
(A/Nebraska/02/2009(H1N1))GQ117104 GQ117105 GQ117106 Influenza A virus
(A/New York/09/2009(H1N1))GQ117120 Influenza A virus
(A/New York/13/2009(H1N1))GQ117115 GQ117116 GQ117113 GQ117114 Influenza A virus
(A/New York/20/2009(H1N1))GQ117082
GQ117086GQ117080
GQ117083GQ117081
GQ117084GQ117085 Influenza A virus
(A/New York/22/2009(H1N1))GQ117021 GQ117020 GQ117024 GQ117019 GQ117022 GQ117023 Influenza A virus
(A/Ohio/07/2009(H1N1))GQ117100 GQ117098 GQ117099 Influenza A virus
(A/South Carolina/09/2009(H1N1))GQ117056 GQ117052 GQ117053 GQ117055 GQ117054 Influenza A virus
(A/Texas/07/2009(H1N1))GQ117089 GQ117088 GQ117091 GQ117087 GQ117090 Influenza A virus
(A/Texas/08/2009(H1N1))GQ117047 GQ117046 GQ117049 GQ117051 GQ117045 GQ117048 GQ117050 Influenza A virus
(A/Texas/09/2009(H1N1))GQ117027 GQ117026 GQ117029 GQ117032 GQ117025 GQ117028 GQ117031 GQ117030 May 05, 2009, 20 submitted by Instituto de Salud Carlos III, Spain; 3 by National Institute for Infectious Diseases 'Lazzaro Spallanzani', Italy; 4 by Israel Central Virology Laboratory, 23 by Unknown Pathogen Investigation Collaborative Team (UPICT) and Instituto de Diangnostico y Referencia Epidemiologicos (inDRE), Canada/Mexico:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/Castilla-La Mancha/GP13/2009(H1N1))FJ985753 FJ985751 FJ985754 FJ985750 FJ985752 Influenza A virus
(A/Castilla-La Mancha/GP9/2009(H1N1))FJ985768 FJ985766 FJ985769 FJ985765 FJ985767 Influenza A virus
(A/Pais Vasco/GP20/2009(H1N1))FJ985763 FJ985761 FJ985764 FJ985760 FJ985762 Influenza A virus
(A/Valencia/GP4/2009(H1N1))FJ985758 FJ985756 FJ985759 FJ985755 FJ985757 Influenza A virus
(A/Italy/03/2009(H1N1))FJ985804 Influenza A virus
(A/Italy/04/2009(H1N1))FJ985805 Influenza A virus
(A/Italy/02/2009(H1N1))FJ997636 Influenza A virus
(A/Israel/G-640/2009(H1N1))FJ986328 Influenza A virus
(A/Israel/G-645/2009(H1N1))FJ986329 Influenza A virus
(A/Israel/MF-119/2009(H1N1))FJ986331 Influenza A virus
(A/Israel/MF-70/2009(H1N1))FJ986330 Influenza A virus
(A/Canada-NS/RV1535/2009(H1N1))FJ998225 FJ998222 FJ998207 FJ998216 FJ998213 FJ998210 FJ998219 Influenza A virus
(A/Canada-ON/RV1527/2009(H1N1))FJ998205 FJ998227 FJ998224 FJ998209 FJ998218 FJ998215 FJ998212 FJ998221 Influenza A virus
(A/Mexico/InDRE4487/2009(H1N1))FJ998206 FJ998226 FJ998223 FJ998208 FJ998217 FJ998214 FJ998211 FJ998220 May 04, 2009, 4 submitted by Statens Serum Institut, Denmark; 1 by Azienda Ospedaliero-Universitaria Pisana, Italy; 1 by Istituto Superiore di Sanita, Italy; 68 by CDC; 1 by University of Regensburg, Germany:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/Denmark/513/2009(H1N1))FJ982430 FJ982431 FJ982432 FJ982433 Influenza A virus
(A/Italy/01/2009(H1N1))FJ982434 Influenza A virus
(A/Italy/02/2009(H1N1))FJ984583 Influenza A virus
(A/California/07/2009(H1N1))FJ984387 FJ984386 Influenza A virus
(A/California/08/2009(H1N1))FJ984365 FJ984367 FJ984368 FJ984366 Influenza A virus
(A/New York/06/2009(H1N1))FJ984341 FJ984340 FJ984338 FJ984339 Influenza A virus
(A/New York/10/2009(H1N1))FJ984373 FJ984374 FJ984375 FJ984372 FJ984371 FJ984369 FJ984370 Influenza A virus
(A/New York/11/2009(H1N1))FJ984346 FJ984347 FJ984345 FJ984344 FJ984342 FJ984343 Influenza A virus
(A/New York/12/2009(H1N1))FJ984337 FJ984336 FJ984335 FJ984334 Influenza A virus
(A/New York/15/2009(H1N1))FJ984380 FJ984379 FJ984378 FJ984376 FJ984377 Influenza A virus
(A/New York/18/2009(H1N1))FJ984351 FJ984353 FJ984354 FJ984355 FJ984352 FJ984350 FJ984348 FJ984349 Influenza A virus
(A/New York/19/2009(H1N1))FJ984392 FJ984393 FJ984394 FJ984391 FJ984390 FJ984388 FJ984389 Influenza A virus
(A/New York/23/2009(H1N1))FJ984364 FJ984363 FJ984362 FJ984361 Influenza A virus
(A/New York/31/2009(H1N1))FJ984359 FJ984360 FJ984358 FJ984357 FJ984356 Influenza A virus
(A/Ohio/07/2009(H1N1))FJ984400 FJ984397
FJ984401FJ984396 FJ984395
FJ984398FJ984399 Influenza A virus
(A/Texas/06/2009(H1N1))FJ984385 FJ984384 FJ984383 FJ984381 FJ984382 Influenza A virus
(A/Regensburg/Germany/01/2009(H1N1))FJ984953 May 1, 2009, 13 submitted by CDC; 1 by University of Geneva, Switzerland:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/California/07/2009(H1N1))FJ981613 Influenza A virus
(A/Switzerland/01/2009(H1N1))FJ981646 Influenza A virus
(A/Texas/04/2009(H1N1))FJ981616 FJ981619 FJ981612
FJ981615FJ981618 FJ981614 FJ981617 FJ981620 Influenza A virus
(A/Texas/05/2009(H1N1))FJ981610 FJ981609 FJ981608 FJ981611 April 30, 2009, 6 submitted by WHO CC for Reference and Research on Influenza, Australia; 1 by University of Regensburg, Germany; 7 by Ontario Agency for Health Protection and Promotion, Canada; 2 by Erasmus MC Rotterdam, Netherlands:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/Auckland/3/2009(H1N1))FJ973552 FJ973553 Influenza A virus
(A/Auckland/2/2009(H1N1))FJ973554 Influenza A virus
(A/Auckland/1/2009(H1N1))FJ973557 FJ973555 FJ973556 Influenza A virus
(A/Regensburg/Germany/01/2009(H1N1))FJ974021 Influenza A virus
(A/Toronto/3181/2009(H1N1))FJ974022 Influenza A virus
(A/Toronto/3170/2009(H1N1))FJ974023 Influenza A virus
(A/Toronto/3184/2009(H1N1))FJ974024 Influenza A virus
(A/Toronto/3178/2009(H1N1))FJ974025 Influenza A virus
(A/Toronto/3141/2009(H1N1))FJ974026 Influenza A virus
(A/Toronto/3145/2009(H1N1))FJ974027 Influenza A virus
(A/Toronto/3146/2009(H1N1))FJ974028 Influenza A virus
(A/Netherlands/602/2009(H1N1))CY039527 CY039528 April 29, 2009, 1 submitted by University of Regensburg, Germany; 3 by CDC:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/Regensburg/Germany/01/2009(H1N1))FJ970928 Influenza A virus
(A/California/06/2009(H1N1))FJ971075 FJ971074 Influenza A virus
(A/California/08/2009(H1N1))FJ971076 April 28, 2009, 34 submitted by CDC:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/New York/19/2009(H1N1))FJ969509 Influenza A virus
(A/New York/20/2009(H1N1))FJ969542 FJ969541 Influenza A virus
(A/Kansas/03/2009(H1N1))FJ969523 Influenza A virus
(A/Ohio/07/2009(H1N1))FJ969521
FJ969535FJ969520
FJ969534Influenza A virus
(A/California/04/2009(H1N1))FJ969516 FJ969515 FJ969512 FJ969517 FJ969513 FJ969514 Influenza A virus
(A/California/07/2009(H1N1))FJ969530 FJ969531 FJ969529
FJ969539FJ969540 FJ969536 FJ969527
FJ969537FJ969528
FJ969538Influenza A virus
(A/California/08/2009(H1N1))FJ969518
FJ969532FJ969519
FJ969533Influenza A virus
(A/California/10/2009(H1N1))FJ969511 FJ969510 Influenza A virus
(A/Texas/04/2009(H1N1))FJ969525 FJ969526 FJ969524 Influenza A virus
(A/Texas/05/2009(H1N1))FJ969522 April 27, 2009, 40 submitted by CDC:
PB2 PB1 PA HA NP NA MP NS Influenza A virus
(A/California/04/2009(H1N1))FJ966079 FJ966080 FJ966081 FJ966082 FJ966083 FJ966084 FJ966085 FJ966086 Influenza A virus
(A/California/05/2009(H1N1))FJ966955 FJ966958 FJ966957 FJ966952 FJ966953 FJ966956 FJ966954 Influenza A virus
(A/California/06/2009(H1N1))FJ966963 FJ966965 FJ966964 FJ966960 FJ966961 FJ966962 Influenza A virus
(A/California/07/2009(H1N1))FJ966976 FJ966978 FJ966977 FJ966974 FJ966975 Influenza A virus
(A/California/09/2009(H1N1))FJ966971 FJ966973 FJ966972 Influenza A virus
(A/Texas/04/2009(H1N1))FJ966982 FJ966979 FJ966981 FJ966980
FJ966983Influenza A virus
(A/Texas/05/2009(H1N1))FJ966970 FJ966959 FJ966967 FJ966969 FJ966968 FJ966966
From "2009 H1N1 influenza Outbreak, Influenza Virus Resource."
Many thanks to David Hale, @lostonroute66, for the link - via Twitter of course!
1 comment:
why are there only 2 mutations in the Mexican sequences ?
They give no date or host details,
but according to Cordova the first case was 13.Apr.
So, had the Mexican virus survived in the environment (pork ?) for
months without replicating, without mutating ?
This is unusual for influenza.
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