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Influenza Virus Resource presents data obtained from the NIAID Influenza Genome Sequencing Project as well as from GenBank, combined with tools for flu sequence analysis, annotation and submission to GenBank. In addition, it provides links to other resources that contain flu sequences, publications and general information about flu viruses.

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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:

August 26, 2009, 240 submitted by JCVI; 4 by National University of Singapore, Singapore; 5 by State Research Center of Virology and Biotechnology Vector, Russia:

PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/New York/3571/2009(H1N1))
CY044876 CY044875 CY044874 CY044869 CY044872 CY044871 CY044870 CY044873
Influenza A virus
(A/New York/3573/2009(H1N1))
CY044884 CY044883 CY044882 CY044877 CY044880 CY044879 CY044878 CY044881
Influenza A virus
(A/New York/3574/2009(H1N1))
CY045092 CY045091 CY045090 CY045085 CY045088 CY045087 CY045086 CY045089
Influenza A virus
(A/New York/3580/2009(H1N1))
CY044892 CY044891 CY044890 CY044885 CY044888 CY044887 CY044886 CY044889
Influenza A virus
(A/New York/3582/2009(H1N1))
CY044900 CY044899 CY044898 CY044893 CY044896 CY044895 CY044894 CY044897
Influenza A virus
(A/New York/3611/2009(H1N1))
CY044908 CY044907 CY044906 CY044901 CY044904 CY044903 CY044902 CY044905
Influenza A virus
(A/New York/3612/2009(H1N1))
CY044916 CY044915 CY044914 CY044909 CY044912 CY044911 CY044910 CY044913
Influenza A virus
(A/New York/3613/2009(H1N1))
CY044924 CY044923 CY044922 CY044917 CY044920 CY044919 CY044918 CY044921
Influenza A virus
(A/New York/3614/2009(H1N1))
CY045100 CY045099 CY045098 CY045093 CY045096 CY045095 CY045094 CY045097
Influenza A virus
(A/New York/3617/2009(H1N1))
CY044932 CY044931 CY044930 CY044925 CY044928 CY044927 CY044926 CY044929
Influenza A virus
(A/New York/3623/2009(H1N1))
CY044940 CY044939 CY044938 CY044933 CY044936 CY044935 CY044934 CY044937
Influenza A virus
(A/New York/3625/2009(H1N1))
CY044948 CY044947 CY044946 CY044941 CY044944 CY044943 CY044942 CY044945
Influenza A virus
(A/New York/3627/2009(H1N1))
CY044956 CY044955 CY044954 CY044949 CY044952 CY044951 CY044950 CY044953
Influenza A virus
(A/New York/3629/2009(H1N1))
CY044964 CY044963 CY044962 CY044957 CY044960 CY044959 CY044958 CY044961
Influenza A virus
(A/New York/3653/2009(H1N1))
CY044972 CY044971 CY044970 CY044965 CY044968 CY044967 CY044966 CY044969
Influenza A virus
(A/New York/3709/2009(H1N1))
CY045012 CY045011 CY045010 CY045005 CY045008 CY045007 CY045006 CY045009
Influenza A virus
(A/New York/3726/2009(H1N1))
CY044868 CY044867 CY044866 CY044861 CY044864 CY044863 CY044862 CY044865
Influenza A virus
(A/New York/3744/2009(H1N1))
CY044980 CY044979 CY044978 CY044973 CY044976 CY044975 CY044974 CY044977
Influenza A virus
(A/New York/3747/2009(H1N1))
CY044988 CY044987 CY044986 CY044981 CY044984 CY044983 CY044982 CY044985
Influenza A virus
(A/New York/3751/2009(H1N1))
CY044996 CY044995 CY044994 CY044989 CY044992 CY044991 CY044990 CY044993
Influenza A virus
(A/New York/3796/2009(H1N1))
CY045020 CY045019 CY045018 CY045013 CY045016 CY045015 CY045014 CY045017
Influenza A virus
(A/New York/3803/2009(H1N1))
CY045028 CY045027 CY045026 CY045021 CY045024 CY045023 CY045022 CY045025
Influenza A virus
(A/New York/3812/2009(H1N1))
CY045036 CY045035 CY045034 CY045029 CY045032 CY045031 CY045030 CY045033
Influenza A virus
(A/New York/3828/2009(H1N1))
CY045004 CY045003 CY045002 CY044997 CY045000 CY044999 CY044998 CY045001
Influenza A virus
(A/New York/3967/2009(H1N1))
CY045044 CY045043 CY045042 CY045037 CY045040 CY045039 CY045038 CY045041
Influenza A virus
(A/New York/4006/2009(H1N1))
CY045052 CY045051 CY045050 CY045045 CY045048 CY045047 CY045046 CY045049
Influenza A virus
(A/New York/4052/2009(H1N1))
CY045060 CY045059 CY045058 CY045053 CY045056 CY045055 CY045054 CY045057
Influenza A virus
(A/New York/4072/2009(H1N1))
CY045084 CY045083 CY045082 CY045077 CY045080 CY045079 CY045078 CY045081
Influenza A virus
(A/New York/4099/2009(H1N1))
CY045068 CY045067 CY045066 CY045061 CY045064 CY045063 CY045062 CY045065
Influenza A virus
(A/New York/4290/2009(H1N1))
CY045076 CY045075 CY045074 CY045069 CY045072 CY045071 CY045070 CY045073
Influenza A virus
(A/Omsk/01/2009(H1N1))
GQ527167 GQ527170 GQ527169 GQ527168 GQ527171
Influenza A virus
(A/Singapore/TLL51/2009(H1N1))
GQ527165
Influenza A virus
(A/Singapore/TLL52/2009(H1N1))
GQ527166
Influenza A virus
(A/Singapore/TLL53/2009(H1N1))
GQ527163
Influenza A virus
(A/Singapore/TLL54/2009(H1N1))
GQ527164

August 25, 2009, 7 submitted by Jiangsu Provincial Center for Disease Prevention and Control, China; 5 by State Research Center of Virology and Biotechnology Vector, Russia:

PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Irkutsk/02/2009(H1N1))
GQ505853 GQ505856 GQ505855 GQ505854 GQ505857
Influenza A virus
(A/Nanjing/1/2009(H1N1))
GQ504749 GQ504750 GQ504751 GQ504752 GQ504753 GQ504754 GQ504755

August 24, 2009, 8 submitted by Ontario Agency for Health Protection and Promotion, Canada:

PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Toronto/R8557/2009(H1N1))
GQ502903 GQ502904 GQ502905 GQ502906 GQ502907 GQ502908 GQ502909 GQ502910

August 21, 2009, 1 submitted by Centers for Disease Control and Prevention of Lishui, China; 4 by CDC:

PB2 PB1 PA HA NP NA MP NS
Influenza A virus
(A/Lishui/01/2009(H1N1))
GQ496602
Influenza A virus
(A/Washington/28/2009(H1N1))
GQ499336 GQ499337*
Influenza A virus
(A/Washington/29/2009(H1N1))
GQ499334 GQ499335*
* These sequences have the H274Y mutation that confers resistance to Oseltamivir.

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