Typing tool
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Typing tool
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Complete norovirus genomes
| JN400624 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS JN400624 7509 bp RNA linear VRL 19-DEC-2013
DEFINITION Norovirus Hu/GII-4/CGMH26/2010/TW, complete genome.
ACCESSION JN400624
VERSION JN400624.1
KEYWORDS .
SOURCE Norovirus Hu/GII-4/CGMH26/2010/TW
ORGANISM Norovirus Hu/GII-4/CGMH26/2010/TW
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7509)
AUTHORS Tsai,C.N., Lin,C.Y., Lin,C.W., Shih,K.C., Chiu,C.H. and Chen,S.Y.
TITLE Clinical relevance and genotypes of circulating noroviruses in
northern Taiwan, 2006-2011
JOURNAL J. Med. Virol. 86 (2), 335-346 (2014)
PUBMED 24009100
REFERENCE 2 (bases 1 to 7509)
AUTHORS Tsai,C.-N., Lin,C.-Y., Lin,C.-W., Shih,K.-C., Chi,H.-C.,
Chao,H.-C., Lai,M.-W., Yu,T.-H., Chen,S.-Y. and Chiu,C.-H.
TITLE Direct Submission
JOURNAL Submitted (27-JUL-2011) Graduate Institute of clinical medical
sciences, 259, Wen-Hwa 1st Rd, Kwei-Shan, Taoyuan, Taiwan
FEATURES Location/Qualifiers
source 1..7509
/organism="Norovirus Hu/GII-4/CGMH26/2010/TW"
/mol_type="genomic RNA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1195638"
/country="Taiwan"
/collection_date="01-Mar-2010"
/note="serogroup: GII-4"
CDS 1..5100
/note="ORF1; encodes NTPase, 3A, VPg, 3Cpro and 3Dpol"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="AFN09992.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPTPAIS
LARVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMAPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5081..6703
/gene="VP1"
CDS 5081..6703
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="major viral capsid protein"
/protein_id="AFN09993.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNDRCTTDGVLLGTT
QLSPVNICTFRGDVTHIPGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTPRNEPQQWVLPSYSGRNIHSVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6703..7509
/gene="VP2"
CDS 6703..7509
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="minor viral capsid protein"
/protein_id="AFN09994.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRATVPARGSSSTSS
NSSIATSVYSNQTTSTRLGFTADFGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTLPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPFFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cctctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacgg agtgctctct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc tcccccgagg gaaaaaccac aaagaccccc acgaccacct
181 actccagaac tggttaaaaa tattcccccc cccccaccca acggagagga tgaaatagtg
241 gtttcttata gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcaa
301 ccggaagaat ctaacacggc cttcagtgtc cccccactca atcagaggga gaatagagat
361 gctaaggaac cacttactgg aacaattctg gaaatgtggg atggggaaat ctaccattat
421 ggcctgtatg tggagcgagg tcttgtactg ggtgtgcaca aacccacacc tgccatcagc
481 ctcgctaggg ttgagctagc accactctcc ttgtactgga gacctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttatccggag aaacgttccc ctacacagcc
601 tttgacaaca actgttatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg
661 agcaggagaa tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg
721 aaaccccttc ccactatgga tgactccaaa ataaagaagg tagctaacat attcctgtgt
781 gctctgtcct cgctgttcac cagacccata aaagatataa tagggaagat aaggcctctt
841 aacatcctca acatcttagc ctcatgtgat tggacttttg caggtatagt ggagtccctg
901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac ttggtgacta cgagctacaa ggacctgagg accttgcagt tgagctcgtc
1021 cccgtggtga tggggggaat tggtttggtg ctaggattca ccaaagagaa gattgggaaa
1081 atgttgtcat ctgctgcgtc caccttgaga gcttgtaaag accttggtgc atatgggcta
1141 gagatcctaa agttggtcat gaagtggttc ttcccgaaga aggaagaggc aaatgagctg
1201 gctatagtga ggtctatcga ggatgcagtc ctggatctcg aggcaattga aaacaaccac
1261 atgaccacct tgctcaaaga caaagacagt ctggcaacct atatgagaac acttgacctt
1321 gaggaggaga aagccaggaa actctcaacc aagtctgcct cacccgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg
1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag
1561 cgtgtgggcc tcatcccacg caatggcgtc gaccattggg atgcgtacaa gggggagagg
1621 gtcgtcctat gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcactcta aactgtgaca ggatcgaaaa caaaggaaag
1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc gccactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc atcgacttcc tcgtgtatgc agaagcccct
1861 gaagtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc
1921 agttctgatt tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac
1981 gggaacaccc cacacggaaa gggcgttatg aagactctca ccactggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc
2101 accaccttca atttcgatcg caataaggtg cttgccttta gacagcttgc tgctgaaaat
2161 aaatatggat tgatggacac aatgagagtt gggaaacagc tcaaggatgt cagaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt
2281 ggttgcacct acatacttga gtctgatggc aagggcaatg tgaaagttga cagaatccaa
2341 agcgccgccg tgcagaccaa caatgagctg gctggtgccc tgcaccattt gaggtgcgcc
2401 agaatcagat actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaatcgct
2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacaaga cctatggtcc
2521 aagccacaag tggaaaacac agaggagact accagcaagg acgggtgccc aaaacctaag
2581 gacgatgagg agtttgtcat ttcatccgac gacatcaaag ctgagggtaa gaaagggaag
2641 aacaagactg gccgcggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa
2701 gagtacgatg agtacaagag gattagagaa gaaaggaatg gcaagtactc catagaagag
2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gactgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagc ctctctcggt ctggtcacag gctctgaaat taggaaaaga
2941 aacccagatg acttcaaacc caaagggaaa ttgtgggctg acgatgacag gagtgtagac
3001 tacaatgaga aactcagttt tgaggcccca ccaagcattt ggtcgagaat agtcaacttt
3061 ggttcaggct ggggattttg ggtctccccc agtctgttca taacatcaac ccatgtcata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtcg
3181 ggcgagttct gtcgcttgag attcccaaaa ccaatcagga ctgatgtgac gggcatgatc
3241 ttagaagaag gcgcacctga gggcaccgtg gtcacactac tcatcaaaag gtccactggg
3301 gaactcatgc ccctagcagc taggatgggg acccatgcga ccatgaagat ccaagggcgc
3361 actgttggag gccagatggg catgcttctg acaggatcca acgccaagag catggacctg
3421 ggtactacac caggtgattg tggctgcccc tatatctaca agagaggtaa tgactatgtg
3481 gtcattgggg tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag
3541 gggagcgaag gagaggctac acttgaaggt ggtgacaaca aggggacata ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaca cttagcacca agaccaaatt ctggagatcg
3661 tccacagcat cactcccacc tggcacctat gaaccagcat atcttggtgg caaagaccct
3721 agggttaagg gtggtccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca
3781 gagcccaggg gcaagccacc aaaaccaagt gtattagaag ctgccaagaa gaccatcatc
3841 aatgtccttg agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg
3901 tcccttgaca agaccacttc cagtggtcat ccgcaccaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaagaaggga agaacatggc cccagtctac acagctgcgc tcaaggatga gttagttaaa
4081 actgacaaaa tttatggtaa gattaagaag aggcttctct ggggctcgga cttggcgacc
4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttccta ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg
4261 cattccagat acacatatca ctatgatgct gattactctc gatgggattc aacacaacag
4321 agagccgtgt tggcagcagc tctagaaatc atggttaaat tctccccaga accacacttg
4381 gctcaggtag tcgcggagga ccttctttct cctagcgtgg tggacgtggg cgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgtgcgctc tctgaagtca caaacctgtc ccctgatacc
4561 atacaggcta actccctctt ctctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagaaaaatt gacagcaaag ctcagagaat atgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagttcaata
4801 ctcaggcaaa tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt
4861 ccacactccc aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc
4921 ccagcatttt acagcaaaat cagcaaattg gtcattgcag agctaaaaga aggtggcatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccacagccaa ccttgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgtagttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atttgaatcc
5341 ctacctttcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt
5401 aatcctcgcg gggaacgcgt tcaccgccgg gaaaatcata tttgcagcag tcccaccaaa
5461 tttcccaact gaaggcttga gccccagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttggaacctg tgttgattcc cttacccgat gttaggaata atttctatca
5581 ttataatcaa tcaaatgacc ccaccatcaa attgatagca atgttgtaca caccacttag
5641 ggctaataat gccggggacg atgtcttcac agtttcttgt cgagttctca cgagaccatc
5701 ccccgatttt gatttcatat ttttggtgcc acccacagtt gaatcaagaa ctaaaccatt
5761 ctctgtccca gttttaactg ttgaggagat gaccaattca aggttcccca ttcctttgga
5821 aaagttgttc acgggcccca gtagtgcctt tgttgttcaa ccacaaaacg acaggtgcac
5881 gactgatggc gtgctcctag gtactaccca actgtctccc gtcaacatct gcaccttcag
5941 aggggatgtc acccatattc caggcagtcg taactacaca atgaatctgg cctcccaaaa
6001 ttggaacagt tacgatccaa cagaagaaat cccagcccct ctaggaactc cagatttcgt
6061 ggggaagatt caaggtgtgc tcacccaaac cacaaggaca aatggctcga cccgcggcca
6121 caaagctaca gtgtacactg ggagcgccga cttttctcca aaactgggta gagttcaatt
6181 tgccactgac acagacaatg attttgaaac taaccaaaac acaaagttca ccccagtcgg
6241 tgttatccag gatggtagta ccaccccccg aaatgaaccc caacaatggg tgctcccaag
6301 ttactcaggc agaaacattc acagtgtaca cctggccccc gctgtagccc ccactttccc
6361 gggcgagcag ctcctcttct tcagatctac tatgcccgga tgcagcgggt accccaacat
6421 ggacttggac tgtctgctcc cccaggaatg ggtgcagtat ttctaccagg aggcagcccc
6481 agcacaatct gatgtggctc tgctaaggtt tgtgaatccg gacacaggta gggttttgtt
6541 tgagtgtaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt
6601 ggttatcccc cccaatggtt attttagatt tgattcctgg gtcaaccagt tctacacact
6661 tgcccccatg ggaaatggga cggggcgtag acgtgcatta taatggctgg agctttcttt
6721 gctggattgg catctgacgt ccttggctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggccatca accaaaaagt tgaatttgaa aataacagaa aattgcaaca agcttccttc
6841 caatttagta gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca
6901 caaattgagg ccaccaaaaa gttgcaacag gaaatgatga gagttaaaca agcaatgctc
6961 ctagagggtg gattctctga gacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaaactttgg actggagcgg gacaaggtac tgggctcccg atgctaggac aacaacatat
7081 aatgcaggcc gcttttccac cccccaaccc tcgggggcac taccaggaag agctaatttt
7141 agggctactg tccccgcccg gggttcctcc agcacgtcct ctaactcttc tattgctact
7201 tctgtgtatt caaatcaaac cacctcaacg agacttggtt ttacagctga ttttggtacc
7261 agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg
7321 aatttgtcac ctttcatgag gggggcccac aacatctcgt ttgtcaccct accatctagc
7381 agatcctcta gccaaggcac agtttcaacc gtgcccaaag aagttttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctttt ttcgctcaca ttcgcaagcg aggggagtca
7501 cgggtgtaa
//