Typing tool
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Typing tool
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Complete norovirus genomes
| JN400618 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 1..5100
ORF2: 5081..6673
ORF3: 6673..7479
LOCUS JN400618 7479 bp RNA linear VRL 14-JAN-2014
DEFINITION Norovirus Hu/GII-4/CGMH20/2009/TW, complete genome.
ACCESSION JN400618
VERSION JN400618.2
KEYWORDS .
SOURCE Norovirus Hu/GII-4/CGMH20/2009/TW
ORGANISM Norovirus Hu/GII-4/CGMH20/2009/TW
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7479)
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 7479)
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
REFERENCE 3 (bases 1 to 7479)
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 (14-JAN-2014) Graduate Institute of clinical medical
sciences, 259, Wen-Hwa 1st Rd, Kwei-Shan, Taoyuan, Taiwan
REMARK Sequence update by submitter
COMMENT On Jan 14, 2014 this sequence version replaced JN400618.1.
FEATURES Location/Qualifiers
source 1..7479
/organism="Norovirus Hu/GII-4/CGMH20/2009/TW"
/mol_type="genomic RNA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1195632"
/country="Taiwan"
/collection_date="31-Dec-2009"
/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="AFN09974.2"
/translation="MKVASNDASAAAVANSNNDTAKSSSDGMLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDGIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDGLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHREKEELSSRPRPVVLMISGKPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPAITTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5081..6673
/gene="VP1"
CDS 5081..6673
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="major viral capsid protein"
/protein_id="AFN09975.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPRFESRTKPFS
VPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTTQLSPVNICTF
RGDVTHIPGSRNYTMNLASQNWNSYGPTEEIPAPLGTPDFVGKIQGVLTQTTRTNGST
RGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDGSTTPRNEPQQ
WVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLDCLLPQEWVQY
FYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIPPNGYFRFD
SWVNQFYTLAPMGNGTGRRRAL"
gene 6673..7479
/gene="VP2"
CDS 6673..7479
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="minor viral capsid protein"
/protein_id="AFN09976.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAVLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSGVEDQKRNLSPFMGGAHNI
SFFPPLFSRSFSQGTVSTVPKKVLDSWTGAFNTGRQPFFAHICKGGESRG"
ORIGIN
1 atgaaagtgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacgg aatgctttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc tcccccgagg gaaaaaccac aaagaccccc acgaccacct
181 actccagaac tggttaaaaa tattccccct cccccaccca acggagagga tggaatagtg
241 gtttcttata gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcaa
301 ccggaagaat ctaacacggc cttcagtgtc cctccactca atcagaggga gaatagagat
361 gctaaggagc cacttactgg aacaattctg gaaatgtggg acggggaaat ctaccactat
421 ggcctgtatg tggagcgagg tcttgtacta ggtgtgcaca aaccaccagc tgctatcagc
481 ctcgctaagg ttgagctagc accactctcc ttgtactgga gacctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttatccggag aaacgttccc ctacacagcc
601 tttgacaaca actgttatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg
661 agcaggagaa tgatccagag gacaactggt ttcttcaggc cctaccaaga ctggaatagg
721 aaaccccttc ccactatgga tgactccaaa ataaagaagg tagctaacat attcctgtgt
781 gctctgtcct cgctgttcac cagacccata aaagatataa tagggaagat aaggcctctt
841 aacatcctca acatcttagc ctcatgtgat tggacttttg caggcatagt ggagtccctg
901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac ttggtgacta cgagctacaa ggacctgagg accttgcagt ggagctcgtc
1021 cccgtggtga tggggggaat tggtttggtg ttaggattca ccaaagagaa gattgggaaa
1081 atgttgtcat ctgctgcgtc caccttgaga gcttgtaaag accttggtgc atatgggcta
1141 gagatcctaa agttggtcat gaagtggttc ttcccgaaga aggaggaggc aaatgagctg
1201 gctatagtga ggtctatcga ggatgcagtc ctggatctcg aggcaattga aaacaaccat
1261 atgaccacct tgctcaaaga caaagacggc ctggcaacct atatgagaac acttgacctt
1321 gaggaggaga aagccaggaa actctcaacc aagtctgcct cacccgacat cgtgggcaca
1381 atcaacgccc tcctggcgag aatcgctgcc gcacgttctc tggtgcatcg agagaaggag
1441 gaactttcca gcagaccaag acctgtggtg ttgatgatat caggcaagcc aggaataggg
1501 aagacccacc tcgctaggga agtggctaag agaatcgcag cctcccttac aggagaccag
1561 cgtgtgggcc tcatcccacg caatggcgtc gaccattggg atgcgtacaa gggggagagg
1621 gtcgttctat gggacgatta tggaatgagc aaccctattc acgatgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcactcta aactgtgaca ggattgaaaa taaaggaaag
1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcatg ctcgaggcgc atcgacttcc tcgtgtatgc agaagcccct
1861 gaagtcgaaa aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc
1921 agttctgatt tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac
1981 gggaacaccc cacacggaaa gggcgtcatg aagactctca ccactggctc ccttattgcc
2041 cgggcatcag ggctactcca tgagaggtta gatgaatttg aactacaggg cccagctatc
2101 accaccttca atttcgatcg caataaagtg cttgccttta gacagcttgc tgctgaaaat
2161 aaatatgggt tgatggacac aatgagagtt gggaaacagc tcaaggatgt cagaaccatg
2221 ccagaactca aacaagcact caagaatgtc tcaatcaaga agtgccaaat agtgtatagt
2281 ggttgcacct acatacttga gtctgatggc aagggcaatg tgaaagttga cagaatccaa
2341 agcgccgccg tgcagaccaa caatgagctg gctggtgccc tgcaccatct gaggtgcgcc
2401 agaatcagat actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaattgct
2461 ggggctgcat ttgtcaccac gcgcattgcc aagcgcatga acatacaaga cctatggtcc
2521 aagccacaag tggaaaacac agaggagacc accagcaagg acgggtgccc aaaacctaag
2581 gatgatgagg agtttgtcat ttcatctgac gacatcaaaa ctgagggtaa gaaagggaag
2641 aacaaaactg gccgcggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa
2701 gagtacgatg agtacaagag gattagagaa gaaaggaatg gcaagtactc catagaagag
2761 taccttcagg acagggacaa atattatgag gaggtggcca ttgccagggc gactgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tctttaggcc aacaaggaaa
2881 caacgcaagg aggaaagagc ctctctcggt ctggtcacag gctctgaaat taggaaaaga
2941 aacccagatg acttcaaacc caaggggaaa ttgtgggctg acgatgacag gagtgtggac
3001 tacaatgaga aactcagttt tgaggcccca ccaagcatct ggtcgagaat agtcaacttt
3061 ggttcaggct ggggattctg ggtctccccc agtctgttca taacatcaac ccatgtcata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca
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 gtcattggag tccacacggc tgccgcacgt gggggaaaca ctgtcatatg tgccacccag
3541 gggagtgaag gagaggctac acttgaaggt ggtgacaaca aggggacata ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaca ctcagcacca agaccaaatt ctggagatcg
3661 tccacagcat cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct
3721 agagtcaagg gtggcccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca
3781 gagccaaggg 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 gaggaaggga agaacatgac cccagtctac acagctgcgc tcaaggatga gttagttaaa
4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga cttggcgacc
4141 atgatccggt gcgctcgagc attcggaggc ctcatggatg aactcaaagc acactgtgtc
4201 acacttccca ttagagttgg catgaatatg aatgaggatg gccccatcat cttcgagagg
4261 cattccaggt acacatatca ctatgatgct gattactctc gatgggattc aacacaacag
4321 agagccgtgt tggcagcagc tctggaaatc atggttaaat tctccccaga accacatttg
4381 gctcaggtag tcgcggaaga ccttctttct cctagcgtgg tggacgtggg cgatttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgtgcgctc tctgaagtca caaacctatc ccctgatacc
4561 atacaggcta actccctctt ctctttttat ggtgatgatg aaattgttag cacagacata
4621 aaattggacc cagagaaatt gacagcaaag ctcagggagt atgggttaaa accaacccgc
4681 cctgacaaaa ctgaaggacc ccttgtcatc tctgaagacc tgaatggcct aactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aattggagca gagttcaata
4801 ctcaggcaaa tgtattggac taggggtccc aaccatggag acccttctga aacaatgatt
4861 ccacactccc aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc
4921 ccagcatttt acagtaaaat cagcaaattg gtcattgcag aacttaaaga aggtggcatg
4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga
5101 cgccaaccca tctgatgggt ccacagccaa cctcgtccca 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 gaaggtttga gccccagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacccgat gttaggaata atttctatca
5581 ttataatcaa tcaaatgact ccaccatcaa attgatagca atgttgtaca caccacttag
5641 ggctaataat gccggggacg atgtcttcac agtttcttgt cgagttctca cgagaccatc
5701 cccccgattt gaatcaagaa ctaaaccatt ctctgtccca gttttaactg ttgaggagat
5761 gaccaattca aggttcccca ttcctttgga aaagttgttc acgggcccca gtagtgcctt
5821 tgttgttcaa ccacaaaacg gcaggtgcac gactgatggc gtgctcctag gtaccaccca
5881 actgtctcct gtcaacatct gcaccttcag aggggatgtc acccatattc caggcagtcg
5941 taactacaca atgaatttgg cctcccaaaa ttggaacagt tacggtccaa cagaagaaat
6001 cccagcccct ctaggaactc cagatttcgt ggggaaaatt caaggtgtgc tcacccaaac
6061 cacaaggaca aatggctcga cccgcggcca caaagctaca gtgtacactg ggagcgccga
6121 cttttctcca aaactgggta gagttcaatt tgccactgac acagacaatg attttgaaac
6181 taaccaaaac acaaagttca ccccagtcgg cgttatccag gatggtagta ctaccccccg
6241 aaatgaaccc caacaatggg tgctcccaag ttactcaggc aggaacattc acaatgtgca
6301 cctggccccc gctgtagccc ccactttccc gggcgagcag ctcctctttt tcagatctac
6361 tatgcccgga tgcagtgggt accccaacat ggacttggac tgtctgctcc cccaggaatg
6421 ggtgcagtac ttctaccagg aggcagcccc agcacaatct gatgtggctc tgttaagatt
6481 tgtgaatcca gacacaggta gggttttgtt tgagtgtaag cttcataaat caggctatgt
6541 tacagtggct catactggcc aacatgattt ggttatcccc cccaatggtt attttagatt
6601 tgattcctgg gtcaaccagt tctacacact tgcccccatg ggaaatggga cggggcgtag
6661 acgtgcatta taatggctgg agctttcttt gctggattgg catctgacgt ccttggctct
6721 ggacttggtt ccctaatcaa tgctggggct ggggccatca accaaaaagt tgaatttgaa
6781 aataacagaa aattgcaaca agcttccttc caatttagta gcaatctaca acaggcttcc
6841 tttcaacatg acaaagagat gctccaagca caaattgagg ccaccaaaaa gttgcaacag
6901 gaaatgatga gagttaaaca agcagtgctc ctagagggtg gattctctga gacagatgca
6961 gcccgtgggg caatcaacgc ccccatgaca aaaactttgg actggagcgg gacaaggtac
7021 tgggctcccg atgctaggac tacaacatat aatgcaggcc gcttttccac ccctcaaccc
7081 tcgggggcac taccaggaag agctaatctt agggctactg tccccgcccg gggttcctcc
7141 agcacgtctt ctaattcttc tattgctact tctgtgtatt caaatcaaac cacctcaacg
7201 agacttggtt ctacagctgg ttctggtacc agtgtctcga gcctcccgtc aactgcaagg
7261 actaggagcg gggttgagga tcaaaaaagg aatttgtccc ctttcatggg gggggctcac
7321 aacatttctt ttttcccccc cctatttagc agatccttta gccaaggcac agtttcaacc
7381 gtgcccaaaa aagttttgga ctcctggacg ggggctttca acacgggcag gcagcctttt
7441 tttgctcaca tttgcaaggg aggggagtca cgggggtaa
//