Typing tool
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Typing tool
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Complete norovirus genomes
| JN400608 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7509
LOCUS JN400608 7509 bp RNA linear VRL 19-DEC-2013
DEFINITION Norovirus Hu/GII-4/CGMH10/2006/TW, complete genome.
ACCESSION JN400608
VERSION JN400608.1
KEYWORDS .
SOURCE Norovirus Hu/GII-4/CGMH10/2006/TW
ORGANISM Norovirus Hu/GII-4/CGMH10/2006/TW
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
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/CGMH10/2006/TW"
/mol_type="genomic RNA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1195622"
/geo_loc_name="Taiwan"
/collection_date="18-Nov-2006"
/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="AFN09944.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGISGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFEIQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKECQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALYHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5081..6703
/gene="VP1"
CDS 5081..6703
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="major viral capsid protein"
/protein_id="AFN09945.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSHNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGGNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6703..7509
/gene="VP2"
CDS 6703..7509
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="minor viral capsid protein"
/protein_id="AFN09946.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPSTSS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc
61 gcaaaatctt caagtgacaa aatgttttct agcatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct
181 actccagaac tggtcaaaaa gatccctcct cccccgccca acggagagga tgaagtagtg
241 gtttcttata gtgccaaaga tggcatttcc ggtttacctg agctttccac cgtcagacaa
301 ccagaagaaa ccaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat
361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat
421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccattagc
481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag
541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacatttcc ctacacagcc
601 tttgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg
661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ttggaatagg
721 aaacccctcc ctactacgga tgattccaaa ttaaagaagg tagctaacat attcctgtgc
781 accctgtctt cgctattcac caggcccata aaagacataa taggaaagtt aaggcctctc
841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg
901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggagctcgtc
1021 cctgtagtaa tggggggaat tggtttggtg ctaggattca ccaaagagaa gattggaaaa
1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatgggcta
1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaggc aaatgaactg
1201 gctatggtga gatccatcga ggatgcagta ctggaccttg aggcaattga aaacaaccat
1261 atgaccacct tgctcaaaga caaagacagc ctggcaacct acatgagaac tcttgacctc
1321 gaggaagaga aagccagaaa actctcaacc aagtctgctt cacctgacat cgtgggcaca
1381 atcaacgccc ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcagacc agggataggg
1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag
1561 cgtgtaggcc tcatcccacg caatggcgtc gatcactggg atgcgtacaa aggggagagg
1621 gtcgtcctat gggacgacta tggaatgagc aatcccatcc acgacgccct caggctgcaa
1681 gaactcgctg acacttgccc cctcactcta aattgtgaca ggattgagaa taaaggaaag
1741 gtctttgaca gcgatgtcat cattatcact actaatctgg ccaacccagc gccactggac
1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc
1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt
1921 agttctgatt tctcacacat aaaattggca ctggctccac aaggtggctt tgataagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc
2041 cgggcatcag ggctgctcca tgagagattg gatgagtttg aaatacaggg cccagctctt
2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac
2161 aaatatgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg
2221 ccagaactta aacaagcact caagaatatc tcaattaagg agtgccagat tgtgtacagt
2281 ggttgcacct acacacttga gtctgacggc aagggcaatg tgaaagttga cagagttcag
2341 agcacctccg tacagaccaa caatgagctg gctggcgccc tgtaccatct aaggtgcgcc
2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct
2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc
2521 aagccacaag tggaaaacac agaggaggct accaacaagg acgggtgccc aaaacccaaa
2581 gatgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag
2641 aacaagactg gccgtggcaa gaagcacaca gccttctcaa gtaaaggtct cagtgatgaa
2701 gagtatgatg agtacaagag aattagagag gaaaggaatg gcaagtactc catagaagag
2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaaggaaa
2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgaaat taggaaaaga
2941 aacccagaag acttcaagcc caaggggaaa ctatgggctg acgatgacag aagtgtggac
3001 tacaatgaga aactcagttt tgaggccccg ccaagcatct ggtcaaggat agtcaacttt
3061 ggctcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt acacaagtca
3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtgac tggcatgatc
3241 ttggaagaag gtgcgcccga aggcaccgtg gccacactac tcatcaaaag gtctactgga
3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaaaat tcaagggcgc
3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta
3421 ggcaccacac caggtgattg cggctgcccc tacatctaca agagaggaaa tgactatgtg
3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag
3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca
3601 ccaatcctag gcccagggag cgccccaaaa cttagcacca aaaccaaatt ctggagatca
3661 tccacagcac cactcccacc tggcacctat gaaccagcct accttggtgg caaggacccc
3721 agagtcaagg gtggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca
3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgtccttg aacaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg
3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg
3961 aacggggagt ccttcacagg caagctggca gaccaggctt ccaaggccaa cctgatgttt
4021 gaagaaggga agaacatgac cccagtttac acaggtgcac ttaaggatga attagtcaaa
4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc
4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttccta tcagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag
4261 cattccaggt acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag
4321 agagccgtgc tggcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg
4381 gctcaggtag tcgcagaaga ccttctttct cctagcgtgg tggatgtggg tgacttcaca
4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc
4501 gcccactggc ttctcactct ctgtgcactc tccgaagtta caaatttgtc cccagacatc
4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata
4621 aaactagacc cagagaagtt gacagcaaag cttaaggaat atgggttgaa accaacccgc
4681 cctgataaaa ctgaaggacc tcttgttatt tctgaagact tagatggttt gactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata
4801 ctcagacaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatt
4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacgga
4921 ccaacattct acagtaaaat cagcaaatta gtcattgcag agctaaaaga aggtggtatg
4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat
5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc
5341 ttacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gatcctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa
5461 tttcccaact gaaggcttga gccccagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata acttctatca
5581 ttataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag
5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagtcctca cgaggccttc
5701 ccctgatttt gattttatat ttttggtgcc acctacagtt gagtcaagaa ctaaaccatt
5761 tactgtccca atcttaactg ttgaagaaat gaccaattca agattcccta ttcctttgga
5821 aaaattgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac
5881 gactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacattg caggttctca taattacaca atgaatttgg cttctctaaa
6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt
6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaggga gatggttcga cccgtggcca
6121 taaagctaca gtttacactg ggagtgcccc ctttactcca aagctgggca gtgttcaatt
6181 cagtactgat acagaaaatg attttgaaac tcaccaaaac acaaaattca ccccagtcgg
6241 tgtcatccag gatggtagca ccacccaccg aaatgaaccc caacaatggg tgctcccaag
6301 ttattcaggt ggaaatgtcc ataatgtaca cctagcccct gctgtagccc ccacttttcc
6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat
6421 ggatttggat tgcctactcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc
6481 agcacaatct gatgtggctc tattgagatt tgtgaaccca gacacgggta gggtcctgtt
6541 tgagtgcaaa cttcataaat caggctatgt cacagtggct cacaccggcc agcatgattt
6601 ggtcatcccc cccaatggtt attttaggtt tgattcctgg gttaatcaat tctacacact
6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcttta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggctatca accaaaagat tgattttgaa aataacagaa aattgcagca agcttccttc
6841 caatttagca gcaatctgca acaggcttcc tttcaacatg ataaagagat gctccaagca
6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc
6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccctatgaca
7021 aaggctttgg actggagcgg aactaggtac tgggcccctg atgctaggac tacaacatac
7081 aatgcaggcc gtttttccac ccctcaacct tcgggggcac tgccaggaag aatcaatccc
7141 aggactccca cccccgctcg gggctccccc agcacatctt ctaatgcttc tactgctact
7201 tctatatatt caaatcaaac tgtctcaacg agacttggtt ccacagctgg ttctggcacc
7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga
7321 aatttgtcac ctttcatgag gggggctcac aacatatcgt ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact
7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgcaaacg aggggagtca
7501 cgtgtgtaa
//