Typing tool
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Typing tool
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Complete norovirus genomes
| KM198495 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 69..5087
ORF2: 5068..6690
ORF3: 6690..7430
LOCUS KM198495 7430 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/10193/2009/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198495
VERSION KM198495.1
KEYWORDS .
SOURCE Norovirus Hu/GII/10193/2009/VNM
ORGANISM Norovirus Hu/GII/10193/2009/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7430)
AUTHORS Cotten,M., Petrova,V., Phan,M.V., Rabaa,M.A., Watson,S.J.,
Ong,S.H., Kellam,P. and Baker,S.
TITLE Deep sequencing of norovirus genomes defines evolutionary patterns
in an urban tropical setting
JOURNAL J. Virol. 88 (19), 11056-11069 (2014)
PUBMED 25056894
REFERENCE 2 (bases 1 to 7430)
AUTHORS Cotten,M.L., Petrova,V., Phan,M.V.T., Rabaa,M.A., Watson,S.J.,
Kellam,P. and Baker,S.
TITLE Direct Submission
JOURNAL Submitted (13-JUL-2014) Virus Genomics, The Wellcome Trust Sanger
Institute, Hinxton CB10 1SA, United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 2.4.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7430
/organism="Norovirus Hu/GII/10193/2009/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/10193/2009/VNM"
/host="Homo sapiens"
/db_xref="taxon:1526959"
/country="Viet Nam"
/collection_date="05-Oct-2009"
/note="genotype: GII"
CDS 69..5087
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02613.1"
/translation="MFSNMAVTFKRALGARPKQPPPREIPQRPPRPPTPELVKKIPPP
PPNGEDETVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPLNQRENRDAKEPLTGTI
LEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLIPPDT
LKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPT
MDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILASCDWTFAGIVESLILL
AELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMGGIGLVLGFTKEKIGKM
LSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENN
HMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHR
AKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDA
YKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNL
ANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLAL
APQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNK
VLAFRQLAAENKYGLIDTMKVGRQLKDVKTMPELKQALKNISIKKCQIVYSGCTYTLE
SDGKGNVKVDRIQSTSVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFV
TTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPKDDEEFVISSDDIKTEGKKGKNKT
GRGKKHTAFSSKGLSDEEYDEYKRIREERNGRYSIEEYLQDRDKYYEEVAIARATEED
FCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKLWADDDRSV
DYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQV
HKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATM
KIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGN
TVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYE
PAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDP
PEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMT
PVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPIR
VGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAALEIMVKFSSEPHLAQV
VAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDII
QANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTF
LRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIPHSQRPIQLMSLLGEAA
LHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNE
DGVE"
CDS 5068..6690
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02614.1"
/translation="MKMASNDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQTNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6690..>7430
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02615.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSTSS
NASTATSIHSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKGVLDSWTG"
ORIGIN
1 ctaacgacgc ttccgctgcc gctgttgcta acagcaacaa cgacaccgca aaatcttcaa
61 gtgacaagat gttttctaac atggctgtca cttttaaacg agccctcggg gcgcggccta
121 aacagccccc cccgagggaa ataccacaaa gacccccacg accacctact ccagaactgg
181 tcaaaaagat ccctcctccc ccacccaacg gagaggatga aacagtggtt tcttatagtg
241 ccaaagatgg cgtttccggt ttacctgagc tttccactgt caggcaaccg gaagaaacca
301 atacggcctt cagtgtccct ccactcaacc agagggagaa tagagatgct aaggaaccac
361 tgactggaac aattctggaa atgtgggatg gagaaatcta ccattatggc ctgtatgttg
421 agcgaggtct tgtgctgggt gtgcacaaac caccagctgc cataagcctc gccaaggtcg
481 aactaacacc actctccttg ttctggagac ctgtgtacac tccccagtac ctcatccctc
541 cagacactct caagaaatta cacggagaaa cgtttcccta cacagccttt gacaacaatt
601 gctatgcctt ttgttgttgg gtcctggatc taaatgactc gtggctgagt aggagaatga
661 tccagagaac aactggcttc ttcagaccct accaagactg gaataggaaa cccctcccca
721 ctatggatga ttccaaatta aagaaggtag ctaacatatt cctgtgcgcc ctgtcttcgc
781 tattcaccag gcccataaaa gacataatag gaaagctaag acctctcaac atcatcaaca
841 tcctggcttc atgtgattgg actttcgcag gcatagtgga gtctttgata ctcttggcag
901 agctctttgg agtcttctgg acacccccag atgtgtctgc gatgattgcc cccttactcg
961 gtgatttcga gttacaagga cctgaggacc ttgtagtgga actcgtccct gtagtaatgg
1021 ggggaattgg tttggtgctg ggattcacca aagagaagat tgggaaaatg ttgtcatctg
1081 ctgcatccac cttgagagct tgtaaagatc ttggtgcata tgggctagag atcctaaagt
1141 tagtcatgaa gtggttcttc ccgaagaaag aggaggcaaa tgaactggct atggtgagat
1201 ccatcgagga tgcagtactg gaccttgagg caattgaaaa caaccatatg accaccttgc
1261 tcaaagacaa agacagcctg gcaacctaca tgagaaccct tgacctcgag gaagagaaag
1321 ccagaaaact ctcaaccaag tctgcttcac ccgacatcgt gggcacaatc aacgcccttc
1381 tggcgagaat cgccgctgca cgctccctgg tgcaccgagc gaaggaggag ctttccagca
1441 gaccaagacc tgtagtcttg atgatatcag gcagaccagg gataggaaaa acccaccttg
1501 ctagggaagt ggctaagaga atcgcagcct ccctcacagg agaccagcgt gtaggcctca
1561 tcccacgcaa tggcgtcgat cactgggatg cgtacaaggg ggagagggtc gtcctatggg
1621 acgactatgg aatgagcaac cccattcacg acgcccttag gctgcaagaa ctcgctgaca
1681 cttgccccct tactctaaat tgtgacagga ttgagaataa aggaaaggtc tttgacagcg
1741 atgtcatcat tatcaccact aatctggcca acccagcacc actggactat gtcaactttg
1801 aagcgtgctc gaggcgcatc gatttcctcg tgtatgcaga agcccccgag gtcgaaaagg
1861 cgaagcgtga cttcccgggc caacctgaca tgtggaaaaa cgcttttagt tctgatttct
1921 cacacataaa attagcactg gctccacaag gtggctttga taagaacggg aacaccccac
1981 acgggaaggg cgtcatgaag actctcacca ctggctccct catcgcccgg gcatcagggc
2041 tgctccatga gagattggat gagtttgaac tacagggccc agctcttacc accttcaact
2101 ttgaccgcaa caaagtgctt gccttcagac agcttgcagc tgaaaacaaa tatgggttga
2161 tagacacaat gaaagttggg aggcagctca aggatgtcaa aaccatgcca gaacttaaac
2221 aagcactcaa aaacatctca atcaaaaagt gccagattgt gtatagtggt tgcacctaca
2281 cacttgagtc tgatggcaag ggcaatgtga aagttgacag aatccagagc acctccgtac
2341 agaccaacaa tgagcttgct ggcgccctgc atcatctgag gtgcgccaga atcaggtact
2401 atgtcaagtg tgtccaggag gccctgtatt ctatcatcca gattgctggg gccgcatttg
2461 tcaccacgcg cattatcaag cgtgtgaaca ttcaagactt atggtccaag ccacaagtgg
2521 aaaacacaga ggaggccacc aacaaggacg ggtgcccaaa acccaaagat gatgaggagt
2581 tcgtcatttc atctgacgac attaaaactg agggtaagaa agggaagaac aagactggcc
2641 gtggcaagaa gcatacagcc ttttcaagta aaggtctcag tgatgaagag tatgatgagt
2701 acaagagaat tagagaggaa aggaatggca ggtattccat agaagagtac cttcaggaca
2761 gggacaaata ctatgaggag gtggccattg ccagggcgac cgaggaagac ttctgtgaag
2821 aggaggaggc caagatccgg caaaggatct ttagaccaac aaggaaacaa cgcaaggaag
2881 aaagagcttc tctcggttta gtcacaggtt ctgagattag gaaaagaaac ccagatgact
2941 tcaagcctaa gggaaaactg tgggctgacg atgacagaag tgtggactac aatgagaaac
3001 tcagttttga ggccccacca agcatctggt caaggatagt caactttggt tcaggttggg
3061 gcttctgggt ctcccctagc ctgttcataa catcaaccca cgtcataccc cagggcgcaa
3121 aggagttctt tggagttccc atcaaacaaa ttcaggtaca caagtcaggc gaattttgtc
3181 gcttgaggtt cccaaaacca atcaggactg acgtgactgg catgatcttg gaagaaggtg
3241 cgcccgaagg caccgtggtc acactactca tcaaaaggtc tactggagaa ctcatgcccc
3301 tagcagctag aatggggacc catgcaacca tgaaaattca agggcgcacc gttggaggtc
3361 agatgggcat gcttctgaca ggatccaacg ccaaaagcat ggatctaggc accacaccag
3421 gtgattgcgg ctgtccctac atctacaaga gaggaaatga ctatgtggtc attggggtcc
3481 atacggctgc cgctcgtggg ggaaacactg tcatatgtgc cacccagggg ggcgaggggg
3541 aagctacact tgaaggtggt gacagtaagg gaacatactg tggtgcacca atcctaggcc
3601 cagggagtgc cccaaaactt agcaccaaaa ccaaattctg gagatcatcc acagcaccac
3661 tcccacctgg cacctatgaa ccagcatacc ttggtggcaa ggaccccaga gtcaagggtg
3721 gcccttcgtt gcagcaagta atgagggacc agctgaaacc atttacagaa cccaggggta
3781 agccaccaaa gccaagtgtg ttagaagctg ccaagaaaac catcatcaat gtccttgaac
3841 aaacaattga cccacctgag aagtggtcgt tcgcacaagc ttgcgcctcc cttgacaaga
3901 ccacttctag cggccatccg caccatatgc ggaaaaacga ctgctggaat ggggagtcct
3961 tcacaggcaa gctggcagac caggcttcta aggctaacct gatgtttgaa gaagggaaga
4021 acatgacccc agtctacaca ggtgcactta aggatgaatt agtcaaaact gacaaaattt
4081 atggtaagat caagaagagg cttctctggg gctcggattt agcaaccatg atccggtgtg
4141 ctcgagcatt cggaggccta atggatgaac tcaaagcaca ctgtgtcaca cttcctatta
4201 gagttggtat gaatatgaat gaggatggcc ccatcatctt cgagaagcat tccaggtaca
4261 gatatcacta tgatgctgat tactctcggt gggattcaac acaacagaga gccgtgctgg
4321 cagctgctct agaaatcatg gttaaattct cctcagaacc acatttggct caggtagtcg
4381 cagaagatct tctttcccct agcgtggtgg atgtgggtga cttcacaata tcaatcaacg
4441 agggccttcc ctctggggtg ccctgcacct cccaatggaa ctccatcgcc cactggcttc
4501 tcactctttg tgcactctcc gaagtcacaa atttgtcccc agacatcata caggctaatt
4561 ctctcttctc cttctatggt gatgatgaaa ttgttagtac agacataaaa ttggacccag
4621 agaaattgac agcaaagctt aaggaatatg ggttgaaacc aacccgccct gacaaaactg
4681 aaggacctct cgttatttct gaagacttag atggtttgac tttcctgcgg agaactgtga
4741 cccgcgaccc agctggttgg tttggaaaac tggagcagag ctcaatactc aggcaaatgt
4801 actggactag gggccccaac catgaagatc catctgaatc aatgattcca cactctcaaa
4861 gacccataca attgatgtcc ttactgggag aggccgcact ccacggccca acattctaca
4921 gtaaaatcag caaattagtc attgcagagc taaaagaagg tggtatggat ttttacgtgc
4981 ccaggcaaga gccaatgttc agatggatga gattctcaga tctgagcacg tgggagggcg
5041 atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgaatgacgc caacccatct
5101 gatgggtccg cagccaacct cgtcccagag gtcagcaatg aggttatggc tttggagccc
5161 gttgtcggtg ccgctattgc ggcgcctgta gcgggccaac aaaatgtaat tgacccctgg
5221 attagaaaca attttgtaca agcccctggt ggagagttca cagtatcccc tagaaacgct
5281 ccaggtgaaa tactatggag cgcgccctta ggccctgatc tgaatcccta cctatctcat
5341 ttggccagaa tgtataatgg ttatgcaggt ggttttgaag tgcaggtgat cctcgcgggg
5401 aacgcgttca ccgccggaaa aattatattt gcagcagtcc caccaaattt tccaactgaa
5461 ggcctgagtc ccagccaggt cactatgttc ccccacataa tagtagatgt taggcaattg
5521 gaacctgtgt tgatcccctt acctgatgtt aggaataact tctatcatta taatcagaca
5581 aatgattcta ccattaaatt gatagcaatg ctgtatacac cacttagggc caataatgct
5641 ggggaagatg tctttacagt ctcttgtcga gtcctcacta ggccgtcccc tgattttgat
5701 tttatatttt tggtgccacc cacagttgag tcaagaacta aaccatttac tgtcccaatc
5761 ttaaccgttg aagaaatgac caattcaaga ttccccattc ctttggaaaa gttgttcacg
5821 ggtcccagcg gtgcctttgt tgtccaacca caaaatggca ggtgcacgac tgatggcgtg
5881 ctcttaggca ccacccaact gtctcctgtc aacatctgca ccttcagagg ggatgtcacc
5941 cacattgcag gttctcgtaa ttacacaatg aatttggcat ctctaaattg gaacaattat
6001 gacccaacag aagaaattcc agcccctctg ggaactccag atttcgtggg aaagatccaa
6061 ggtgtgctca ctcaaaccac aaaaggagat ggctcgaccc gtggccataa agctacagtt
6121 tacactggga gtgccccctt tactccaaag ctgggcagtg ttcaattcag tactgacaca
6181 gaaaatgatt ttgaaactca ccaaaacaca aaattcaccc cagtcggtgt catccaggat
6241 ggtagcacca cccaccgaaa tgaaccccaa caatgggtgc tcccaagtta ttcaggtaga
6301 gatgttcata atgtacacct agcccctgct gtagccccca cttttccggg tgaacaactt
6361 cttttcttca ggtccactat gcccggatgc agcgggtatc ccaacatgga tttagattgc
6421 ctactccccc aggagtgggt gcagcacttc taccaagagg cagctccagc acaatctgat
6481 gtggctctat tgagatttgt gaatccagac acgggtaggg tcctgtttga gtgcaaactt
6541 cataaatcag gctatgtcac agtggctcac accggtcagc atgatttggt catccccccc
6601 aatggctatt ttaggtttga ttcctgggtt aatcagttct acacgcttgc ccccatggga
6661 aacggaacgg ggcgtaggcg cgccttataa tggctggagc tttctttgct ggattggcat
6721 ctgatgtcct tggctctgga cttggttccc taatcaatgc tggggctggg gccatcaacc
6781 aaaagattga ttttgaaaat aatagaaaat tgcagcaagc ttccttccag tttagcagta
6841 atctacaaca ggcttccttt caacacgata aagagatgct ccaagcacaa attgaggcca
6901 ctaaaaagtt gcaacaggaa atgatgaaag tcaaacaggc aatgctccta gaaggtggat
6961 tctctgaaac agatgcagcc cgtggggcaa tcaacgcccc catgacaaag gttttggact
7021 ggagcggaac aaggtactgg gcccctgatg ctaggaccac aacatacaat gcaggccgct
7081 tttccacccc tcaaccttcg gggacgctgc caggaagaat caatcccagg actcccaccc
7141 ccgctcgggg ctcctccagc acatcttcta atgcttctac tgctacttct atacattcaa
7201 atcagactgt ttcaacgaga cttggttcta cagctggttc tggtaccaat gtctcgagtc
7261 tcccgtcaac tgcaaggact aggagttggg ttgaggatca aaacagaaat ttgtcacctt
7321 tcatgagggg ggctcataac atatcgtttg tcaccccacc atctagcaga tcctctagcc
7381 aaggcacagt ctcaaccgtg cctaaaggag ttttggactc ctggactggc
//