Typing tool
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Typing tool
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Complete norovirus genomes
| KM198583 | GII.3 | |
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| GII.P21 |
ORF1: 1..5100
ORF2: 5081..6727
ORF3: 6727..7425
LOCUS KM198583 7425 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/20493/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198583
VERSION KM198583.1
KEYWORDS .
SOURCE Norovirus Hu/GII/20493/2010/VNM
ORGANISM Norovirus Hu/GII/20493/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7425)
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 7425)
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..7425
/organism="Norovirus Hu/GII/20493/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/20493/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1526989"
/country="Viet Nam"
/collection_date="19-Mar-2010"
/note="genotype: GII"
CDS 1..5100
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02877.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVFSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKEGVSGLPELSTVTQPE
ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCAFSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQAEDLEETSNVEGC
PKPKNDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5081..6727
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02878.1"
/translation="MKMASNDAAPSNDGAAGLVPEINSEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGMLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6727..>7425
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02879.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFINQTVHRSTPNFKTNQAPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVSQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTG"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgctg ccaacagcaa caacgacaac
61 gcaaaatctt caagtgacgg agtattttct aatatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc gcccccgagg gacaaaccac caaaaccccc aagaccaccc
181 acaccagagt tggttaaagc aatcccccct cccccaccca acggggagga cgaaccaatc
241 atttcttaca acgtcaaaga gggggtttct ggtctgcctg aactctcaac tgtcacccaa
301 ccggaagaga gctctacagc attcagcgtt ccccctctta gccagaggga gaacagagat
361 gcaaaggaac cattgactgg aaccatcctg gagatgtggg atggggagat ctaccattat
421 ggcttatatg tggaacgagg gttagtgcta ggtgtacaca aaccaccagc agccatcagc
481 cttgctaagg ttgagctgac ccccttgtct ttgtattgga gaccagtgta caccccacag
541 tacctcattt cccctgacac tctcaaaaag ttgcatgggg agacattccc ttatacagcc
601 tttgataaca actgttatgc cttctgctgt tgggtacttg acttgaacga ttcatggctg
661 agtagaagga tgatacagag gacaacaggc ttcttccgac cctaccagga ctggaacagg
721 aaacccctcc ccacgatgga tgactccaaa gtgaaaaagg tggccaatgt tgtcctctgt
781 gctttctcgt cattgtttac aagaccaatt aaggacatta ttgggaagtt gaaaccccta
841 aacatcctca acatcctagc cacgtgtgat tggacttttg caggcatagt agaatccctg
901 atccttttgg ctgaactgtt tggagttttc tggacacccc cagatgtgtc tgcaatgatc
961 gctcccttac tgggtgatta tgagctgcag ggacccgagg acctcgctgt ggaactcgta
1021 cccgtagtaa tgggaggggt aggtttggtg ctgggattca ccaaagagaa aatcggcaaa
1081 atgctttcat ctgctgcttc aaccctgagg gcatgcaaag atctcggtgc atatgggttg
1141 gagatcctca agttggtcat gaagtggttt ttcccaaaga aagaagagaa aaacgaattg
1201 gcaatggtga gatccatcga ggatgcagtg ctagatcttg aggccattga gaacaaccac
1261 atgacagctc tactcaagga taaagacagc cttgcaacct acatgaggac tcttgacatg
1321 gaggaggaga aggcgaggaa actttccacc aagtctgcct cgccggatat tgtgggcacg
1381 ataaatgccc tactgtcaag gattgcagct gcccggtctc tagtgcacag ggctaaggag
1441 gaactgtcaa gcaggccccg accggtcgtt gtgatgattt cagggagacc aggcataggg
1501 aaaacccacc tagctagaga gctggcaaag aagatcgcct cctcactcac aggtgaccag
1561 agggtgggtc ttatcccacg caacggggtc gaccactggg atgcatacaa aggtgaaagg
1621 gtcgttctct gggacgacta cgggatgagc aaccctatcc acgacgccct cagactccag
1681 gagctcgctg atacctgtcc tcttacactt aactgtgaca ggattgagaa caaaggtaaa
1741 gtctttgaca gtgacgccat aataataacc accaatctgg ccaacccagc gccactggat
1801 tacgtcaact ttgaagcctg ctcaagacgc atagacttcc tcgtctatgc tgatgcccct
1861 gaagttgaga aggctaaacg ggacttccca ggccaaccag acatgtggaa agacaccttt
1921 aaacctgact tctcacacat aaaactggca ttagccccgc aaggaggttt tgacaagaat
1981 ggtaacactc ctcatgggaa gggtgtcatg aagaccctca ctgccagttc cctcgttgcc
2041 cgagcatcgg ggctccttca cgagagatta gacgaatacg agctgcaggg cccaaccccc
2101 acaacattca acttcgaccg caacaaggtg cttgctttta ggcagcttgc tgctgaaaac
2161 aagtacggcc ttgttgacac aatgagggtc ggatcacagc tcaagaatgt caaaactatg
2221 acagaactca agcaggctct taagaacatc tcagtcaaga aatgtcagct tgtgtatggt
2281 gggggcacgt acacactcga atctgatggc aaaggcaatg tgcatgtcga gaaggtgaac
2341 aacaccagtg tgcaaactaa caacgagctc tccggggctt tacaccatct caggtgtgcc
2401 agaatcaggt actatgttaa gtgtgtccag gaagctctct actccatctt gcaaattgct
2461 ggggctgcat tcattaccac gcgcattgca aagcgcatga acatacaaaa cctctggtcc
2521 aaaccacagg cagaagatct ggaggagact agtaatgtgg agggttgtcc aaaacctaaa
2581 aatgatgagg agtttgtcat ctcctctgat gacatcaaaa ctgagggcaa gaaaggaaag
2641 aataagaccg gccgtggcaa gaagcacaca gccttttcca gcaaaggact cagtgatgag
2701 gagtacgatg aatataaaag aatcagggaa gaaagaaatg gcaagtactc catagaggaa
2761 tacctacagg atagagacaa gtactatgag gaggtggcca tagccagggc aactgaggaa
2821 gacttctgtg aagaagagga ggcaaaaatc cggcaaagga tatttagacc aacaaggaaa
2881 caacgcaaag aggaaagggc ctctcttggt ttggttacag gttctgagat caggaagaga
2941 aacccagatg acttcaagcc caaagggaaa ctgtgggccg atgatgacag gagtgttgac
3001 tacaatgaga gacttagttt cgaggctcca ccaagcattt ggtcacgaat agtcaacttt
3061 ggctcagggt ggggcttttg ggtctcgccc agcctcttca taacatcaac ccatgtcatt
3121 ccccaaggcg cacaggagtt ctttggagtg cccatcaaac aaatacaaat tcacaagtca
3181 ggtgagttct gccggcttag gttcccaaaa ccaatcagga cagatgtcac aggcatgatc
3241 ctggaggaag gtgctccaga aggcactgtt gccacacttc tcatcaagag accaactggg
3301 gaactcatgc ccttggcagc cagaatgggc acccacgcga ccatgaaaat tcagggtcgc
3361 actgttggtg gacagatggg catgttactc acagggtcta acgctaagag tatggacctg
3421 ggtacaactc ctggcgattg tggttgtccc tatatctaca agagggggaa cgactacgtg
3481 gtcattgggg ttcacactgc cgccgctcgt ggaggaaaca ccgtcatctg tgcaactcaa
3541 ggaaacgagg gtgaggccat gttagaaggt ggtgacaaca agggaactta ctgtggagca
3601 ccaatattgg gccctggaaa tgcccctaaa ctcagcacca aaaccaaatt ttggagatct
3661 tccaccaccc ccctgccacc cggaacctat gagccagctt atctgggtgg caaggaccct
3721 agagtgaaag gtggcccctc actgcaacag gttatgaggg accaactaaa accattcact
3781 gagcccagag gcaaaccacc caaaccaagt gtgctagaag ccgccaagaa gactataatc
3841 aatgtgcttg aacaaacaat agacccacct cagaaatgga catacgcaca ggcgtgtgca
3901 tcactagaca agaccacttc cagcggccac ccttaccaca tgcggaagaa cgattgctgg
3961 aatggggaga ctttcacagg aaaactggca gaccaagcat caaaggctaa cctaatgttt
4021 gaggaaggaa agaacatgac cccagtatac acaggagctc tgaaagatga gctagtcaag
4081 actgataaga tctatggaac aatcaagaag agactcctgt ggggttcaga cctatcaacc
4141 atgatacggt gtgcacgagc cttcggtggg ctaatggacg aactcaaggc ccattgcgtc
4201 acactaccag tcagggttgg tatgaacatg aatgaggatg gacccataat cttcgagaaa
4261 cattccagat acaaatacca ttatgatgca gactactccc gttgggattc aacacaacaa
4321 agagcagtgt tggctgcagc cctggaaata atggtcaaat tctcaccaga accccatctg
4381 gcccaagtgg ttgcagaaga cctcttatcc cccagtgtga tggatgtggg tgacttcaag
4441 atatcaatca acgaggggtt accctctggt gttccctgca cctcacaatg gaactccatt
4501 gcccactggc tcctcacact atgtgcactg tctgaggtca cagacctgtc tcctgacatc
4561 atccaggcaa attccctgtt ctccttttat ggtgatgatg aaatagtgag cacagatatc
4621 aaactggacc cagaaaagtt aacaacaaaa ttgaaggaat acgggctaaa gccaacccgt
4681 cctgacaaaa cagaaggacc cttaatcatc tctgaagatt tggatggcct gaccttctta
4741 cggagaacgg tgacccgtga tccggccggg tggtttggca aattggacca aagttcaata
4801 ctcaggcaga tgtactggac caggggacca aaccatgagg accccttcga aacaatgata
4861 ccacactccc aaagacccat acaactgatg tcattattgg gtgaagctgc gttgcatggt
4921 ccatcattct acagtaaaat cagcaaattg gtcatctcag aactgaaaga gggtggaatg
4981 gatttttacg tgcccagaca agaaccaatg ttcaggtgga tgagattctc agatttgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccgctcca tctaatgatg gtgccgccgg cctcgtccca gagatcaaca gtgaggcaat
5161 ggcgctagag ccagtggcgg gtgcagcgat agcagcaccc ctcactggtc agcaaaatat
5221 aattgatccc tggattatga acaattttgt gcaagcacct ggtggtgagt tcacagtatc
5281 ccctagaaat tcccctggtg aagttcttct caatttggaa ttgggtccag aaataaatcc
5341 ctacttggcc catcttgcta gaatgtataa tggttatgca ggtggatttg aagtgcaggt
5401 ggtcctagct ggaaatgcgt ttacagcagg aaagataatc tttgcagcta ttccccctaa
5461 ttttccaatt gataatctaa gtgcagcaca gatcacaatg tgtccacatg tgattgtgga
5521 tgttagacag ctggaaccag tcaacctccc gatgcctgac gttcgcaata actttttcca
5581 ttacaatcag gggtctgatt cgagattgcg cctaattgca atgctatata cacctcttag
5641 ggcaaataac tctggggatg atgttttcac tgtgtcttgc agagtgctaa ctagacctag
5701 tcctgacttc tcatttaatt tccttgtgcc acccactgtg gagtcaaaga caaaaccctt
5761 ttccctcccc attctgacta tctctgaaat gtccaattct aggttcccag taccaattga
5821 ttctctgcac accagcccta ctgagaacat tgttgtccag tgccagaatg gacgcgtcac
5881 ccttgatggt gagttgatgg gcaccaccca acttttacct agccaaatct gtgctttcag
5941 gggcatgctc accagatcaa caagcagggc cagtgaccag gccgatacag caacccctag
6001 attgtttaat tattattggc atatacaatt ggataaccta aatggaactc cttatgaccc
6061 tgcagaagat ataccaggcc ccctagggac accagatttc cggggcaaag tctttggcgt
6121 ggccagccag agaaatcctg atgccacgac tagggcacat gaagcaaaga tagacacaac
6181 atctggccgc ttcaccccaa aattaggctc actagagatt tccactgagt ctggagattt
6241 tgatcaaaac caaccaacaa gattcacccc agttggcatt ggggttgacc atgaggcaga
6301 ttttcaacaa tggactcttc ccgactatgc tggccagttc acccacaaca tgaacttagc
6361 cccagctgtt gctcccaact tccctggtga gcagctcctt ttcttccgct cacagttgcc
6421 atcttctggt gggcggtcca acgggattct agactgcctg gtcccccaag aatgggtaca
6481 gcacttctac caagaatcag ccccctccca aactcaagtg gccctggtta ggtatgtcaa
6541 ccctgacact ggtagagtgt tatttgaggc caagctgcac aaattaggtt tcatgactat
6601 agccaagagt ggtgactctc caataactgt ccccccaaat ggatacttca ggtttgaatc
6661 ttgggtgaac cccttttata cacttgcccc catgggaact gggaatgggc gtagaaggat
6721 tcaataatgg ctggagcttt tatagcagga ttggctggtg acatgctcac aaatactgta
6781 ggatctttag ttaatgcagg ggctaatgcc attaatcaaa caattgattt tgaaaataat
6841 aaatatttgc aaaatgcctc ttttaatcat gataaggaga tgttgaatgc acaaattgag
6901 gcaacaaaga ggttacaggc tgacatgatt gctatcaaac aaggggtttt gaccgctggc
6961 ggcttctccc ctactgatgc agcccgcggg gcaattaatg cccccatgac aaaagtccta
7021 gattggaatg gaacgagata ctgggcgcca ggtgccacct ccacaacctc gatgtcgggt
7081 ggcttcataa atcaaactgt gcacagatcc acaccaaatt ttaaaacgaa ccaggccccc
7141 aaacccgcac ccagcagtgg gtcttcagtg aggtcaaatt caacccaaat cactagcctg
7201 agctcacact cgtccgggtc gtctcgatcc agcgggtcta cagttgtcag ctcaataccg
7261 tcctctaaca ggactaggga ctgggtcagc caacaaaatt ttaatttgga accacacatg
7321 cctggatctc ttaggacagc ttttgtcact ccaccatcta gtacagcctc tagctcaggc
7381 acagtctcaa ctgtgcccaa aaatgttttg gactcctgga ctggc
//