Typing tool
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Typing tool
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Complete norovirus genomes
| KM198563 | GII.3 | |
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| GII.P21 |
ORF1: 1..5100
ORF2: 5081..6727
ORF3: 6727..7277
LOCUS KM198563 7277 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/C2365/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198563
VERSION KM198563.1
KEYWORDS .
SOURCE Norovirus Hu/GII/C2365/2010/VNM
ORGANISM Norovirus Hu/GII/C2365/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7277)
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 7277)
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..7277
/organism="Norovirus Hu/GII/C2365/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/C2365/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1527007"
/country="Viet Nam"
/collection_date="15-Sep-2010"
/note="genotype: GII"
CDS 1..5100
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02817.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVFSNMTVTFKRALGARS
KQPPPKDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKEGVSGLPELSTVTQPE
ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKIELTPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLVTYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQAEDLEETSNEEGC
PKPKNDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTVINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCW
NGETFTGKLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGIIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQAHSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5081..6727
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02818.1"
/translation="MKMASNDAAPSNDGAAGLVPEINSEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGMLTRSTSRASDQADTVTPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESDDFYQNQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6727..>7277
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02819.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQVEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPVTKVLDWNG
TRYWAPGATSTTSMSGGFTNQTVHRSTPNFKTNQAPKPTPSSGSSVRSNSTQITNLSS
HSSGSSRSSGSTVVSSIPSSNRT"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgctgctg ccaacagcaa caacgacaac
61 gcaaaatctt caagtgacgg ggtattttct aatatgactg tcacttttaa acgagccctc
121 ggggcgcggt ctaaacagcc gcccccgaag gacaaaccac caaaaccccc aagaccaccc
181 acaccagagt tggttaaagc aatcccccct cccccaccca acggggagga cgaaccaatc
241 atttcttaca acgtcaaaga gggggtttct ggactgcctg aactctcaac tgtcacccaa
301 ccggaagaga gctctacagc attcagcgtt ccccctctta gccagaggga gaacagagat
361 gcaaaggaac cattgactgg aaccatcctg gagatgtggg acggggagat ctaccattat
421 ggcttatatg tggaacgagg gttagtgcta ggtgtacaca aaccaccagc agctatcagc
481 cttgctaaga ttgagctgac ccccttgtct ttatattgga 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 gctctctcat cattgtttac aagaccaatt aaggacatta ttgggaagtt gaaaccccta
841 aacatcctca acatcctagc cacatgtgat tggacttttg caggcatagt agaatccctg
901 atccttttgg ctgaactgtt tggagttttc tggacacccc cagatgtgtc tgcaatgatc
961 gctcccttac tgggtgatta cgagctgcag gggcccgagg acctcgctgt ggaactcgta
1021 cccgtagtaa tgggagggat aggtttggtg ctgggattca ccaaagagaa aatcggcaaa
1081 atgctttcat ctgctgcttc aaccctgagg gcatgcaaag atctcggtgc atatgggttg
1141 gagatcctca aattggtcat gaagtggttt ttcccaaaga aagaagagaa gaacgaattg
1201 gcaatggtga gatccatcga ggatgcagtg ctagatcttg aggccattga gaacaaccac
1261 atgacagctc tactcaagga taaagacagc cttgtaacct acatgaggac tcttgacatg
1321 gaggaggaga aggcgaggaa actttccacc aagtctgcct cgccggatat tgtgggcacg
1381 ataaacgccc tactgtcaag gattgcagct gcccggtctc tagtgcacag ggctaaggag
1441 gaactgtcaa gcaggccccg accggtcgtt gtgatgattt cagggagacc gggcataggg
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 caaaggcaaa
1741 gtctttgaca gtgacgccat aataataacc accaatttgg ccaacccagc gccactggat
1801 tacgtcaact ttgaagcctg ctcaagacgc atagacttcc tcgtctacgc tgatgcccct
1861 gaagttgaga aggctaaacg ggacttccca ggccaaccag acatgtggaa agacaccttt
1921 aaacctgatt tctcacacat aaaactgaca ttagccccgc aaggaggttt tgataagaat
1981 ggtaacactc ctcatgggaa gggtgtcatg aagaccctca ctgccagttc cctcgttgcc
2041 cgagcatcgg ggctcctcca cgagagatta gacgaatacg agctgcaggg cccaactccc
2101 acaacattca acttcgaccg caacaaggtg cttgctttta gacagcttgc tgctgaaaac
2161 aagtacggcc ttgttgacac aatgagggtc ggatcacagc tcaagaatgt caaaactatg
2221 acagaactca agcaggctct taagaacatc tcagtcaaga aatgtcagct tgtgtatggt
2281 gggggcacgt acacactcga atctgatggc aaaggcaatg tgcatgtcga gaaggtgaat
2341 aacaccagtg tgcaaaccaa caacgagctc tccggggcct tgcaccatct caggtgtgcc
2401 agaatcaggt actatgttaa gtgtgtccag gaagctctat actccatctt gcaaattgct
2461 ggggctgcat tcattactac gcgcattgca aagcgcatga acatacaaaa cctctggtcc
2521 aaaccacagg cagaagatct ggaggagact agcaatgagg agggttgtcc aaaacctaaa
2581 aatgatgagg agtttgtcat ctcctctgat gacatcaaaa ctgagggcaa gaaaggaaag
2641 aataagaccg gccgtggcaa gaagcacaca gccttttcca gcaaaggact cagtgacgag
2701 gagtacgaag aatataaaag aatcagggaa gaaagaaatg gcaagtactc catagaggaa
2761 tacctacagg atagagacaa gtactatgag gaggtggcca tagccagggc aactgaggaa
2821 gacttctgtg aagaagagga ggcaaaaatc cggcaaagga tatttagacc aacaaggaaa
2881 caacgcaaag aggaaagggc ctctcttggt ttggtcacag gttctgagat caggaagaga
2941 aacccggatg acttcaagcc caaagggaaa ctgtgggccg atgatgatag gagtgttgac
3001 tacaatgaga gacttagttt cgaggctcca ccaagcattt ggtcacgaat agtcaacttt
3061 ggctcagggt ggggcttttg ggtctcgcct agcctcttca taacatcaac ccatgtcatt
3121 ccccaaggcg cacaggagtt ctttggagtg cccataaaac aaatacaaat tcacaagtca
3181 ggcgagttct gccggcttag gttcccaaaa ccaatcagga cagatgtcac aggcatgatc
3241 ctggaggaag gtgctccaga aggcactgtt gccacacttc tcatcaagag accaactggg
3301 gagctcatgc ccttggcagc cagaatgggc acccacgcaa ccatgaaaat tcagggtcgc
3361 actgttggtg gacagatggg catgttgctc acagggtcta acgctaagag tatggacctg
3421 ggtacaactc ctggcgattg tggttgtccc tatatctaca agaggggaaa cgactacgtg
3481 gtcattgggg ttcacactgc cgccgctcgt ggaggaaaca ccgtcatctg tgcaactcaa
3541 ggaaacgagg gtgaggccat gttagaaggt ggtgacaaca agggaactta ctgtggagca
3601 ccaatattag gccctggaaa tgcccccaaa ctcagcacca aaaccaaatt ttggagatct
3661 tccactaccc ccctgccacc cggaacctat gagccagctt atctgggtgg caaggaccct
3721 agagtgaaag gtggcccctc actgcaacag gttatgaggg accaactaaa accattcact
3781 gagcccagag gcaaaccacc caaaccaagt gtgctagaag ccgccaagaa gactgtaatc
3841 aatgtgcttg aacaaacaat agacccacct cagaaatgga catacgcaca ggcgtgtgca
3901 tcactagaca agaccacttc cagcggccac ccttaccaca tgcggaagaa cgattgctgg
3961 aatggggaga ctttcacagg aaaactggca gaccaagcat caaaggctaa cctaatgtat
4021 gaggaaggaa agaacatgac cccagtatac acaggagctc tgaaagatga gctagtcaag
4081 actgataaga tctatggaat aatcaagaag agactcctgt ggggttcaga cctatcaacc
4141 atgatacggt gtgcacgagc cttcggtggg ttaatggacg aactcaaggc ccattgcatc
4201 acactaccag tcagggttgg tatgaacatg aacgaggatg gacccataat ctttgagaaa
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 tctgaagtta cagacctgtc ccctgacatc
4561 atccaggcac attccctgtt ctccttttat ggtgatgatg aaatagtgag cacagatatc
4621 aaactggacc cagaaaaatt aacaacaaaa ttgaaggaat acgggctaaa accaacccgt
4681 cctgacaaaa cagaaggacc cttaatcatc tctgaagatt tggatggcct gaccttctta
4741 cggagaacgg tgacccgtga tccggccggg tggtttggca aactggacca aagttcaata
4801 ctcaggcaga tgtactggac caggggacca aaccatgagg accctttcga aacaatgata
4861 ccacactccc aaagacccat acaactgatg tcattattgg gtgaagctgc gctgcatggc
4921 ccatcattct acagtaaaat cagcaaattg gtcatctcag aattgaaaga 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 ctcaccggtc agcaaaatat
5221 aattgatccc tggattatga ataattttgt gcaagcacct ggtggtgagt tcacagtatc
5281 ccctagaaat tcccctggtg aagttcttct caatttggaa ttgggtccag aaataaatcc
5341 ctatttggcc catcttgcta gaatgtataa tggttatgca ggtggatttg aagtgcaggt
5401 ggtcctagct ggaaatgcgt ttacagcagg aaagataatc tttgcagcta ttccccctaa
5461 ttttccaatt gataatctaa gtgcagcaca gatcacaatg tgtccacatg tgattgtgga
5521 tgttaggcag ctggaaccag tcaacctccc gatgcctgac gttcgcaaca actttttcca
5581 ttacaatcag gggtctgatt cgagattgcg cctaattgca atgctatata cacctcttag
5641 ggcaaataac tctggggatg atgttttcac tgtgtcttgt agagtgctaa ctagacctag
5701 tcctgacttc tcatttaatt tccttgtgcc acccactgtg gagtcaaaga caaaaccctt
5761 ttccctcccc attttgacta tctctgaaat gtccaattct aggttcccag taccaattga
5821 ttctctgcac accagcccta ctgagaacat tgttgtccag tgccagaatg gacgcgtcac
5881 ccttgatggt gagttgatgg gcaccaccca acttttacct agccaaatct gtgctttcag
5941 gggcatgctc accagatcaa caagcagggc cagtgaccag gccgatacag taacccctag
6001 attatttaat 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 ctgatgattt
6241 ttatcaaaac caaccaacaa gattcacccc agttggcatt ggggttgacc atgaggcaga
6301 ctttcaacaa tggactcttc ccgactatgc tggccagttc acccacaaca tgaacctagc
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 agccaaaaat ggtgactctc caataactgt ccccccaaat ggatacttta ggtttgaatc
6661 ttgggtgaac cccttttata cacttgcccc catgggaact gggaatgggc gtagaaggat
6721 tcaataatgg ctggagcttt tatagcagga ttggctggtg acatgcttac aaatactgta
6781 ggatctttag ttaatgcagg ggctaatgcc attaatcaaa caattgattt tgaaaataat
6841 aaatatttgc aaaatgcctc ttttaatcat gataaggaga tgttgaatgc acaagttgag
6901 gcaacaaaga ggttacaggc tgacatgatt gctatcaaac aaggggtttt gaccgctggc
6961 ggcttctccc ctactgatgc agcccgcggg gcaattaatg cccccgtgac aaaagtccta
7021 gattggaatg gaacgagata ctgggcgcca ggtgccacct ccacaacctc gatgtcgggt
7081 ggcttcacaa atcaaactgt gcacagatcc acaccaaatt ttaaaacgaa ccaggccccc
7141 aaacccacac ccagcagtgg gtcttcagtg aggtcaaatt caacccagat cactaacctg
7201 agttcacact cgtccgggtc gtctcgatcc agcgggtcta cagttgtcag ctcaataccg
7261 tcctctaaca ggactag
//