Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KM198586 | GII.3 | |
|
|---|---|---|---|
| GII.P21 |
ORF1: 1..5097
ORF2: 5078..6724
ORF3: 6724..7422
LOCUS KM198586 7422 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/30400/2010/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198586
VERSION KM198586.1
KEYWORDS .
SOURCE Norovirus Hu/GII/30400/2010/VNM
ORGANISM Norovirus Hu/GII/30400/2010/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7422)
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 7422)
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..7422
/organism="Norovirus Hu/GII/30400/2010/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/30400/2010/VNM"
/host="Homo sapiens"
/db_xref="taxon:1526999"
/country="Viet Nam"
/collection_date="11-Jan-2010"
/note="genotype: GII"
CDS 1..5097
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02886.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVFSNMAVTFKRALGARP
KQPPPRDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKEGVSGLPELSTVTQPE
ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQAEDLEETNEEGCP
KPKNDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVT
GSEIRKRNPDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGT
VATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCWN
GETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDLS
TMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
TQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLKE
YGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN
HEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5078..6724
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02887.1"
/translation="MKMASNDAAPSNDGAAGLVPEINSEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGMLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6724..>7422
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02888.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTPMSGGFINQTVHRSTPNFKTNQAPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
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 acggggagat 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 gctctctcgt cattgtttac aagaccaatt aaggacatta ttgggaagtt gaaaccccta
841 aacatcctca acatcctagc cacatgtgat 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 caaaggcaaa
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 ggctcctcca cgagagatta gacgaatacg agctgcaggg cccaactccc
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 tgcaccatct caggtgtgcc
2401 agaatcaggt actatgttaa gtgtgtccag gaagctctct actccatctt gcaaattgct
2461 ggggctgcat tcattaccac gcgcattgca aagcgcatga acatacaaaa cctctggtcc
2521 aaaccacagg cagaagatct ggaggagact aatgaggagg gttgtccaaa acctaaaaat
2581 gatgaggagt ttgtcatctc ctctgatgac atcaaaactg agggcaagaa aggaaagaat
2641 aagaccggcc gtggcaagaa gcacacagcc ttttccagca aaggactcag tgatgaggag
2701 tacgatgaat ataaaagaat cagggaagaa agaaatggca agtactccat agaggaatac
2761 ctacaggata gagacaagta ctatgaggag gtggccatag ccagggcaac tgaggaagac
2821 ttctgtgaag aagaggaggc aaaaatccgg caaaggatat ttagaccaac aaggaaacaa
2881 cgcaaagagg aaagggcctc tcttggtttg gttacaggtt ctgagatcag gaagagaaac
2941 ccagatgact tcaagcccaa agggaaactg tgggccgatg atgacaggag tgttgactac
3001 aatgagagac ttagtttcga ggctccacca agcatttggt cacgaatagt caactttggc
3061 tcagggtggg gcttttgggt ctcgcccagc ctcttcataa catcaaccca tgtcattccc
3121 caaggcgcac aggagttctt tggagtgccc atcaaacaaa tacaaattca caagtcaggt
3181 gagttctgcc ggcttaggtt cccaaaacca atcaggacag atgtcacagg catgatcctg
3241 gaggaaggtg ctccagaagg cactgttgcc acacttctca tcaagagacc aactggggaa
3301 ctcatgccct tggcagccag aatgggcacc cacgcgacca tgaaaattca gggtcgcact
3361 gttggtggac agatgggcat gttactcaca gggtctaacg ctaagagtat ggacctgggt
3421 acaactcctg gcgattgtgg ttgtccctat atctacaaga gggggaacga ctacgtggtc
3481 attggggttc acactgccgc cgctcgtgga ggaaacaccg tcatctgtgc aactcaagga
3541 aacgagggtg aggccatgtt agaaggtggt gacaacaagg gaacttactg tggagcacca
3601 atattgggcc ctggaaatgc ccccaaactc agcaccaaaa ccaaattttg gagatcttcc
3661 accacccccc tgccacccgg aacctatgag ccagcttatc tgggtggcaa ggaccctaga
3721 gtgaaaggtg gcccctcact gcaacaggtt atgagggacc aactaaaacc attcactgag
3781 cccagaggca aaccacccaa accaagtgtg ctagaagccg ccaagaagac tataatcaat
3841 gtgcttgaac aaacaataga cccacctcag aaatggacat acgcacaggc gtgtgcatca
3901 ctagacaaga ccacttccag cggccaccct taccacatgc ggaagaacga ttgctggaat
3961 ggggagactt tcacaggaaa actggcagac caagcatcaa aggctaacct aatgtttgag
4021 gaaggaaaga acatgacccc agtatacaca ggagctctga aagatgagct agtcaagact
4081 gataagatct atggaacaat caagaagaga ctcctgtggg gttcagacct atcaaccatg
4141 atacggtgtg cacgagcctt cggtgggcta atggacgaac tcaaggccca ttgcgtcaca
4201 ctaccagtca gggttggtat gaacatgaat gaggatggac ccataatctt tgagaaacat
4261 tccagataca aataccatta tgatgcagac tactcccgtt gggattcaac acaacaaaga
4321 gcagtgttgg ctgcagccct ggaaataatg gtcaaattct caccagaacc ccatctggcc
4381 caagtggttg cagaagacct cttatccccc agtgtgatgg atgtgggtga cttcaagata
4441 tcaatcaacg aggggttacc ctctggtgtt ccctgcacct cacaatggaa ctccattgcc
4501 cactggctcc tcacactatg tgcactgtct gaggtcacag acctgtctcc tgacatcatc
4561 caggcaaatt ccctgttctc cttttatggt gatgatgaaa tagtgagcac agatatcaaa
4621 ctggacccag aaaaattaac aacaaaattg aaggaatacg ggctaaagcc aacccgtcct
4681 gacaaaacag aaggaccctt aatcatctct gaagatttgg atggcctgac cttcttacgg
4741 agaacggtga cccgtgatcc ggccgggtgg tttggcaaat tggaccaaag ttcaatactc
4801 aggcagatgt actggaccag gggaccaaac catgaggacc ccttcgaaac aatgatacca
4861 cactcccaaa gacccataca actgatgtca ttattgggtg aagctgcgtt gcatggtcca
4921 tcattctaca gtaaaatcag caaattggtc atctcagaat tgaaagaggg tggaatggat
4981 ttttacgtgc ccagacaaga accaatgttc aggtggatga gattctcaga tttgagcacg
5041 tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt cgaatgacgc
5101 cgctccatct aatgatggtg ccgccggcct cgtcccagag atcaacagtg aggcaatggc
5161 gctagagcca gtggcgggtg cagcgatagc agcacccctc actggtcagc aaaatataat
5221 tgatccctgg attatgaata attttgtgca agcacctggt ggtgagttca cagtatcccc
5281 tagaaattcc cctggtgaag ttcttctcaa tttggaattg ggtccagaaa taaatcccta
5341 cttggcccat cttgctagaa tgtataatgg ttatgcaggt ggatttgaag tgcaggtggt
5401 cctagctgga aatgcgttta cagcaggaaa gataatcttt gcagctattc cccctaattt
5461 tccaattgat aatctaagtg cagcacagat cacaatgtgt ccacatgtga ttgtggatgt
5521 tagacagctg gaaccagtca acctcccgat gcctgacgtt cgcaataact ttttccatta
5581 caatcagggg tctgattcga gattgcgcct aattgcaatg ctatatacac ctcttagggc
5641 aaataactct ggggatgatg ttttcactgt gtcttgcaga gtgctaacta gacctagtcc
5701 tgacttctca tttaatttcc ttgtgccacc cactgtggag tcaaagacaa aacccttttc
5761 cctccccatt ctgactatct ctgaaatgtc caattctagg ttcccagtac caattgattc
5821 tctgcacacc agccctactg agaacattgt tgtccagtgc cagaatggac gcgtcaccct
5881 tgatggtgag ttgatgggca ccacccaact tttacctagc caaatctgtg ctttcagggg
5941 catgctcacc agatcaacaa gcagggccag tgaccaggcc gatacagcaa cccctagatt
6001 gtttaattat tattggcata tacaattgga taacctaaat ggaactcctt atgaccctgc
6061 agaagatata ccaggccccc tagggacacc agatttccgg ggcaaagtct ttggcgtggc
6121 cagccagaga aatcctgatg ccacgactag ggcacatgaa gcaaagatag acacaacatc
6181 tggccgcttc accccaaaat taggctcact agagatttcc actgagtctg gagattttga
6241 tcaaaaccaa ccaacaagat tcaccccagt tggcattggg gttgaccatg aggcagattt
6301 tcaacaatgg actcttcccg actatgctgg ccagttcacc cacaacatga acttagcccc
6361 agctgttgct cccaacttcc ctggtgagca gctccttttc ttccgctcac agttgccatc
6421 ttctggtggg cggtccaacg ggattctaga ctgcctggtc ccccaagaat gggtacagca
6481 cttctaccaa gaatcagccc cctcccaaac tcaagtggcc ctggttaggt atgtcaaccc
6541 tgacactggt agagtgttat ttgaggccaa gctgcacaaa ttaggtttca tgactatagc
6601 caagagtggt gactctccaa taactgtccc cccaaatgga tacttcaggt ttgaatcttg
6661 ggtgaacccc ttttatacac ttgcccccat gggaactggg aatgggcgta gaaggattca
6721 ataatggctg gagcttttat agcaggattg gctggtgaca tgctcacaaa tactgtagga
6781 tctttagtta atgcaggggc taatgccatt aatcaaacaa ttgattttga aaataataaa
6841 tatttgcaaa atgcctcttt taatcatgat aaggagatgt tgaatgcaca aattgaggca
6901 acaaagaggt tacaggctga catgattgct atcaaacaag gggttttgac cgctggcggc
6961 ttctccccta ctgatgcagc ccgcggggca attaatgccc ccatgacaaa agtcctagat
7021 tggaatggaa cgagatactg ggcgccaggt gccacctcca caaccccgat gtcgggtggc
7081 tttataaatc aaactgtgca cagatccaca ccaaatttta aaacgaacca ggcccccaaa
7141 cccgcaccca gcagtgggtc ttcagtgagg tcaaattcaa cccaaatcac tagcctgagc
7201 tcacactcgt ccgggtcgtc tcgatccagc gggtctacag ttgtcagctc aataccgtcc
7261 tctaacagga ctagggactg ggtcaaccaa caaaatttta atttggaacc acacatgcct
7321 ggatctctta ggacagcttt tgtcactcca ccatctagta cagcctctag ctcaggcaca
7381 gtctcaactg tgcccaaaaa tgttttggac tcctggactg gc
//