Typing tool
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Typing tool
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Complete norovirus genomes
| KM198500 | GII.3 | |
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| GII.P21 |
ORF1: 82..5088
ORF2: 5069..6715
ORF3: 6715..7413
LOCUS KM198500 7413 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/C2H-20/2011/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198500
VERSION KM198500.1
KEYWORDS .
SOURCE Norovirus Hu/GII/C2H-20/2011/VNM
ORGANISM Norovirus Hu/GII/C2H-20/2011/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7413)
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 7413)
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..7413
/organism="Norovirus Hu/GII/C2H-20/2011/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/C2H-20/2011/VNM"
/host="Homo sapiens"
/db_xref="taxon:1527010"
/country="Viet Nam"
/collection_date="05-Sep-2011"
/note="genotype: GII"
CDS 82..5088
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02628.1"
/translation="MAVTFKRALGARPKQPPPGDKPPKPPRPPTPELVKAIPPPPPNG
EDEPIISYNVKEGVSGLPELSTVTQPEESSTAFSVPPLSQRENRDAKEPLTGTILEMW
DGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLYWRPVYTPQYLISPDTLKKL
HGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDS
KVKKVANVVLCALSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELF
GVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSA
ASTLRACKDLGAYGLEILKLVMKWFFPKKEEKNELAMVRSIEDAVLDLEAIENNHMTA
LLKDKDSLATYMRTLDMEEEKARKLSTKSASPDIVGTINALLSRIAAARSLVHRAKEE
LSSRPRPVVVMISGRPGIGKTHLARELAKKIASSLTGDQRVGLIPRNGVDHWDAYKGE
RVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPA
PLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQPDMWKDTFKPDFSHIKLALAPQG
GFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLDEYELQGPTPTTFNFDRNKVLAF
RQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKNISVKKCQLVYGGGTYTLESDGK
GNVHVEKVNNASVQTNNELSGALHHLRCARIRYYVKCVQEALYSILQIAGAAFITTRI
AKRMNIQNLWSKPQAEDLEETSNEEGCPKPKNDEEFVISSDDIKTEGKKGKNKTGRGK
KHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEEDFCEE
EEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNE
RLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAQEFFGVPIKQIQIHKSG
EFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQG
RTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVIC
ATQGNEGEAMLEGGDNKGTYCGAPILGPGNAPKLSTKTKFWRSSTTPLPPGTYEPAYL
GGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKW
TYAQACASLDKTTSSGHPYHMRKNDCWNGETFTGKLADQASKANLMFEEGKNMTPVYT
GALKDELVKTDKIYGTIKKRLLWGSDLSTMIRCARAFGGLMDELKAHCVTLPVRVGMN
MNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVKFSPEPHLAQVVAED
LLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANS
LFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRPDKTEGPLIISEDLDGLTFLRRT
VTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGP
SFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE
"
CDS 5069..6715
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02629.1"
/translation="MKMASNDAAPSNDGAAGLVPEINSEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGMLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
CDS 6715..>7413
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02630.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFINQTVHRSTPNFKTNQAPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLGSWTG"
ORIGIN
1 tataacgacg cttccgctgc cgctgctgcc aacagcaaca acgacaacgc aaaatcttca
61 agtgacggag tattttctaa tatggctgtc acttttaaac gagccctcgg ggcgcggcct
121 aaacagccgc ccccggggga caaaccacca aaacccccaa gaccacccac accagagttg
181 gttaaagcaa tcccccctcc cccacccaac ggggaggacg aaccaatcat ttcttacaac
241 gtcaaagagg gggtttctgg tctgcctgaa ctctcaactg tcacccaacc ggaagagagc
301 tctacagcat tcagcgttcc ccctcttagc cagagggaga acagagatgc aaaggaacca
361 ctgactggaa ccatcctgga gatgtgggac ggggagatct accattatgg cttatatgtg
421 gaacgagggt tagtgctagg tgtacacaaa ccaccagcag ccatcagcct tgctaaggtt
481 gagctgaccc ccttgtcttt gtattggaga ccagtgtaca ccccacagta cctcatttcc
541 cctgacactc tcaaaaagtt gcatggggag acattccctt atacagcctt tgataacaac
601 tgttatgcct tctgctgctg ggtacttgac ttgaacgatt catggctgag tagaaggatg
661 atacagagga caacaggctt cttccgaccc taccaggact ggaacaggaa acccctcccc
721 acgatggatg actccaaagt gaaaaaggtg gccaatgttg tcctctgtgc tctctcgtca
781 ttgtttacaa gaccaattaa ggacattatt gggaagttga aacccctaaa catcctcaac
841 atcctagcca catgtgattg gacttttgca ggcatagtag aatccctgat ccttttggct
901 gaactgtttg gagttttctg gacaccccca gatgtgtctg caatgatcgc tcccttactg
961 ggtgattatg agctgcaggg acccgaggac ctcgctgtgg aactcgtacc cgtagtaatg
1021 ggagggatag gtttggtgct gggattcacc aaagagaaaa tcggcaaaat gctttcatct
1081 gctgcttcaa ccctgagggc atgtaaagat ctcggtgcat atgggttgga gatcctcaag
1141 ttggtcatga agtggttttt cccaaagaaa gaagagaaaa acgaattggc aatggtgaga
1201 tccatcgagg atgcagtgct agatcttgag gccattgaga acaaccacat gacagctcta
1261 ctcaaggaca aagacagcct tgcaacctac atgaggactc ttgacatgga ggaggagaag
1321 gcgaggaaac tttccaccaa gtctgcctca ccggatattg tgggcacgat aaatgcccta
1381 ctgtcaagga ttgcagctgc ccggtctcta gtgcacaggg ctaaggagga actgtcaagc
1441 aggccccgac cggtcgttgt gatgatttca gggagaccag gcatagggaa aacccaccta
1501 gctagagagc tggcaaagaa gatcgcctcc tcactcacag gtgaccagag ggtgggtctt
1561 atcccgcgca acggggtcga ccactgggat gcatacaaag gtgaaagggt cgttctctgg
1621 gacgactacg ggatgagcaa ccctatccac gacgccctca gactccagga gctcgctgat
1681 acctgtcctc ttacacttaa ctgtgacagg attgagaaca aaggcaaagt ctttgacagt
1741 gacgccataa taataaccac caatctggcc aacccagcgc cactggatta cgtcaacttt
1801 gaagcctgct caagacgcat agacttcctc gtctatgctg atgcccctga agttgagaag
1861 gctaaacggg acttcccagg ccaaccagac atgtggaaag acacctttaa acctgacttc
1921 tcacacataa aactggcatt agccccgcaa ggaggttttg acaagaatgg taacactcct
1981 catgggaagg gtgtcatgaa gaccctcact gctagttccc tcgttgcccg agcatcggga
2041 ctcctccacg agagattaga cgaatacgag ctgcagggcc caactcccac aacattcaac
2101 ttcgaccgca acaaggtgct tgcttttagg cagcttgctg ctgaaaacaa gtatggcctt
2161 gttgacacaa tgagggtcgg atcacagctc aagaatgtca aaactatgac agaactcaag
2221 caggctctta agaacatctc agtcaagaaa tgtcagcttg tgtatggtgg gggcacgtac
2281 acactcgaat ctgatggcaa aggcaatgtg catgtcgaga aggtgaacaa cgccagtgtg
2341 caaactaaca acgagctctc cggggctttg caccatctca ggtgtgccag aatcaggtac
2401 tatgttaagt gtgtccagga agctctctac tccatcttgc aaattgctgg ggctgcattc
2461 attaccacgc gcattgcaaa gcgcatgaac atacaaaacc tctggtccaa accacaggca
2521 gaagatctgg aggagactag taatgaggag ggttgtccaa aacctaaaaa tgatgaggag
2581 tttgtcatct cctctgatga catcaaaact gagggtaaga aaggaaagaa caagaccggc
2641 cgtggcaaga agcacacagc cttttccagc aaaggactca gtgatgagga gtacgatgaa
2701 tataaaagaa tcagggaaga aaggaatggc aagtactcca tagaggaata cctacaggat
2761 agagacaagt actatgagga ggtggccata gccagggcaa ctgaggaaga cttctgtgaa
2821 gaagaggagg caaaaatccg gcaaaggata tttagaccga caaggaaaca acgcaaagag
2881 gaaagggcct ctcttggttt ggttacaggt tctgagatca ggaagagaaa cccagatgac
2941 ttcaagccca aagggaaact gtgggccgat gatgacagga gtgttgacta caatgagaga
3001 cttagtttcg aggctccacc aagcatttgg tcccgaatag tcaactttgg ctcagggtgg
3061 ggcttttggg tctcgcccag cctcttcata acatcaaccc atgtcattcc ccaaggcgca
3121 caggagttct ttggagtgcc catcaaacaa atacaaattc acaagtcagg tgagttctgc
3181 cggcttagat tcccaaaacc aatcaggaca gatgtcacag gcatgatcct ggaggaaggt
3241 gctccagaag gcactgttgc cacacttctc atcaagagac caactgggga actcatgccc
3301 ttggcagcca gaatgggcac ccacgcgacc atgaaaattc agggtcgcac tgttggtgga
3361 cagatgggca tgttacttac agggtctaac gctaagagta tggacctggg tacaactcct
3421 ggcgattgtg gttgtcccta catctacaag agggggaacg actacgtggt cattggggtt
3481 cacactgccg ccgctcgtgg aggaaacacc gtcatctgtg caactcaagg aaacgagggt
3541 gaggccatgt tagaaggtgg tgacaacaag ggaacttact gtggagcacc aatattgggc
3601 cctggaaatg cccccaaact cagcaccaaa accaaatttt ggagatcttc taccaccccc
3661 ctgccacccg gaacctatga gccagcctat ctgggtggca aggaccctag agtgaaaggt
3721 ggcccctcac tgcaacaggt tatgagggac caactaaaac cattcactga gcccagaggc
3781 aaaccaccca aaccaagtgt gctagaagcc gccaagaaga ctataatcaa tgtgcttgaa
3841 caaacaatag acccacctca gaaatggaca tacgcacagg cgtgtgcatc actagacaag
3901 accacttcca gcggccaccc ttaccacatg cggaagaacg attgctggaa tggggagact
3961 ttcacaggaa aactggcaga ccaggcatca aaggctaacc taatgtttga ggaaggaaag
4021 aacatgaccc cagtatacac aggagctctg aaagatgagt tagtcaagac tgataagatc
4081 tatggaacaa tcaagaagag actcctttgg ggttcagacc tatcgaccat gatacggtgt
4141 gcacgagctt tcggtgggct aatggacgaa ctcaaggccc attgcgtcac actaccagtc
4201 agggttggta tgaacatgaa tgaggatgga cccataatct ttgagaaaca ttccagatac
4261 aaatatcatt atgatgcaga ctactcccgt tgggattcaa cacaacaaag agcagtgttg
4321 gccgcagccc tggaaataat ggtcaaattc tcaccagaac cccatctggc tcaagtggtt
4381 gcagaagacc tcttatcccc cagtgtgatg gatgtgggtg acttcaagat atcaatcaac
4441 gaggggttac cctctggtgt tccctgcacc tcacaatgga actccattgc ccactggctc
4501 ctcacactgt gtgcactgtc tgaggttaca gacctgtctc ctgacatcat ccaggcaaat
4561 tccctgttct ccttttatgg tgatgatgaa atagtgagta cagatatcaa actggaccca
4621 gaaaaattaa caacaaaatt gaaggaatac gggctaaagc caacccgtcc tgacaaaaca
4681 gaaggaccct taatcatctc tgaagatttg gatggcctga ccttcttacg gagaacggtg
4741 acccgtgatc cggccgggtg gtttggcaaa ttggaccaaa gttcaatact caggcagatg
4801 tactggacca ggggaccaaa ccatgaggac cccttcgaaa caatgatacc acactcccaa
4861 agacccatac aactgatgtc attattgggt gaagctgcgt tgcatggtcc atcattctac
4921 agtaaaatca gcaaattggt catctcagaa ttgaaagagg gtggaatgga tttttacgtg
4981 cccagacaag aaccaatgtt caggtggatg agattctcag atttgagcac gtgggagggc
5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc
5101 taatgatggt gccgccggcc tcgtcccaga gatcaacagt gaggcaatgg cgctagagcc
5161 agtggcgggt gcagcgatag cagcacccct cactggtcag caaaatataa ttgatccctg
5221 gattatgaat aattttgtgc aagcacctgg tggtgagttc acagtatccc ctagaaattc
5281 ccctggtgaa gttcttctca atttggaatt gggtccagaa ataaatccct acttggccca
5341 tcttgctaga atgtataatg gttatgcagg tggatttgaa gtgcaggtgg tcctagctgg
5401 aaatgcgttt acagcaggaa agataatctt tgcagctatt ccccctaatt ttccaattga
5461 taatctaagt gcagcacaga tcacaatgtg cccacatgtg attgtggatg ttagacagct
5521 ggaaccagtc aacctcccga tgcctgacgt tcgcaataac tttttccatt acaatcaggg
5581 gtctgattcg agattgcgcc taattgcaat gctgtataca cctcttaggg caaataactc
5641 tggggatgat gttttcactg tgtcttgcag agtgctaact agacctagtc ctgacttctc
5701 atttaatttc cttgtgccac ccactgtgga gtcaaagaca aaaccctttt ccctccccat
5761 tctgactatc tctgaaatgt ccaattctag gttcccagta ccaattgatt ctctgcacac
5821 cagtcctact gagaacattg ttgtccagtg ccagaacgga cgcgtcaccc ttgatggtga
5881 gttgatgggc accactcaac ttttacctag ccaaatctgt gctttcaggg gcatgctcac
5941 cagatcaaca agcagggcca gtgaccaggc cgatacagca acccctagat tgtttaatta
6001 ttattggcat atacaattgg ataacctaaa tggaactcct tatgaccctg cagaagatat
6061 accaggcccc ctagggacac cagatttccg gggcaaagtc tttggcgtgg ccagccagag
6121 aaatcctgat gccacgacta gggcacatga agcaaagata gacacaacat ctggccgctt
6181 cactccaaaa ttaggctcac tagagatttc cactgagtct ggagattttg atcaaaacca
6241 accaacaaga ttcaccccag ttggcattgg ggttgaccat gaggcagatt ttcaacaatg
6301 gactcttccc gactacgctg gccagttcac ccacaacatg aacttagccc cagctgttgc
6361 ccccaacttc cccggtgagc agctcctttt ctttcgctca cagttgccat cttctggcgg
6421 gcggtccaac gggattctag actgcctggt cccccaagaa tgggtacagc acttctatca
6481 agaatcagcc ccctcccaaa ctcaagtggc cctggttagg tatgtcaacc ctgacactgg
6541 tagagtgtta tttgaggcca agctgcacaa attaggtttc atgactatag ccaagagtgg
6601 tgactctcca ataactgtcc ccccaaatgg atacttcagg tttgaatctt gggtgaaccc
6661 cttttataca cttgccccca tgggaactgg gaatgggcgt agaaggattc aataatggct
6721 ggagctttta tagcaggatt ggctggtgac atgctcacaa atactgtagg atctttagtt
6781 aatgcagggg ctaatgccat taatcaaaca attgattttg aaaataataa atatttgcaa
6841 aatgcctctt ttaatcatga taaggagatg ttgaatgcac aaattgaggc aacaaagagg
6901 ttacaggctg acatgattgc tatcaaacaa ggggtgttga ccgctggcgg cttctccccc
6961 actgatgcag cccgcggggc aattaatgcc cccatgacaa aagtcctaga ttggaatgga
7021 acgagatact gggcgccagg tgccacctcc acaacctcga tgtcgggtgg cttcataaat
7081 caaactgtgc acagatccac accaaatttt aaaacgaacc aggcccccaa acccgcaccc
7141 agcagtgggt cttcagtgag gtcaaattca acccaaatca ctagcctgag ctcacactcg
7201 tccgggtcgt ctcgatccag cgggtctaca gttgtcagct caataccgtc ctctaacagg
7261 actagggact gggttaacca acaaaatttt aatttggaac cacacatgcc tggatctctt
7321 aggacagctt ttgtcactcc accatctagt acagcctcta gctcaggcac agtctcaact
7381 gtgcccaaaa atgttttggg ctcctggact ggc
//