Typing tool
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Typing tool
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Complete norovirus genomes
| KM198487 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 64..5082
ORF2: 5063..6685
ORF3: 6685..7425
LOCUS KM198487 7425 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/10110/2009/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198487
VERSION KM198487.1
KEYWORDS .
SOURCE Norovirus Hu/GII/10110/2009/VNM
ORGANISM Norovirus Hu/GII/10110/2009/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/10110/2009/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/10110/2009/VNM"
/host="Homo sapiens"
/db_xref="taxon:1526942"
/country="Viet Nam"
/collection_date="06-Jul-2009"
/note="genotype: GII"
CDS 64..5082
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02589.1"
/translation="MFSNMAVTFKRALGARPKQPPPREIPQRPPRPPTPELVKKIPPP
PPNGEDEAVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPLNQRENRDAKEPLTGTI
LEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDT
LKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPT
MDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILASCDWTFAGIVESLILL
AELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMGGIGLVLGFTKEKIGKM
LSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENN
HMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHR
AKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDA
YKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNL
ANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNVFSSDFSHIKLAL
APQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNK
VLAFRQLAAENKYGLIDTMKVGRQLKDVKTMPELKQALKNISIKKCQIVYSGCTYTLE
SDGKGNVKVDRIQSTSVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFV
TTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPKDDEEFVISSDDIKTEGKKGKNKT
GRGKKHTAFSSKGLSDEEYDEYKRIREERNGRYSIEEYLQDRDKYYEEVAIARATEED
FCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKLWADDDRSV
DYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQV
HKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATM
KIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGN
TVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYE
PAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDP
PEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMT
PVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPIR
VGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAALEIMVKFSSEPHLAQV
VAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDII
QANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTF
LRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIPHSQRPIQLMSLLGEAA
LHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNE
DGVE"
CDS 5063..6685
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02590.1"
/translation="MKMASNDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQTNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6685..>7425
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02591.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRINPRTPTPARGSSSTSS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTG"
ORIGIN
1 gacgcttccg ctgccgctgt tgctaacagc aacaacgaca ccgcaaaatc ttcaagtgac
61 aaaatgtttt ctaacatggc tgtcactttt aaacgagccc tcggggcgcg gcctaagcag
121 ccccccccga gggaaatacc acaaagaccc ccacgaccac ctactccaga actggtcaaa
181 aagatccctc ctcccccgcc caacggagag gatgaagcag tggtttctta tagtgccaaa
241 gatggcgttt ccggtttacc tgagctttcc accgtcaggc aaccggaaga aaccaatacg
301 gccttcagtg tccctccgct caaccagagg gagaatagag atgctaagga accactgact
361 ggaacaattc tggaaatgtg ggatggagaa atctaccatt atggcctgta tgttgagcga
421 ggtcttgtgc tgggtgtgca caaaccacca gctgccataa gcctcgccaa ggtcgaacta
481 acaccactct ccttgttctg gagacctgtg tacactcccc agtacctcat ctctccagac
541 accctcaaga agttacacgg agaaacgttt ccctacacag cctttgacaa caattgctat
601 gccttttgtt gttgggtcct ggatctaaat gactcgtggc tgagtaggag aatgatccag
661 agaacaactg gcttcttcag accctaccaa gactggaaca ggaaacccct ccccactatg
721 gatgattcca aattaaagaa ggtagctaac atattcctgt gcgccctgtc ttcgctattc
781 accaggccca taaaagacat aataggaaag ctaagacctc tcaacatcat caacatcctg
841 gcttcatgtg attggacttt cgcaggcata gtggagtctt tgatactctt ggcagagctc
901 tttggagtct tctggacacc cccagatgtg tctgcgatga ttgccccctt actcggtgat
961 ttcgagttac aaggacctga ggaccttgta gtggagctcg tccctgtggt aatgggggga
1021 attggtttgg tgctgggatt caccaaagag aagattggga aaatgttgtc atctgctgca
1081 tccaccttga gagcttgtaa agatcttggt gcatatgggc tagagatcct aaagttagtc
1141 atgaagtggt tcttcccgaa gaaagaggag gcaaatgaac tggctatggt gagatccatc
1201 gaggatgcag tactggacct tgaggcaatt gaaaacaacc atatgaccac cttgctcaaa
1261 gacaaagaca gcctggcaac ctacatgaga acccttgacc tcgaggaaga gaaagccaga
1321 aaactctcaa ccaagtctgc ttcacctgac atcgtgggca caatcaacgc ccttctggcg
1381 agaatcgccg ctgcacgctc cctggtgcac cgagcgaagg aggagctttc cagcagacca
1441 agacctgtag tcttgatgat atcaggcaga ccagggatag gaaaaaccca ccttgctagg
1501 gaagtggcta agagaatcgc agcctccctc acaggagacc agcgtgtagg cctcatccca
1561 cgcaatggcg tcgaccactg ggatgcgtat aagggggaga gggtcgtcct atgggacgac
1621 tatggaatga gcaaccccat tcacgacgcc cttaggctgc aagaactcgc tgacacttgc
1681 ccccttactc taaattgtga caggattgag aataaaggga aggtctttga cagcgatgtc
1741 atcattatca ccactaatct ggccaaccca gcaccactgg actatgtcaa ctttgaagcg
1801 tgctcgaggc gcatcgattt cctcgtgtat gcagaagccc ccgaggtcga aaaggcgaag
1861 cgtgacttcc cgggccaacc tgacatgtgg aaaaacgttt ttagttctga tttctcacac
1921 ataaaattgg cactggctcc acaaggtggc tttgataaga acgggaacac cccacacggg
1981 aagggcgtca tgaagactct caccactggc tccctcattg cccgggcatc agggctgctc
2041 catgagagat tggatgagtt tgaactacag ggcccagctc ttaccacctt caactttgac
2101 cgcaacaaag tgcttgcctt cagacagctt gcagctgaaa acaaatatgg gttgatagac
2161 acaatgaaag ttgggaggca gctcaaggat gtcaaaacca tgccagaact taaacaagca
2221 ctcaaaaaca tctcaatcaa gaagtgccag attgtgtata gtggttgcac ctacacactt
2281 gagtctgatg gcaagggcaa tgtgaaagtt gacagaatcc agagcacctc cgtacagacc
2341 aacaatgagc ttgctggcgc cctgcatcat ctgaggtgcg ccagaatcag gtactatgtc
2401 aagtgtgtcc aggaggccct gtattctatc atccagattg ctggggccgc atttgttacc
2461 acgcgcatta tcaagcgtgt gaacattcaa gacttatggt ccaagccaca agtggaaaac
2521 acagaggagg ccaccaacaa ggacgggtgc ccaaaaccca aagatgatga ggagttcgtc
2581 atttcatctg acgacattaa aactgagggt aagaaaggga agaacaagac tggccgtggc
2641 aagaagcata cagccttttc aagtaaaggt ctcagtgatg aagagtatga tgagtacaag
2701 agaattagag aggaaaggaa tggcaggtat tccatagaag agtaccttca ggacagggac
2761 aaatactatg aggaggtggc cattgccagg gcgaccgagg aagacttctg tgaagaggag
2821 gaggccaaga tccggcaaag gatctttaga ccaacaagga aacaacgcaa ggaagaaaga
2881 gcttctctcg gtttagtcac aggttctgag attaggaaaa gaaacccaga tgacttcaag
2941 cctaagggaa aactgtgggc tgacgatgac agaagtgtgg actacaatga gaaactcagt
3001 tttgaggccc caccaagcat ctggtcaagg atagtcaact ttggttcagg ttggggcttc
3061 tgggtctccc ctagcctgtt cataacatca acccacgtca taccccaggg cgcaaaggag
3121 ttctttggag ttcccatcaa acaaattcag gtacacaagt caggcgaatt ttgtcgcttg
3181 aggttcccaa aaccaatcag gactgacgtg actggcatga tcttggaaga aggtgcgccc
3241 gaaggcaccg tggtcacact actcatcaaa aggtctactg gagaactcat gcccctagca
3301 gctagaatgg ggacccatgc aaccatgaaa attcaagggc gcaccgttgg aggtcagatg
3361 ggcatgcttc tgacaggatc caacgccaaa agcatggatc taggcaccac accaggtgat
3421 tgcggctgtc cctacatcta caagagagga aatgactatg tggtcattgg agtccatacg
3481 gctgccgctc gtgggggaaa cactgtcata tgtgccaccc aggggggcga gggggaagct
3541 acacttgaag gtggtgacag taagggaaca tactgtggtg caccaatcct aggcccaggg
3601 agtgccccaa aacttagcac caaaaccaaa ttctggagat catccacagc accactccca
3661 cctggcacct atgaaccagc ataccttggt ggcaaggacc ccagagtcaa gggtggccct
3721 tcgttgcagc aagtcatgag ggaccagctg aaaccattta cagagcccag gggtaagcca
3781 ccaaagccaa gtgtgttaga agctgccaag aaaaccatca tcaatgtcct tgaacaaaca
3841 attgacccac ctgagaagtg gtcgttcgca caagcttgcg cctcccttga caagaccact
3901 tctagcggcc atccgcacca tatgcggaaa aacgactgct ggaatgggga gtccttcaca
3961 ggcaagctgg cagaccaggc ttctaaggct aacctgatgt ttgaagaagg gaagaacatg
4021 accccagtct acacaggtgc acttaaggat gaattagtca aaactgacaa aatttatggt
4081 aagatcaaga agaggcttct ctggggctcg gatttagcaa ccatgatccg gtgtgctcga
4141 gcattcggag gcctaatgga tgaacttaaa gcacactgtg tcacacttcc tattagagtt
4201 ggtatgaata tgaatgagga tggccccatc atcttcgaga agcattccag gtacagatac
4261 cactatgatg ctgattactc tcggtgggat tcaacacaac agagagccgt gctggcagct
4321 gctctagaaa tcatggttaa attctcctca gaaccacatt tggctcaggt agtcgcagaa
4381 gatcttcttt cccctagcgt ggtggatgtg ggtgacttca caatatcaat caacgagggc
4441 cttccctctg gggtgccctg cacctcccaa tggaactcca tcgcccactg gcttctcact
4501 ctttgtgcac tctccgaagt cacaaatttg tccccagaca tcatacaggc taattctctc
4561 ttctccttct atggtgatga tgaaattgtt agtacagaca taaaattgga cccagagaag
4621 ttgacagcaa agcttaagga atatgggttg aaaccaaccc gccctgacaa aactgaagga
4681 cctctcgtta tttccgaaga cttagatggt ttgactttcc tgcggagaac tgtgacccgc
4741 gacccagctg gttggtttgg aaaactggag cagagctcaa tactcaggca aatgtactgg
4801 actaggggcc ccaaccatga agatccatct gaatcaatga ttccacactc tcaaagaccc
4861 atacaattga tgtccttact gggagaggcc gcactccacg gcccaacatt ctacagtaaa
4921 atcagcaaat tagtcattgc agagctaaaa gaaggtggta tggattttta cgtgcccagg
4981 caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga gggcgatcgc
5041 aatctggctc ccagttttgt gaatgaagat ggcgtcgaat gacgccaacc catctgatgg
5101 gtccgcagcc aacctcgtcc cagaggtcag caatgaggtt atggctttgg agcccgttgt
5161 cggtgccgct attgcggcgc ctgtagcggg ccaacaaaat gtaattgacc cctggattag
5221 aaacaatttt gtacaagccc ctggtggaga gttcacagta tcccctagaa acgctccagg
5281 tgaaatacta tggagcgcgc ccttaggccc tgatctgaat ccctacctat cccatttggc
5341 cagaatgtat aatggttatg caggtggttt tgaagtgcag gtgattctcg cggggaacgc
5401 gttcaccgcc ggaaaaatta tatttgcagc agtcccacca aattttccaa ctgaaggcct
5461 gagtcccagc caagtcacta tgttccccca cataatagta gatgttaggc aattggaacc
5521 tgtgttgatc cccttacctg atgttaggaa taacttctat cattataatc aaacaaatga
5581 ttctaccatt aaattgatag caatgctgta tacaccactt agggccaata atgctgggga
5641 agatgtcttc acagtctctt gtcgagtcct cactaggccg tcccctgatt ttgattttat
5701 atttttggtg ccacccacag ttgagtcaag aactaaacca tttactgtcc caatcttaac
5761 cgttgaagaa atgaccaatt caagattccc cattcctttg gaaaagttgt tcacgggccc
5821 cagcggtgcc tttgttgtcc aaccgcaaaa tggcaggtgc acgactgatg gcgtgctctt
5881 aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggatg tcacccacat
5941 tgcaggttct cgtaattaca caatgaattt ggcatctcta aattggaaca attatgaccc
6001 aacagaagaa attccagccc ctctgggaac tccagatttc gtgggaaaga tccaaggtgt
6061 gctcactcaa accacaaaag gagatggctc gacccgtggc cataaagcta cagtttacac
6121 tgggagtgcc ccctttactc caaagctggg cagtgttcaa ttcagtactg acacagaaaa
6181 tgattttgaa actcaccaaa acacaaaatt caccccagtc ggtgtcatcc aggatggtgg
6241 caccacccac cgaaatgaac cccaacaatg ggtgctccca agttattcag gtagagatgt
6301 tcataatgta cacctagccc ccgctgtagc ccccactttt ccgggtgaac aacttctttt
6361 cttcaggtcc actatgcccg gatgcagcgg gtatcccaac atggatttgg attgcctact
6421 cccccaggag tgggtgcagc acttctacca agaggcagct ccagcccaat ctgatgtggc
6481 tctattgaga tttgtgaatc cagacacggg tagggtcctg tttgagtgca aacttcataa
6541 atcaggctat gtcacagtgg ctcacaccgg tcagcatgat ttggtcatcc cccccaatgg
6601 ctattttagg tttgattcct gggttaatca gttctacacg cttgccccca tgggaaacgg
6661 aacggggcgt aggcgcgcct tataatggct ggagctttct ttgctggatt ggcatctgat
6721 gtccttggct ctggacttgg ttccctaatc aatgctgggg ctggggccat caaccaaaag
6781 attgattttg aaaataatag aaaattgcag caagcttcct tccagtttag cagtaatcta
6841 caacaggctt cctttcaaca cgataaagag atgctccaag cacaaattga ggccactaaa
6901 aagttgcaac aggaaatgat gaaagtcaaa caggcaatgc tcctagaagg tggattctct
6961 gaaacagatg cagcccgtgg ggcaatcaac gcccccatga caaaggtttt ggactggagc
7021 ggaacaaggt actgggcccc tgatgctagg accacaacat acaatgcagg ccgcttttcc
7081 acccctcaac cttcggggac gctgccagga agaatcaatc ccaggactcc tacccccgct
7141 cggggctcct ccagcacatc ttctaatgct tctactgcta cttctatata ttcaaatcaa
7201 actgtttcaa cgagacttgg ttctacagct ggttctggta ccaatgtctc gagtctcccg
7261 tcaactgcaa ggactaggag ctgggttgag gatcaaaaca gaaatttgtc acctttcatg
7321 aggggggctc ataacatatc gtttgtcacc ccaccatcta gcagatcctc tagccaaggc
7381 acagtctcaa ccgtgcctaa agaagttttg gactcctgga ctggc
//