Typing tool
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Typing tool
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Complete norovirus genomes
| KM198524 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5100
ORF2: 5081..6703
ORF3: 6703..7443
LOCUS KM198524 7443 bp RNA linear VRL 13-NOV-2014
DEFINITION Norovirus Hu/GII/10034/2009/VNM nonstructural polyprotein and
capsid protein VP1 genes, complete cds; and capsid protein VP2
gene, partial cds.
ACCESSION KM198524
VERSION KM198524.1
KEYWORDS .
SOURCE Norovirus Hu/GII/10034/2009/VNM
ORGANISM Norovirus Hu/GII/10034/2009/VNM
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7443)
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 7443)
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..7443
/organism="Norovirus Hu/GII/10034/2009/VNM"
/mol_type="genomic RNA"
/isolate="Hu/GII/10034/2009/VNM"
/host="Homo sapiens"
/db_xref="taxon:1526933"
/geo_loc_name="Viet Nam"
/collection_date="15-May-2009"
/note="genotype: GII"
CDS 1..5100
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AII02700.1"
/translation="MKMASNDASAAAVANGNNDTAKSSSDKMFSNMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTIDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLIDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRIQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRVVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTSLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5081..6703
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="AII02701.1"
/translation="MKMASNDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQTNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRDVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6703..>7443
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="AII02702.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRTNPRTPTPARGSSSTSS
NASTATSILSNQTASTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTG"
ORIGIN
1 atgaagatgg cgtctaacga cgcctccgct gccgctgttg ctaacggcaa caacgacacc
61 gcaaaatctt caagtgacaa aatgttttct aacatggctg tcacttttaa acgagccctc
121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct
181 actccagaac tggtcaaaaa gatccctcct cccccgccca acggagagga tgaagtagtg
241 gtttcttata gtgccaaaga tggcgtttcc ggtttacctg agctttccac cgtcaggcaa
301 ccggaagaaa ccaatacggc cttcagtgtc cctccactca accagaggga gaatagagat
361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagaaat ctaccattat
421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgccataagc
481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactccccag
541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacgtttcc ctacacagcc
601 tttgacaaca attgctatgc cttttgttgt tgggtcctgg atctaaatga ctcgtggctg
661 agtaggagaa tgatccagag aacaactggc ttcttcagac cctaccaaga ctggaatagg
721 aaacccctcc ccactataga tgactccaaa ttaaagaagg tagctaacat tttcctgtgc
781 gccctgtctt cgctattcac caggcccata aaagacataa taggaaagct aagacctctc
841 aacatcatca acatcctggc ttcatgtgat tggactttcg caggcatagt ggagtccttg
901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt
961 gcccccttac tcggtgattt cgagttacaa ggacctgagg accttgtagt ggagctcgtc
1021 cctgtagtaa tggggggaat tggtttggtg ctgggattca ccaaagagaa gattggaaaa
1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatgggcta
1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaggaggc aaatgaactg
1201 gctatggtga gatccatcga ggatgcagta ctggaccttg aggcaattga aaacaaccat
1261 atgaccacct tgctcaaaga caaagacagc ctggcaacct acatgagaac ccttgacctc
1321 gaggaagaga aagccagaaa actatcaacc aagtctgctt cacctgacat cgtgggcaca
1381 atcaacgccc ttctggcgag aatcgccgct gcacgctccc tggtgcaccg agcgaaggag
1441 gagctttcca gcagaccaag acctgtagtc ttgatgatat caggcagacc agggatagga
1501 aaaacccacc ttgctaggga agtggctaag agaatcgcag cctccctcac aggagaccag
1561 cgtgtaggcc tcatcccacg caatggcgtc gatcactggg atgcgtacaa gggggagagg
1621 gtcgtcctat gggacgacta tggaatgagc aaccccattc acgacgccct taggctgcaa
1681 gaactcgccg acacttgccc ccttactcta aattgtgaca ggattgagaa taaaggaaag
1741 gtctttgaca gcgatgtcat cattatcacc actaatctgg ccaacccagc accactggac
1801 tatgtcaact ttgaagcgtg ctcgaggcgc atcgatttcc tcgtgtatgc agaagccccc
1861 gaggtcgaaa aggcgaagcg tgacttcccg ggccaacctg acatgtggaa aaacgctttt
1921 agttctgatt tctcacacat aaaattggca ctggctccac aaggtggctt tgataagaac
1981 gggaacaccc cacacgggaa gggcgtcatg aagactctca ccactggctc cctcattgcc
2041 cgggcatcag ggctgctcca tgagagattg gatgagtttg aactacaggg cccagctctt
2101 accaccttca actttgaccg caacaaggtg cttgccttca gacagcttgc tgctgaaaac
2161 aaatatgggt tgatagacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg
2221 ccagaactta aacaagcact caagaacatc tcaatcaaga agtgccagat tgtgtatagt
2281 ggttgcacct acacacttga gtctgatggc aagggcaatg tgaaagttga cagaatccag
2341 agcacctccg tacagaccaa caatgagctg gctggcgccc tgcatcatct gaggtgcgcc
2401 agaatcaggt actatgtcaa gtgtgtccag gaggccctgt attctatcat ccagattgct
2461 ggggctgcat ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc
2521 aagccacaag tggaaaacac agaggaggct accaacaagg acgggtgtcc aaaacccaaa
2581 gatgatgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag
2641 aacaagactg gccgtggcaa gaagcataca gccttctcaa gtaaaggtct cagtgatgaa
2701 gagtatgatg agtacaagag aattagagag gaaaggaatg gcaagtattc catagaagag
2761 taccttcagg acagggacaa atactatgag gaggtggcca ttgccagggc gaccgaggaa
2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaaggaaa
2881 caacgcaagg aagaaagagc ttctctcggt ttagtcacag gttctgagat taggaaaaga
2941 aacccagaag acttcaagcc taagggaaaa ctatgggctg acgatgacag aagtgtggac
3001 tacaatgaga aactcagttt tgaggcccca ccaagcatct ggtcaaggat agtcaacttt
3061 ggttcaggtt ggggcttctg ggtctcccct agcctgttca taacatcaac ccacgtcata
3121 ccccagggcg caaaggagtt ctttggagtc cccatcaaac aaattcaggt acacaagtca
3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgacgtgac tggcatgatc
3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactac tcatcaaaag gtctactgga
3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaaaat tcaagggcgc
3361 accgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta
3421 ggcaccacac caggtgattg cggctgtccc tacatctaca agagaggaaa tgactatgtg
3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatatg tgccacccag
3541 gggggcgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca
3601 ccaatcctag gcccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca
3661 tccacagcac cactcccacc tggcacctat gaaccagcct accttggtgg caaggacccc
3721 agagtcaagg gtggcccttc gttgcagcaa gtcatgaggg accagctgaa accatttaca
3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc
3841 aatgtccttg aacaaacgat tgacccacct gagaagtggt cgttcgcgca agcttgcgcc
3901 tcccttgaca agaccacttc tagcggccat ccgcaccata tgcggaaaaa cgactgctgg
3961 aatggggagt ccttcacagg caagctggca gaccaggctt ccaaggctaa cctgatgttt
4021 gaagaaggga agaacatgac cccagtctac acaggtgcac ttaaggatga attagtcaaa
4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcgga tttagcaacc
4141 atgatccggt gtgctcgagc attcggaggc ctaatggatg aactcaaagc acactgtgtc
4201 acacttccta ttagagttgg tatgaatatg aatgaggatg gccccatcat cttcgagaag
4261 cattccaggt acagatacca ctatgatgct gattactctc ggtgggattc aacacaacag
4321 agagtcgtgc tggcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg
4381 gctcaggtag tcgcagaaga tcttctttcc cctagcgtgg tggatgtggg tgacttcaca
4441 atatcaatca acgagggcct tccctctggg gtgccctgca cctcccaatg gaattccatc
4501 gcccactggc ttctcactct ttgtgcactc tccgaagtca caagtttgtc cccagacatc
4561 atacaggcta attcgctctt ctccttctat ggtgatgatg aaattgttag tacagacata
4621 aaattggacc cagagaagtt gacagcaaag ctcaaggaat atgggttgaa accaacccgc
4681 cccgacaaaa ctgaaggacc tctcgttatt tctgaagact tagatggttt gactttcctg
4741 cggagaactg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata
4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatt
4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc
4921 ccaacattct acagtaaaat cagcaaacta gtcattgcag agctaaaaga aggtggtatg
4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc agatctgagc
5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga
5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtccca gaggtcagca atgaggttat
5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt
5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc
5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc
5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt
5401 gatcctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa
5461 ttttccaact gaaggcctga gtcccagcca ggtcactatg ttcccccaca taatagtaga
5521 tgttaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata atttctatca
5581 ttataatcag acaaatgatt ctaccattaa attgatagca atgctgtata caccacttag
5641 ggccaataat gctggggaag acgtcttcac agtctcttgt cgagtcctca ctaggccgtc
5701 ccctgatttt gattttatat ttttggtgcc acccacagtt gagtcaagaa ctaaaccatt
5761 tactgtccca atcttaaccg ttgaagaaat gaccaattca agattcccca ttcctttgga
5821 aaagttgttc acgggtccca gcggtgcctt tgttgtccaa ccacaaaatg gcaggtgcac
5881 gactgatggc gtgctcttag gcaccaccca actgtctcct gtcaacatct gcaccttcag
5941 aggggatgtc acccacattg caggttctcg taattacaca atgaatttgg catctctaaa
6001 ttggaacaat tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt
6061 gggaaagatc caaggtgtgc tcactcaaac cacaaaagga gatggctcga cccgtggcca
6121 taaagctaca gtttacactg ggagtgctcc ctttactcca aagctgggca gtgttcaatt
6181 cagtactgac acagaaaatg attttgaaac tcaccaaaac acaaaattta ccccagtcgg
6241 tgtcatacag gacggtggca ccacccaccg aaatgaaccc caacaatggg tgctcccaag
6301 ttattcaggt agagatgttc ataatgtaca cctagcccct gctgtagccc ccacttttcc
6361 gggtgaacaa cttcttttct tcaggtccac tatgcccgga tgcagcgggt atcccaacat
6421 ggatttggat tgcctactcc cccaggagtg ggtgcagcac ttctaccaag aggcagctcc
6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggca gggtcctgtt
6541 tgagtgcaaa cttcataaat caggctatgt cacagtggct cacaccggtc agcatgattt
6601 ggtcatcccc cccaatggct attttaggtt tgattcctgg gttaatcagt tttacacact
6661 tgcccccatg ggaaacggaa cggggcgtag gcgcgcttta taatggctgg agctttcttt
6721 gctggattgg catctgatgt ccttggctct ggacttggtt ccctaatcaa tgctggggct
6781 ggggctatca accaaaagat tgattttgaa aataatagaa aattgcagca agcttctttc
6841 cagtttagca gtaatctaca acaggcttcc tttcaacacg ataaagagat gctccaagca
6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc
6961 ctagaaggtg gattctctga aacagatgca gcccgtgggg caatcaacgc ccccatgaca
7021 aaggttttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatac
7081 aatgcaggcc gcttttccac ccctcaacct tcggggacgc tgccaggaag aaccaatccc
7141 aggactccta cccccgctcg gggctcctcc agcacatctt ctaatgcttc tactgctact
7201 tctatacttt caaatcaaac tgcttcaacg agacttggtt ctacagctgg ttctggtacc
7261 aatgtctcga gtctcccgtc aactgcaagg actaggagtt gggttgagga tcaaaacaga
7321 aatttgtcac ctttcatgag gggggctcat aacatatcgt ttgtcacccc accatctagc
7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact
7441 ggc
//