Typing tool
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Typing tool
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Complete norovirus genomes
| LN854565 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7511
LOCUS LN854565 7511 bp RNA linear VRL 12-JUN-2015
DEFINITION Norovirus GII/Hu/NL/2012/GII.4/Groningen, complete genome.
ACCESSION LN854565
VERSION LN854565.1
KEYWORDS complete genome.
SOURCE Norovirus GII/Hu/NL/2012/GII.4/Groningen
ORGANISM Norovirus GII/Hu/NL/2012/GII.4/Groningen
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Bavelaar,H., Rahamat-Langendoen,J., Niesters,H.G.M., Zoll,J. and
Melchers,W.J.G.
TITLE Whole genome sequencing of faecal samples as a tool for the
diagnosis and genetic characterization of norovirus
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7511)
AUTHORS Zoll,J.
TITLE Direct Submission
JOURNAL Submitted (18-MAY-2015) Medical Microbiology, RADBOUDUMC, PO Box
9101, 6500 HB Nijmegen, NETHERLANDS
FEATURES Location/Qualifiers
source 1..7511
/organism="Norovirus GII/Hu/NL/2012/GII.4/Groningen"
/mol_type="genomic RNA"
/strain="GII/Hu/NL/2012/GII.4/Groningen"
/host="Homo sapiens"
/db_xref="taxon:1665646"
/note="genotype:GII.4"
gene 3..5102
/gene="POL"
CDS 3..5102
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="CRL46957.1"
/translation="MKMASNDASAAAVANSNNVTAKSSSDKMLSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKNGVSGLPELSTVRRPE
EHNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLIAPDTLKKLHNETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
VKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALATFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVKTM
PELKQALKNISIKKCQIVHGGCTYTLESDGKGNVEVNRVQSTTVQTNNELAGALHHLR
CARIRYYVKCVQEALYSVIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEAANKEGC
PKIRDDEEFVISSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPVKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKTHCVTLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIVQANSIFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSETMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5083..6705
/gene="VP1"
CDS 5083..6705
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="CRL46958.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTIPILTVEEMTNSRFPIPLEKLYTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTNIQGSHTYTMNLASLNWNNYDPTEETPAPLGTPDFVGKIQGVL
TQTTKGQGSTRGHKATVYTGSASFTPKLGSVQFRTDTQNDFVTHQNTKFTPVGVIQDG
DTTHRNEPQQWVLPNYSGVNTHNVHLAPAVAPTIPGEQLLFFRSSMPGCSGYPNMDLD
CLVPQEWVQHFYQEAAPALSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGHHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6705..7511
/gene="VP2"
CDS 6705..7511
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="CRL46959.1"
/translation="MAGAFFAGLASDVLGSGLSSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQVEATKKLQQEMMKVKQAILLEGGFSATDAARGAIN
APMTKVLDWNGTRYWAPDARTTTYNTGHFSTPQSSGALPGRTNPRIPTPARASSSTSS
NASTATSISSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKGVLDSWTGAFNTRRQPLFAYTHRRGESRV"
ORIGIN
1 gaatgaagat ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgtca
61 ccgcaaaatc ttcaagtgac aaaatgcttt ccagcatggc tgtcactttt aaacgagccc
121 tcggggcgcg gcctaaacag ccccccccga gggaaatacc acaaagaccc ccacgaccac
181 ctactccaga actggtcaaa aagatccctc ctcccccgcc caacggagag gatgaggtag
241 tggtttctta cagtgccaaa aatggcgttt ccggtttgcc tgagctttcc actgtcaggc
301 gaccggaaga acacaacacg gccttcagtg tccctccact caatcagagg gagaataggg
361 atgctaagga accgttgact ggaacaattc tggaaatgtg ggatggagag atctaccatt
421 atggcctgta tgttgagcga ggtcttgtgc tgggtgtaca caaaccacca gctgccatca
481 gcctcgccaa ggtcgaacta acaccactct ccttgttctg gaggcctgtg tacactcctc
541 agtacctcat cgctccagac accctcaaga aattacacaa tgaaacattt ccctacacag
601 cctttgacaa caattgctat gccttttgtt gctgggtcct ggatctaaac gactcgtggc
661 tgagtaggag aatgatccag agaacaactg gcttctttag accctaccaa gattggaata
721 ggaaacccct ccccactatg gatgactcca aattaaagaa ggtagctaac atattcctgt
781 gcgccctgtc ttcgctattc accagaccca taaaggacat aataggaaag ttaaggcctc
841 tcaacatcat caatatcctg gcttcatgtg attggacttt tgcaggcata gtggagtcct
901 tgatactctt ggcagaactc tttggagtct tctggacacc cccagatgtg tctgcgatga
961 ttgccccctt actcggtgat ttcgagttac aagggcctga ggaccttgca gtggagctcg
1021 tccctgtggt aatgggggga attggtttgg tgctgggatt caccaaagag aagattggaa
1081 aaatgttgtc atctgctgca tccaccttga gagcttgtaa agatcttggc gcatatgggc
1141 tagagatcct aaagttggtc atgaagtggt tcttcccgaa gaaagaggag gcgaacgaac
1201 tggctatagt gagatccatc gaggatgcag tactggacct tgaggcaatt gaaaacaacc
1261 atatgaccac cttgctcaaa gacaaagaca gcctggcaac ctacatgaga acccttgacc
1321 tcgaggaaga gaaagccaga aaactctcaa ccaagtctgc ctcgcctgac atcgtaggca
1381 caatcaacgc ccttctggcg agaatcgccg ctgcacgctc cctggtgcac cgagcgaagg
1441 aggagctttc tagcagacca agacctgtag tcttgatgat atcaggcaga ccagggatag
1501 gaaagaccca ccttgctaga gaggtggcta agaaaatcgc agcctctctc acaggagacc
1561 aacgtgtggg cctcatccca cgcaatggtg tcgatcactg ggatgcatac aagggggaga
1621 gggttgtcct atgggacgac tatggaatga gcaatcccat ccatgacgcc ctcaggttgc
1681 aagaactcgc tgacacttgc cccctcactc taaattgtga caggattgag aacaaaggaa
1741 aggtctttga cagcgacgtc atcatcatca ctaccaatct ggccaaccca gcaccactgg
1801 actatgtcaa ttttgaagcg tgctcgaggc gtatcgattt cctcgtgtat gctgaagccc
1861 ctgaggtcga aaaggtgaaa cgtgatttcc cgggtcaacc tgacatgtgg aaaaatgctt
1921 ttagttctga tttctcacac ataaaattgg cactggctcc acaaggtggc tttgataaga
1981 acggaaacac cccacacgga aagggcgtca tgaagaccct caccactggc tccctcattg
2041 cccgggcatc agggttgctc catgagagat tggatgagtt tgaactacag ggcccagccc
2101 ttgccacctt caactttgac cgcaacaaag tgctcgcctt taggcagctt gccgctgaaa
2161 ataaatatgg gttgatggac acaatgagag ttgggaggca gctcaaggat gtcaaaacaa
2221 tgccagaact caaacaagca ctcaagaaca tctcaatcaa gaagtgccag attgtgcatg
2281 gtggttgcac ctacacactt gagtctgatg gcaagggcaa tgtggaagtg aacagagttc
2341 agagcaccac cgtacagacc aacaatgagc tagctggcgc tctgcaccat ctaaggtgcg
2401 ccagaatcag gtactatgtc aagtgtgtcc aggaggccct gtattctgtc atccagattg
2461 ctggggctgc atttgtcacc acgcgcatca tcaagcgtgt gaacatccaa gacttatggt
2521 ccaagccaca agtggaaaac acagaggagg ctgccaacaa ggaagggtgc ccgaaaatca
2581 gagatgatga ggagttcgtc atttcatctg acgacattaa agctgagggt aagaaaggga
2641 aaaacaagac tggccgtggc aagaagcaca cagccttctc aagtaaaggt ctcagtgatg
2701 aagagtatga tgagtacaag agaattagag aggaaaggaa tggcaagtac tccatagaag
2761 agtaccttca ggacagggac aaatactacg aggaggtggc cattgccagg gcgaccgagg
2821 aagacttctg cgaagaggag gaggccaaga tccggcagag gatcttcaga ccaacaagga
2881 aacaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa attaggaaaa
2941 gaaacccaga agacttcaag cccaagggga aactatgggc tgacgatgac agaagtgtgg
3001 actacaatga gaaactcagt tttgaggccc caccaagcat atggtcaagg atagtcaact
3061 ttggctcagg ttggggcttc tgggtctccc ccagcctgtt cataacatca acccacgtca
3121 tacctcaagg cgcaaaggag ttctttggag tccctgtcaa acaaatccag gtgcacaagt
3181 caggcgaatt ctgtcgcttg aggttcccaa aaccaatcag gactgatgtg gctggcatga
3241 tcttggaaga aggtgcaccc gaaggcaccg tggtcacact actcatcaaa aggtccactg
3301 gagaactcat gcccctagcg gctagaatgg ggacccatgc aaccatgaaa attcaagggc
3361 gcactgtcgg aggccagatg ggcatgcttc tgacaggatc caacgccaaa agcatggatc
3421 taggcaccac accaggtgac tgcggctgcc cctacatcta caagagagga aatgattatg
3481 tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata tgtgccaccc
3541 aggggagcga gggggaagcc acacttgaag gtggtgacag taaaggaaca tactgtggtg
3601 caccaatcct aggcccaggg agtgctccaa aacttagcac caaaaccaaa ttctggagat
3661 catccacagc acccctccca cctggcacct atgaaccagc ctaccttggt ggtaaggacc
3721 ccagagtcaa gggaggcccc tcgttgcagc aagtcatgag ggaccagctg aaaccattta
3781 cagagcccag gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaactatta
3841 ttaatgtcct tgaacaaaca attgacccac ctgagaagtg gtcgttcgca caagcttgcg
3901 cgtcccttga caaaaccact tccagcggcc acccgcacca catgcggaaa aacgactgct
3961 ggaacgggga atccttcaca ggcaagctgg cagaccaggc ttccaaggcc aacctaatgt
4021 ttgaggaagg gaagaacatg accccagtct acacaggtgc acttaaagat gaattagtca
4081 aaactgacaa aatttatggt aagatcaaga agaggcttct ctggggctcg gacttagcaa
4141 ccatgatccg gtgtgcccga gcattcggag gcctaatgga tgaactcaaa acacattgtg
4201 tcacacttcc catcagagtt ggtatgaata tgaatgagga tggccctatc atcttcgaga
4261 agcattccag gtataagtac cactatgatg ctgattactc tcggtgggat tcaacacaac
4321 agagagccgt gttggcagct gctctagaaa tcatggtaaa attttcctca gaaccacatt
4381 tggctcaggt agtcgcagaa gaccttcttt ctcctagcgt ggtggatgtg ggtgacttca
4441 caatatcaat caacgagggt cttccctctg gggtgccatg cacctcccaa tggaactcca
4501 tcgcccactg gcttctcact ctctgtgcac tctccgaagt tacgaatttg tccccagaca
4561 ttgtacaggc taactctatc ttttccttct atggtgatga tgaaattgtt agtacagaca
4621 taaaattaga cccagagaag ttgacagcaa agcttaagga atatgggttg aaaccaaccc
4681 gccctgacaa aactgaagga cctcttgtta tttctgaaga cttagatggt ttgacttttc
4741 tgcggagaac cgtgacccgt gacccagctg gttggtttgg aaaactggag cagagctcaa
4801 tactcaggca aatgtactgg actaggggcc ctaaccatga agatccatct gaaacaatga
4861 tcccacactc tcaaagaccc atacaactga tgtccttact gggagaggcc gcactccatg
4921 gcccaacatt ctacagtaaa atcagcaaat tagtcattac ggagctaaaa gaaggtggta
4981 tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc tcagatctga
5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat
5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt
5161 atggctttgg agcccgttgt cggtgccgct attgcggcgc ctgtagcggg ccaacaaaat
5221 ataattgacc cctggattag aaacaatttt gtacaagccc ctggtggaga gttcacagta
5281 tcccctagaa acgctccagg cgaaatacta tggagcgcgc ccttaggacc tgatttgaat
5341 ccctacctat ctcatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag
5401 gtgatccttg cggggaacgc gttcaccgct ggaaaaatta tatttgcagc agtcccacca
5461 aattttccaa ctgaaggctt gagtcccagc caggtcacta tgttccccca cataatagta
5521 gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa taacttctac
5581 cattataatc agtcaaatga ctctactatt aaattgatag caatgttgta tacaccactt
5641 agggctaaca atgctgggga tgatgttttc acagtctctt gtcgagtact cacgaggcca
5701 tcccctgatt ttgattttat atttttggta ccacccacag ttgagtcaag aactaaacca
5761 tttactatcc caatcttaac tgttgaagaa atgaccaatt caagattccc cattcctttg
5821 gaaaagttgt acacgggtcc cagcagtgcc ttcgttgtcc aaccacaaaa cggcagatgc
5881 acgactgatg gcgtgctctt aggcaccact caactgtctc ctgtcaacat ctgcaccttc
5941 agaggggatg tcaccaacat tcaaggttcc cacacttaca caatgaattt ggcttctcta
6001 aattggaaca attatgaccc aacagaagaa actccagccc ctctaggaac tccagatttc
6061 gtgggaaaga tccaaggtgt gctcactcaa accacaaagg gacaaggctc gacccgtggc
6121 cataaagcca cagtatacac tgggagtgcc tcctttactc caaagctagg cagtgttcaa
6181 tttagaactg atacacaaaa tgattttgta actcaccaaa acacaaaatt caccccagtc
6241 ggtgttatcc aggatggtga caccacccac cgaaatgaac cccaacaatg ggtgctccca
6301 aattattcag gtgtaaatac ccataatgtg cacctagccc ctgctgtagc tcccaccatc
6361 ccgggtgaac aacttctctt cttcaggtcc agtatgcccg gatgcagcgg gtatcccaac
6421 atggatttgg attgcctagt cccccaggaa tgggtgcagc acttctacca ggaggcagct
6481 ccagcactat ctgatgtggc tctattgaga tttgtgaatc cagacactgg tagggtcctg
6541 tttgagtgta aacttcataa atcaggctat gttacagtgg cccacaccgg ccatcatgat
6601 ttggtcatcc ctcccaatgg ctattttagg tttgattcct gggttaacca attttacaca
6661 cttgccccca tgggaaatgg aacggggcgt agacgtgttt tataatggct ggagctttct
6721 ttgctggatt ggcatctgac gtccttggct ctggacttag ttccctaatc aatgctgggg
6781 ctggggctat caaccaaaag attgattttg aaaataacag aaaattgcag caagcttcct
6841 tccagtttag cagcaaccta caacaggctt cctttcaaca tgataaagag atgctccaag
6901 cacaagttga ggctactaaa aagttgcaac aggaaatgat gaaagtcaaa caagcaatac
6961 tcttagaagg tggattctct gcaacagatg cagcccgtgg ggcaatcaat gcccccatga
7021 caaaggtttt ggactggaat ggaacaaggt attgggcccc tgatgctagg accacaacat
7081 acaatacagg ccacttttcc acccctcaat cctcgggggc actgccagga agaactaatc
7141 ccagaattcc cacccccgct cgggcttcct ctagtacatc ttctaatgct tctactgcta
7201 cttctataag ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggca
7261 ccaatgtctc gagtctcccg tcaactgcaa ggaccaggag ttgggttgag gatcaaaata
7321 gaaatttgtc acctttcatg aggggagctc acaacatatc gtttgtcacc ccaccatcta
7381 gcagatcctc tagtcaaggc acagtctcaa ccgtgcctaa aggagttttg gactcctgga
7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctta cactcatagg cgaggggagt
7501 cacgggtgta a
//