Typing tool
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Typing tool
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Complete norovirus genomes
| LN854569 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS LN854569 7579 bp RNA linear VRL 12-JUN-2015
DEFINITION Norovirus GII/Hu/NL/2014/GII.21/Groningen, complete genome.
ACCESSION LN854569
VERSION LN854569.1
KEYWORDS complete genome.
SOURCE Norovirus GII/Hu/NL/2014/GII.21/Groningen
ORGANISM Norovirus GII/Hu/NL/2014/GII.21/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JOURNAL Unpublished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 7579)
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..7579
/organism="Norovirus GII/Hu/NL/2014/GII.21/Groningen"
/mol_type="genomic RNA"
/strain="GII/Hu/NL/2014/GII.21/Groningen"
/host="Homo sapiens"
/db_xref="taxon:1665650"
/note="genotype:GII.21"
gene 5..5104
/gene="POL"
CDS 5..5104
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="CRL46969.1"
/translation="MKMASNDASAAAAAKSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPSDKPPKPPRPPTPELVKAIPPPPPNGEDGPIISYNVKGGVSGLPELSTVTQLE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKIELAPLSLYWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSSPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRTNIQNLWSKPQAEDLEETNNEVGC
PKPKNDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRAVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINMLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGEVKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTKGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKVSKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5085..6731
/gene="VP1"
CDS 5085..6731
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="CRL46970.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNLDTTTRAHEAKIDTTSGRFTPKLGSLEISTESSDFDQSQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPIIVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="VP2"
CDS 6731..7495
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="CRL46971.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDLENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRHWAPGATSTTSMSGGFTHQTVHRSTPNFKTNQAPKSTPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVIRSIPSSDRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgccaaaa gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtatt atctaatatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agccgccccc gagtgacaaa ccaccaaaac ccccaagacc
181 acccacacca gagttggtta aggcaattcc ccctccccca cccaacgggg aggacggacc
241 aatcatttct tacaacgtca aagggggtgt ttctggtttg cctgagctct caactgtcac
301 ccaacttgaa gagaactcta cagcattcag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctgggaccat cctggagatg tgggacgggg agatctatca
421 ttatggctta tacgtagaac gagggttagt gctcggtgta cacaaaccac cagcagccat
481 cagccttgct aagattgagc tggccccctt gtctttgtat tggagaccag tgtacacccc
541 acagtacctc atttcccctg acactctcag aaagttgcat ggggagacgt tcccttatac
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgagcaga aggatgatac aaaggacaac aggcttcttc cgaccctacc aggactggaa
721 caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttgtcct
781 atgtgctctc tcatcattgt tcacaagacc aattaaggac attattggga agttaaaacc
841 cctaaacatt ctcaacatct tagccacatg tgattggact tttgcaggca tagtagaatc
901 cctgatcctt ttggctgaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactgggtg attatgaact acagggaccc gaggacctcg ctgtggaact
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caagatgctt tcttctgctg cttcaaccct gagggcatgt aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggcaatg gtgagatcca tcgaggatgc ggtgctagac cttgaagcca ttgaaaacaa
1261 ccatatgaca gctcttctca aggataaaga cagccttgca acctacatga ggactcttga
1321 catggaggag gagaaggcga gaaaactttc caccaagtct gcctctccgg atattgtggg
1381 cacgataaat gccctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtaatg atttcaggga aaccgggtat
1501 agggaaaacc catctagcta gagagttggc aaagaagatc gcctccacac tcacaggtga
1561 ccagagggtg ggtcttatcc cacgtaacgg ggtcgaccac tgggatgcat ataaaggtga
1621 aagagtcgtt ctctgggacg actacgggat gagcagccct gtccacgacg ccctcagact
1681 tcaggagctc gctgatacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 taaagtcttt gacagtgacg tcataataat aaccaccaat ttggccaacc cagcaccact
1801 ggattatgtc aactttgaag cttgctcgag acgcatagac ttcctcgtct atgctgatgc
1861 tcctgaagtt gagaaggcca agcgggactt cccaggccaa ccagacatgt ggaaagacac
1921 cttcaaaccc gacttctcac acataaaatt ggcattagcc ccgcaaggag gttttgacaa
1981 gaatggtaac actcctcatg ggaagggagt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccacgagag attagacgag tatgagctgc agggcccaac
2101 tcccacaaca ttcaacttcg accgcaacaa ggtgcttgct tttaggcagc ttgctgctga
2161 aaacaagtac ggtcttgttg acacaatgag ggtcgggtca caactcaaga atgtcaaaac
2221 tatgacagaa ctcaagcagg ccctcaagaa tatctcagtc aagaaatgtc agcttgtgta
2281 cggtgggggc acatacacac ttgagtctga tggcaaaggc aatgtgcatg tcgaaaaggt
2341 gaacaacacc agtgtgcaaa ctaacaacga gctctccggg gttttgcacc atctcaggtg
2401 tgctagaatc aggtactatg ttaagtgtgt tcaggaagct ctctactcca tcttacaaat
2461 tgccggggct gcattcatca ccacgcgcat tgcaaagcgc acgaacatac aaaacctctg
2521 gtccaaacca caagcagaag atctagagga gactaacaac gaggtgggtt gtccaaaacc
2581 taaaaatgat gaagaatttg tcgtctcctc tgatgacatc aaaactgagg gtaagaaagg
2641 aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag gactcagtga
2701 tgaggagtac gatgagtata agagaatcag ggaagagaga aatggtaagt actccataga
2761 ggaatatcta caggacagag acaaatacta tgaggaggtg gccatagcca gggcaactga
2821 ggaagatttc tgtgaagaag aggaggccaa aatccggcag aggatattta gaccaacaag
2881 gaaacaacgc aaagaggaaa gagcttctct tggtttggtt acaggctctg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gctgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctca gggtggggct tttgggtctc gcccagcctc ttcataacat cgacccatgt
3121 cattccccaa ggcgcgcagg agttctttgg agtgcccatc aaacaaatac aaattcacaa
3181 gtcaggtgag ttctgccggc ttaggttccc gaaaccaatc aggacagatg ttacaggcat
3241 gatcttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agagaccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gccaccatga aaatccaggg
3361 tcgcgctgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 tttgggcaca acccctggcg attgtggttg tccctatatc tacaagaggg ggaatgacta
3481 cgtggtcatt ggagttcaca ctgccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaaac gagggtgagg ccatgctaga aggtggtgac aacaagggaa cttattgtgg
3601 agcaccaata ttaggccctg gaaatgcccc caaactcagc accaaaacca aattctggag
3661 gtcttccacc actcccctgc cacccggaac ctatgagcca gcttatctgg gtggcaagga
3721 ccctagagtg aaaggtggcc cctcactgca acaggttatg agagaccaac taaaaccatt
3781 cactgagcct agaggcaaac cacccaaacc aagtgtgcta gaagctgcca agaagactat
3841 aatcaatatg cttgaacaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcacta gacaagacca cttccagcgg tcaccctcac cacatgcgga agaacgattg
3961 ctggaacggg gaatctttca caggaaaact ggcagaccaa gcatcaaagg ccaacctaat
4021 gtttgaggaa ggaaagaaca tgactccagt atacacaggg gctctgaaag atgagctagt
4081 caagactgac aagatctatg gggaggtcaa gaagaggctc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggctaatg gacgagctca aggcccattg
4201 cgtcacacta ccagtcaggg ttggtatgaa catgaatgag gatggaccca taatatttga
4261 gaaacactcc agatacaaat accattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctagccg cagccctgga aataatggtc aaattctcac cagaacccca
4381 cctggcccag gtggttgcag aagacctttt gtcccccagt gtgatggatg tgggtgactt
4441 caggatatca atcaacgagg gattgccctc tggtgtccct tgcacttcac aatggaactc
4501 cattgctcac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcgaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 catcaaatta gacccagaga aattgacagc aaagctgagg gaatacgggc ttaaaccaac
4681 ccgccccgac aaaacagagg gacccttaat tatctctgaa gatttgaatg gcctgacctt
4741 cttgcggaga acagtgaccc gcgatccggc cggatggttt ggcaaactgg accaaagttc
4801 aatactcagg cagatgtact ggaccaaggg gccaaaccat gaagacccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcatta cttggtgaag ctgcattgca
4921 tggtccatca ttctacagta aagtcagcaa attggtcatc tcagaactga aagagggtgg
4981 aatggatttt tacgtgccca gacaagaacc aatgttcagg tggatgagat tctcagattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agagccagtg gcgggtgcag cgatagcagc acccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagtttacag
5281 tgtcccccag aaattcccct ggtgaagttc ttcttaattt ggaattgggc ccagaaataa
5341 atccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtggtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaactttcc aattgacaat ttaagtgcag cacagatcac tatgtgccca catgtgattg
5521 tagatgtcag acagttggaa ccagtcaacc tcccgatgcc tgacgttcgc aataacttct
5581 ttcattataa tcaagggtct gattcgaggt tacgcctaat tgcaatgcta tatacacctc
5641 ttagagcaaa caattctggg gatgatgttt ttactgtgtc ttgtagagtg ctaactagac
5701 ctagtcctga cttctcattc aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 ccttctccct ccctatcctg actatttctg aaatgtctaa ttctaggttc ccagtaccaa
5821 ttgattctct gcacaccagt cctactgaga atattgttgt tcagtgccaa aatgggcgcg
5881 tcacccttga tggtgagttg atgggcacca cccaactctt gcctagccaa atctgtgctt
5941 tcaggggagt tctcaccaga tcaacaagca gggccagtga ccaggccgat acagcaaccc
6001 ctagattgtt taattattat tggcatatac aattggataa tctaaatgga accccttatg
6061 atcctgcaga agacatacca ggccccctag ggacaccaga tttccgtggc aaagtctttg
6121 gcgtggccag ccagagaaat cttgatacca cgactagggc acatgaagca aagatagaca
6181 ccacatctgg ccgcttcacc ccaaagctag gctcattaga aatatccact gaatctagtg
6241 attttgatca aagccaacca acaagattca ccccagttgg cattggagtt gaccatgagg
6301 cagactttca acaatggacc ctacccgact acgctggtca gttcacacac aacatgaact
6361 tagcaccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacatt
6421 tgccatcttc tggtgggcga tctaacggga ttctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagag tcagccccct ctcagtctca agtggccctg gttaggtatg
6541 ttaaccctga cactggtaga gtgttatttg aggccaagct acacaaattg ggtttcatga
6601 ctatagccaa gaatggtgat tctccaataa ttgttcctcc aaatggatac tttaggtttg
6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aactgggaat gggcgtagaa
6721 ggattcaata atggctgggg cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtaggatct ttagttaatg caggagctaa tgctattaat caaacaattg atttagaaaa
6841 taataaatat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaagttac aggctgacat gattgctatc aagcaagggg tcttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg tggggcaatt aatgccccca tgacaaaagt
7021 cctagattgg aatggaacga gacactgggc accaggtgcc acctccacaa cctcgatgtc
7081 gggtggcttt acacatcaaa ctgtgcacag atccacacca aattttaaaa cgaaccaggc
7141 tcccaaatcc acacccagca gtgggtcttc agtgaggtca aactcaaccc aaatcactag
7201 cctgagttca cactcgtccg ggtcgtctcg atccagcggg tctacagtta tcagatcaat
7261 accatcctct gacaggacta gggactgggt caaccaacaa aattttaatt tggaaccaca
7321 tatgcctgga tctcttagga cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtgc ccaaaaatgt tttggactcc tggacatctg cgttcaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattatttt aaatttggtt taaattaggt ttaatttgga atcttttaaa aaaaaaaaaa
7561 aaaaaaaaaa aaaaaaaaa
//