Typing tool
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Typing tool
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Complete norovirus genomes
| LN854570 | GII.1 | |
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| GII.P33 |
ORF1: 5..5110
ORF2: 5091..6698
ORF3: 6698..7468
LOCUS LN854570 7516 bp RNA linear VRL 12-JUN-2015
DEFINITION Norovirus GII/Hu/NL/2014/GII.2/Groningen, complete genome.
ACCESSION LN854570
VERSION LN854570.1
KEYWORDS complete genome.
SOURCE Norovirus GII/Hu/NL/2014/GII.2/Groningen
ORGANISM Norovirus GII/Hu/NL/2014/GII.2/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JOURNAL Unpublished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 7516)
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..7516
/organism="Norovirus GII/Hu/NL/2014/GII.2/Groningen"
/mol_type="genomic RNA"
/strain="GII/Hu/NL/2014/GII.2/Groningen"
/host="Homo sapiens"
/db_xref="taxon:1665651"
/note="genotype:GII.2"
gene 5..5110
/gene="POL"
CDS 5..5110
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="CRL46972.1"
/translation="MKMASNDASAAAAATSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPREATQKQKPPRPPTPELIKKIPPPPPNGEDDIVVSYSAKDGVSGLPELSTVRQ
PGETNTAFSVPPLNQRENRDAKEPLPGSILEMWDGEIYHYGLYVERGLVLGVHKPPAA
VSLAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDII
GKLRPLNILNILASCDWTFAGVVESLILLAELFGVYWTPPDVSALIAPLLGDYELQGP
EDVAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLIMKWF
FPKKDQVNELAMVRSIEDAVLDLEAIENNHLTTLLKDKDSLATYMKTLDLEEEKARKL
STKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
DLAKKVAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
TCPLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
EKAKRDFPGQPDMWKDAFKSDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLVA
RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKNVK
TVSELKQALKNISIKRCQIVYSGLTYSLESDGKGNVRIEKVQSPAVQTNNELTGALHH
LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRINIQNLWSRPQVEDEEETTSKD
GCPKPKDEEEFVISSEDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREER
NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRVFRPTRKQRKEERASLG
LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
SPSLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGYPHHVRKNE
YWNGESFTGKLADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSR
WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTDLAPDIIQANSLFSFYGDDEIVSTDIKLDPERLTTK
LKEYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
GPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5091..6698
/gene="VP1"
CDS 5091..6698
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="CRL46973.1"
/translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLELELGPELNPFLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQQPEARMKLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
TVESKTKPFTLPILTIGELSNSRFPVPIDILYTSPNEGVVVQPQNGRSTLDGELLGTT
QIVPSNICALRGRINAHVPNEPNQWNLQVTNANGTPFDPTEDVPAPLGTPDFQANIYG
VTGQRNSDSSCRAHDGVLATWSPKFTPKLGSVVLGTWEKEDFNINQPTRFTPIGLHNT
EHFKQWVLPNYSGMLTLNMNLAPSVAPLFPGEQILFFRSFIPLNGGKSDGAIDCLLPQ
EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVASSGSKPIVVPPNG
YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6698..7468
/gene="VP2"
CDS 6698..7468
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="CRL46974.1"
/translation="MAGAFVAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA
SFNHDQEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAVNAPMTQVLDWSG
TRYWAPGATKTTAFSGGFTSSPNTRTIVPKKTSATPASTSVSRPSSLASTASTRSTFV
SGTSSLSSSTRSSFNSQPTSSSSRTSEWVRSQNRVLEPYMRGSLQTAFVTPPSSRASS
NGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctacta gcaacaacga
61 catcgcaaaa tcttcaagtg acggagtact aagtagtatg gctgtcactt tcaaacgagc
121 cctcggggcc cggcctaaac agccgccccc gagggaagca acacaaaaac aaaaacctcc
181 acgaccgccc accccggaat taatcaaaaa gattccacct cccccgccca acggggagga
241 cgacatagtg gtatcctaca gtgccaaaga tggagtctcc ggcctgcctg agctatccac
301 cgtcaggcag ccgggtgaga caaacacagc atttagtgtc cccccactca accagaggga
361 aaacagggat gctaaagaac cgctgcctgg ctccatcttg gagatgtggg acggagagat
421 ctaccactat ggcttgtacg tggagcgggg cttggtgctt ggggtgcaca aaccaccagc
481 ggctgttagc cttgcaaagg ttgaactaac accactgtct ctgtactgga gaccagtgta
541 cacccctcag tacctcatat ccccggaaac tctcaaaaag ctacatggag agacattccc
601 ttacacggcc tttgacaaca actgttacgc cttctgttgc tgggtcttgg acctaaacga
661 ctcttggctc agcaggagga tgatacagag aacaactggc ttcttcagac cctaccagga
721 ctggaacagg aaacctctcc ccactatgga tgattccaaa ttgaaaaagg tggccaatat
781 agtcctgtgt gctttgtcat cactattcac caggcccatt aaggatataa taggaaaact
841 aaggccttta aacatactta atatactagc ttcctgcgac tggactttcg caggagtagt
901 ggaatcccta attctccttg cagaactctt cggagtttac tggacacccc cagatgtgtc
961 tgcgttgatc gcccccttgc taggcgacta cgaactacag ggacctgaag atgtcgctgt
1021 agaactcgta ccagtggtaa tgggggggat aggtttggtt ctaggtttca ccaaggagaa
1081 gattggtaag atgctatcat ctgccgcgtc caccctcaga gcttgtaaag accttggtgc
1141 atatggattg gaaattctga agctaatcat gaagtggttc ttcccgaaga aagaccaggt
1201 aaatgagctt gcaatggtga ggtccattga ggacgcagta ctagacctcg aagcaattga
1261 aaacaatcac ttgaccaccc tgctcaaaga caaagacagc ttagcaacct acatgaagac
1321 tctggatctt gaggaagaga aagctaggaa actctccacc aaatccgctt ctcctgacat
1381 tgtgggcaca atcaactcac ttctggcacg gattgcagct gcccgttccc tggtgcatcg
1441 ggcaaaagaa gagctttcta gtaggccaag acccgttgtt gtcatgatat caggaaagcc
1501 agggataggg aagacccacc ttgccaggga tttggcaaag aaggttgcgg ccaccctcac
1561 aggagaccag agggtgggcc tcatcccacg gaatggtgtc gaccattggg atgcatacaa
1621 aggtgagaga gtcgtccttt gggacgacta tggaatgagt aatcccattc atgacgccct
1681 taggctccaa gaactcgctg acacttgccc cttaacacta aattgtgata gaattgagaa
1741 caaagggaag gtctttgaca gtgatgtcat aattatcaca actaatctgg ctaacccggc
1801 accactggac tacgtcaact ttgaagcatg ttcgaggcgc atcgacttcc tagtgtatgc
1861 tgatgccccc gacgttgaaa aggcaaaacg cgacttccca gggcaacctg acatgtggaa
1921 ggatgctttt aaatctgact tctcacacat aaagttgatg ttggctcctc agggtggttt
1981 tgacaagaac ggcaacaccc cacatggaaa aggtgtcatg aaaactctca catctggctc
2041 cctcgttgct cgtgcttcag gactcctcca cgaaagactg gacgagtacg agttacaagg
2101 accaacaccc acaaccttca atttcgacca aaacaaggtg ttcgccttta gacagctcgc
2161 cgctgaaaat aagtacgggc tgatggacac catgagagtg gggagccagc tcaagaatgt
2221 caaaactgtg tcagagctca aacaggcact taagaacatt tcaattaaaa ggtgccaaat
2281 agtttacagt ggtctcacat attcacttga atctgatggc aaaggtaatg tgaggattga
2341 gaaggtgcaa agtccagctg tgcagaccaa caatgagcta actggcgcac tacatcatct
2401 gagatgcgct aggattagat attatgttaa gtgtgtccag gaagctttgt attccatcat
2461 ccaaattgct ggagccgcgt ttgtcaccac gcgcattgca aagcgcataa acatacaaaa
2521 cctctggtcc agaccacagg tggaagatga ggaagagacc accagcaaag acgggtgccc
2581 gaaaccaaag gatgaggagg agtttgtcat ctcgtctgaa gacatcaaag ccgaaggcaa
2641 gaagggaaag aacaaatctg gccgtggcaa gaaacacaca gccttctcga gtaagggcct
2701 tagtgatgag gagtacgaag agtacaagag aatcagagaa gaaagaaatg gcaagtactc
2761 catagaagaa tacctccaag acagagacaa gtactatgag gaggttgcca tagccagggc
2821 tactgaagag gacttctgtg aggaagaaga agccaagatt cggcaaaggg ttttcagacc
2881 aacaaggaaa caacgcaagg aggagagggc ttcactcgga ctggttacag gctcagaaat
2941 caggaaaagg aacccggatg acttcaaacc taaaggaaag ttatgggctg atgatgacag
3001 gagtgtcgat tacaatgaaa agctcagttt tgaagccccc ccaagcatct ggtcgagaat
3061 agtcaacttt ggatcgggtt ggggcttctg ggtctcacca agtctcttta taacatccac
3121 ccacgtcata cctcaagggg cacaagagtt cttcggtgtt cccattaaac agatccaaat
3181 tcataagtca ggtgagttct gccgactaag attcccgaag ccaattagaa ctgatgtgac
3241 aggtatgatc ctggaggagg gggccccaga aggcactgtg gccacactgc tcataaagag
3301 gccaactggg gagctgatgc cactggcagc tagaatgggc acccatgcaa ctatgaagat
3361 ccaaggtcga accgtcgggg gacagatggg gatgctcctg acaggatcca acgccaagag
3421 catggatttg ggtaccacac caggtgactg tggatgccca tatatctaca aaagaggaaa
3481 tgactacgtg gtcatcggag tccacacagc tgccgcccgc ggtgggaaca ctgtcatctg
3541 tgcaactcaa ggaagtgagg gcgaggccgt acttgaaggt ggtgacaaca aaggcaccta
3601 ttgtggcgcc ccaattctag gtccaggaaa tgcccccaaa ctcagtacta aaaccaaatt
3661 ctggaggtcc tcaacagcac cactcccacc tggtacatat gaaccagctt acctcggagg
3721 caaagacccc agggtaaaag gtggcccctc attacagcaa gttatgagag accaattgaa
3781 accgttcaca gaacccagag gtaagccacc aaaacccagt gtgttggaag cagccaaaaa
3841 gacaatcatc aatgtccttg agcaaacaat agacccaccc caaaaatgga cgttcgcaca
3901 ggcgtgcgca tcccttgata aaacaacctc tagtggttac ccgcaccacg tgcggaagaa
3961 tgaatattgg aatggagaat ctttcacagg gaaattggct gatcaggctt caaaagctaa
4021 cttgatgttt gaagaaggaa aacacatgac accagtctac acgggagctc tcaaagatga
4081 gttagtcaaa actgataaaa tatatggtaa gatcaagaaa aggttattat ggggttcaga
4141 tctggcaacc atgatccgtt gcgctcgagc gttcggaggg ttgatggatg agctcaaggc
4201 ccactgtgtc acactcccca tcagggtggg gatgaacatg aatgaggatg gtcccatcat
4261 ttttgaaaaa cactctaggt atacctacca ttatgatgca gactactctc ggtgggactc
4321 aacacagcag agagctgtct tagctgcagc tctggagatc atggtaaaat tttccccaga
4381 accacaccta gctcagattg ttgcagaaga tctcctgtct cccagcgtga tggacgtggg
4441 cgattttaaa atatcaatca ctgaaggact cccctctggg gtgccttgca cttcacagtg
4501 gaattccatt gctcattggc tcctcacgct ctgtgctctc tctgaggtaa cagatttagc
4561 tcctgacata atccaagcaa actcactctt ctctttctat ggtgatgatg aaattgtgag
4621 cacagacatt aaattagatc cagaaaggct aacaaccaaa ctaaaagaat atggtctcaa
4681 accaacccgc cctgacaaga ctgaagggcc tctgattatt tctgaggact tagatggtct
4741 gaccttcttg cgaagaactg tgacccgtga cccagcaggt tggtttggaa aattggaaca
4801 gagctcaata cttagacaga tgtattggac caggggcccc aatcatgagg acccctttga
4861 aacaatgata ccacactccc aacgacccat acagctgatg tccctactag gtgaagctgc
4921 attgcatggc ccatcgttct acagcaaaat cagcaaattg gtcatatcag agttgaaaga
4981 aggtggcatg gacttttacg tgccaaggca agagccaatg ttccgatgga tgaggttctc
5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg
5101 cgtcgaatga cgccgctcca tctaatgatg gtgcagccgg tctcgtacca gaggtcaata
5161 acgagacgat ggcacttgag ccggtggctg gggcctccat agctgcccct ctaaccggcc
5221 aaaacaatgt gatagacccc tggattagaa tgaattttgt tcaagcccca aatggtgaat
5281 ttacagtgtc cccccgtaat tccccaggtg aagtgttgtt agaattggaa ttaggccccg
5341 aattgaatcc attcctggca cacctttcaa gaatgtacaa tggttatgct ggtggggttg
5401 aagtgcaggt gctacttgct gggaacgcgt tcacagcagg aaaactagtg tttgcagcaa
5461 tccccccaca cttccctctt gagaatctga gtcctggtca aattacaatg ttccctcatg
5521 taattattga tgttagaact ttagaacctg tccttttacc tttaccagat gttagaaata
5581 acttctttca ttacaatcag cagcctgagg cccgtatgaa acttgtggct atgttgtaca
5641 ctcctcttag atctaatggt tctggtgatg atgtgtttac agtctcttgt agggttctca
5701 ctcgcccttc tccagatttt gattttaatt atttggtccc cccaactgtg gaatctaaaa
5761 ctaaaccatt caccctgcca atattgacca ttggagaatt gtcaaattct aggttcccag
5821 taccaataga tatattgtac accagcccta atgaaggagt ggttgtgcaa cctcaaaatg
5881 gcagatcaac actcgatggt gaactgcttg gcaccacaca aattgtacca tcaaacatct
5941 gtgccttgcg ggggcgcatc aacgcccatg tgccaaacga acccaatcaa tggaacttgc
6001 aggttacaaa tgcaaatgga actccctttg accccactga agatgtccct gcgccattgg
6061 gcacgccgga cttccaggca aacatctacg gagtcacagg tcagaggaac tctgacagct
6121 cttgccgtgc ccatgatggg gttttggcaa cctggagccc taaatttaca cctaagctag
6181 gatctgtggt cttgggtact tgggaaaaag aagattttaa tatcaatcag cctaccagat
6241 tcacacctat tggtttgcat aatacagaac actttaagca gtgggttcta cccaattatt
6301 ctggaatgtt gaccttaaac atgaatttgg caccctctgt tgctcccctc ttcccaggtg
6361 aacaaatact cttctttagg tcctttatac cactcaatgg aggcaaatcc gacggtgcca
6421 ttgactgtct actccctcag gaatggatcc agcatttcta tcaggaatca gccccatcac
6481 ccacagacgt tgccctgatt aggtacacca atcctgacac gggccgcgtc ctctttgagg
6541 ccaaattaca tagacaggga ttcattacag tagcaagttc tggttctaaa cctattgttg
6601 tccctcctaa tggttatttt aggtttgatt cttgggttaa tcagttttat tctctcgccc
6661 ccatgggaac tgggaatggg cgtagaaggg tgcagtaatg gctggagctt ttgtagcagg
6721 gcttgccggt gatatagtca ccaacagcat tggttcactt gtgaacgctg gagccaatgc
6781 aataaaccaa aaagtggatt ttgaaaacaa caaacaacta cagcaggcct ctttcaacca
6841 tgatcaggaa atgttgcaag ctcaaattca ggccacaaaa caactacaag ctgacatgat
6901 tgcgctcaga caaggggtgt tgaccgcagg cggcttctcc cctactgacg cagcgagagg
6961 ggcggttaat gcgcccatga cgcaagtctt ggattggagt gggaccaggt actgggcccc
7021 cggagccaca aaaacaactg ctttctccgg cgggttcaca agctccccca ataccaggac
7081 tattgtgcct aagaaaacat cagccacacc agcctccaca tctgtgtcta gacctagttc
7141 tcttgcttct actgcttcta cccgctcaac atttgttagc gggacttcta gcctttcttc
7201 ttcgactagg agctctttta attcccagcc cacctcctct tcttctcgga ctagcgaatg
7261 ggtgcgtagt caaaacaggg tgctggagcc ctacatgagg ggatcgttac aaactgcttt
7321 cgtgacgcct ccctctagta gagcctccag caatggcaca gtctcaaccg tgccaaaaga
7381 agttttggac tcctggacat ctgtgttcaa cacccacaga caaccgcttt tcgctcatct
7441 ccgtcggaga ggggagtcac aggtttagtg aaaagatgat ttttctttct attctttttg
7501 aaatttctgt ctttta
//