Typing tool
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Typing tool
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Complete norovirus genomes
| MH218597 | GII.3 | |
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| GII.P21 |
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS MH218597 7548 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_127_05_03_2015, complete genome.
ACCESSION MH218597
VERSION MH218597.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7548)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Norovirus transmission dynamics in a paediatric hospital using full
genome sequences
JOURNAL Clin. Infect. Dis. (2018) In press
PUBMED 29800111
REMARK Publication Status: Available-Online prior to print
REFERENCE 2 (bases 1 to 7548)
AUTHORS Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
Hartley,J., Harris,K. and Breuer,J.
TITLE Direct Submission
JOURNAL Submitted (17-APR-2018) Division of Infection and Immunity,
University College London, 90 Gower St, London, London WC1E 6BT,
United Kingdom
COMMENT ##Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 10.1
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_127_05_03_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="05-Mar-2015"
/note="genotype: GII.P21_GII.3"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17449.1"
/translation="MKMASNDASAAAAAKSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPSDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKGGVSGLPELSTVTQLE
ENSTAFSVPPLSQRENKDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGAFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEERNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGVLHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRTNIQNLWSKPQVEDLEEINSEEGC
PKPKNDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGDSFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGVVKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFRISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTKGP
NHEDPFETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..994
/gene="ORF1"
/product="p48"
mat_peptide 995..2092
/gene="ORF1"
/product="NTPase"
mat_peptide 2093..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6731
/gene="ORF2"
CDS 5085..6731
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17450.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGVGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG
GRSKGILDCLVPQEWVQHFYQESAPSQSQVALARYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17451.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFTHQTVHRSTPNFKTNQAPKPTPSSGSSVRSNSTQITSLSS
HSFGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNILDSWTSAFNTRRQPLFAHLRRRGESNV"
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 aggacgaacc
241 aatcatttct tacaacgtca aagggggtgt ttctggtttg cctgagctct caactgtcac
301 ccaactggaa gagaactcta cagcattcag cgttccccct cttagtcaga gggagaacaa
361 agatgcaaag gaaccattga ctggaaccat cctggagatg tgggacgggg aaatctacca
421 ttatggctta tacgtagaac gggggttagt gctcggtgta cacaaaccac cagcagccat
481 cagccttgct aaggttgagc tgaccccctt gtctttgtat tggagaccag tgtacacccc
541 acagtacctc atttcccctg acactctcag aaagttgcat ggggagacgt tcccttatac
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga atgattcatg
661 gctgaacaga aggatgatac agaggacaac aggctttttc cgaccctacc aggattggaa
721 caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttgtcct
781 atgtgctctc tcatcattgt tcacaagacc aattaaggac atcattggga aattaaaacc
841 cctaaacatt ctcaacatct tagccacatg tgactggact tttgcaggca tagtagaatc
901 cctgatcctt ttggctgaac tttttggagc tttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactgggtg attatgaact acagggaccc gaggacctcg ctgtggaact
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caagatgctt tcttctgctg cttcaaccct gagagcatgt aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattag ttatgaaatg gtttttccca aagaaagaag agagaaacga
1201 attggcaatg gtgagatcca tcgaggatgc agtgctagac cttgaagcca ttgaaaacaa
1261 ccacatgaca gctctactca aggataaaga tagccttgca acctatatga gaactcttga
1321 catggaggag gagaaggcga gaaaactttc caccaagtct gcctctccgg atattgtggg
1381 cacgataaat gctctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagtagac cccgaccggt cgttgtaatg atttcaggga aaccgggtat
1501 agggaaaacc catctagcta gagagttggc aaagaagatc gcctccacac tcacaggtga
1561 ccagagggtg ggcctaatcc cacgcaacgg ggtcgaccac tgggatgcat acaaaggtga
1621 aagagtcgtt ctctgggacg actacgggat gagcaaccct gtccacgacg ccctcagact
1681 ccaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 taaagttttt gacagtgacg tcataataat aaccaccaat ttggccaacc cagcaccact
1801 ggattatgtc aactttgaag cttgctcgag acgcatagac ttcctcgtct atgctgatgc
1861 tcctgaagtt gagaaggcta 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 atgttaaaac
2221 tatgactgaa ctcaagcagg ccctcaagaa catctcagtc aagaaatgtc agcttgtgta
2281 tggtgggggc acatacacac ttgaatctga tggcaaaggc aatgtgcacg tcgaaaaggt
2341 gaacaacacc agtgtgcaaa ctaacaacga gctctccggg gttttgcacc atctcaggtg
2401 tgctagaatc aggtactatg ttaagtgtgt tcaggaagct ctctactcca tcttacaaat
2461 tgccggggct gcattcatca ccacgcgcat tgcaaagcgc acaaacatac aaaacctctg
2521 gtccaaacca caagtggaag atctagagga aattaacagc gaggagggtt gtccaaaacc
2581 taaaaatgat gaagaatttg tcgtctcctc tgatgacatc aagactgagg gtaagaaagg
2641 aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag gactcagtga
2701 tgaggagtac gatgagtata agagaatcag ggaagaaaga aatggtaagt actccataga
2761 ggaataccta caggacagag acaaatacta tgaagaggtg gccatagcca gggcaactga
2821 ggaagatttc tgtgaagaag aggaggccaa aatccggcag aggatattca gaccaacaag
2881 gaaacaacgc aaagaggaaa gagcttctct tggtttggtt acaggctccg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gctgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctca gggtggggct tttgggtctc gcccagcctc ttcataacat cgacacatgt
3121 cattccccaa ggcgcgcagg agttctttgg agtgtccatc aaacaaatac aaattcacaa
3181 atcaggtgag ttctgccggc ttaggttccc gaaaccaatc aggacagatg tcacaggcat
3241 gatcttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agagaccaac
3301 tggggaactc atgcccttgg cagccaggat gggtacccac gctaccatga aaattcaggg
3361 tcgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 tttgggcaca actcctggcg attgtggttg tccctatatc tacaagagag ggaacgacta
3481 cgtggtcatt ggagtccaca ctgccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaaac gagggtgagg ccatgctaga aggtggtgac aataagggaa cttactgtgg
3601 agcaccaata ttaggccctg gaaatgcccc caaactcagc accaaaacca agttctggag
3661 gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg gtggtaagga
3721 ccccagagtg aaaggtggcc cctcactgca acaggttatg agagaccaac taaaaccatt
3781 cactgagccc agaggcaaac cacccaaacc aagtgtgcta gaagctgcca agaagactat
3841 aatcaatgtg cttgaacaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcacta gataagacca cttccagcgg tcaccctcac cacatgcgga agaacgattg
3961 ctggaatggg gactctttca caggaaaact ggcagaccaa gcatcaaagg ccaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt atacacaggg gctctgaaag atgagctagt
4081 caagactgac aaaatttatg gggtagtcaa 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 cagccctaga aataatggtc aaattctcac cagaacccca
4381 cctggcccag gtggttgcag aagacctttt gtcccccagt gtgatggatg tgggtgattt
4441 taggatatca atcaacgagg gattaccctc tggtgttcct tgcacttcac aatggaactc
4501 cattgctcac tggctcctca ctctatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcgaattccc tgttctcttt ttatggtgat gatgaaatag tgagcacaga
4621 catcaaatta gacccagaga aattgacagc aaagctgagg gaatatgggc ttaaaccaac
4681 ccgccctgac aaaacagagg gacccttaat tatctctgaa gatttgaatg gcctgacctt
4741 cttgcggaga acagtgaccc gcgacccggc cggatggttt ggcaaactgg accaaagttc
4801 aatactcaga cagatgtact ggaccaaggg gccaaaccat gaagacccct ttgaaacaat
4861 gataccacac tcccaaagac ccatacaatt gatgtcatta cttggtgaag ctgcattgca
4921 tggtccatca ttctacagta aaatcagcaa 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 ggccagcaga
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagttcacag
5281 tgtcccccag aaattcccct ggtgaagtcc ttcttaattt ggaattgggc ccagaaataa
5341 atccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtggtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaattttcc aattgacaat ctaagtgcgg cacagatcac aatgtgccca catgtgattg
5521 tggatgtcag acagttggaa ccagtcaacc tcccgatgcc tgacgttcgc aataacttct
5581 ttcattataa tcaagggtct gattcaagat tacgcttaat tgcaatgtta tacacacctc
5641 ttagggcaaa caattctggg gatgatgttt ttactgtgtc ttgtagagtg ctgactagac
5701 ctagtcctga tttctcattc aattttcttg tgccacctac tgtggagtca aagacaaaac
5761 ccttttctct ccctatcctg actatctctg aaatgtccaa ttctaggttc ccagtaccaa
5821 ttgattctct gcacaccagt cctactgaga atattgttgt tcagtgccaa aatgggcgtg
5881 tcacccttga tggtgagttg atgggcacca cccaactctt gcctagccaa atctgtgctt
5941 tcaggggcgt tctcaccaga tcaacaagca gggccagtga ccaggccgat acagcaaccc
6001 ctagattgtt taattattat tggcatatac aattggataa tctaaatgga accccttatg
6061 atcctgcaga agacatacca ggccccctag ggacaccaga tttccgtggc aaagtctttg
6121 gcgtggccag ccaaagaaat cctgatgcca cgactagggc acatgaagca aagatagaca
6181 ccacatctgg ccgcttcacc ccaaagctag gctcattaga gatatccact gaatctggtg
6241 actttgacca aaaccaacca acaagattca ccccagttgg cgttggagtt gatcatgagg
6301 cagactttca acaatggacc ctacccgatt atgctggtca gttcacacac aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacatt
6421 tgccatcttc tggtgggcga tccaaaggga ttctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagag tcagccccct ctcagtctca agtggctctg gctagatatg
6541 ttaaccctga cactggtaga gtgttatttg aggccaagct acacaaatta ggtttcatga
6601 ctatagccaa gaatggtgat tctccaataa ctgttcctcc aaatgggtat tttaggtttg
6661 aatcttgggt gaaccccttt tacacacttg cccccatggg aactgggaat gggcgtagaa
6721 ggattcaata atggctggag cttttatagc aggattggct ggtgacatgc tcacaaatac
6781 tgtaggatct ttagttaatg caggggctaa tgctattaat cagacaattg attttgaaaa
6841 taataaatat ctgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaagttac aggctgacat gattgctatc aagcaagggg tcttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg tggggcaatt aatgccccca tgacaaaagt
7021 cctagattgg aatggaacga gatactgggc accaggtgcc acctccacaa cctcgatgtc
7081 gggtggcttt acacatcaaa ctgtgcacag atccacacca aattttaaaa cgaaccaggc
7141 tcccaaaccc acacccagca gtgggtcttc agtgaggtca aactcaaccc aaatcactag
7201 cctgagctca cactcgttcg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggactgggt caaccaacaa aattttaatt tggaaccaca
7321 catgcctgga tctcttagga cagcttttgt cactccgcca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtgc ccaaaaatat tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattatttt aaatttggtt taaaattagg tttaatttgg aatctttt
//