Complete norovirus genomes
Length: 7,548 |
3 CDS
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS MH218586 7548 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_116_26_09_2014, complete genome.
ACCESSION MH218586
VERSION MH218586.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
stage; Caliciviridae; Norovirus.
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_116_26_09_2014"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="26-Sep-2014"
/note="genotype: GII.P21_GII.3"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17416.1"
/translation="MKMASNDASAAAAANSNNDNAKSSSDGVFSNMAVSFKRALGARS
KQPPPKDKPSRPPRPPTPELVKSIPPPPPNGEDEPIISYNAEKGVSGLPELTTVTQLE
ENSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGEMFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANIVLCALSALFTRPIKDIIGK
LKPLNVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEKNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALNNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTNVQTNNELSGALHHLK
CARIRYYVKCVQEALYSILQIAGAAFITTRIARRTNIQNLWSKPQAENLEETNNEEGC
PKPKNDEEFVISSNDITTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKNMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKRTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGETFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLK
EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTKGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
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="AWR17417.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANSSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGST
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPCP
LGIPDFQGKVFGVASQRNPDATTRAHEAKIDTTAGRFTPKLGSLEISTESDDFDQNKP
TRFTPVGIGVDREADFQQWALPNYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17418.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSLSGGFTNQTVHRPTPNFKTGQAPKPAPSSGSSVRSNSTQVTSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPYMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNA"
ORIGIN
1 gtgaatgaag atggcgtcta atgacgcttc cgctgccgct gctgccaaca gcaacaacga
61 caacgcaaaa tcttcaagtg acggagtatt ttctaatatg gccgtctctt ttaaacgggc
121 cctcggggcg cggtctaaac agccgccccc gaaggacaaa ccatcaaggc ccccaagacc
181 acccacacca gaattggtta aatcaatccc ccctccccca cccaacgggg aggacgaacc
241 aatcatttct tacaacgctg aaaagggtgt ctctggtttg cctgaactca caactgtcac
301 ccaactggaa gagaactcta cagcattcag cgttccccct cttagtcaga gggagaacag
361 agatgcaaag gaaccattga ctggaaccat cctggagatg tgggatgggg agatctacca
421 ttatggctta tacgtggaac gagggttagt gctaggtgta cacaaaccac cagcagccat
481 cagccttgct aaggttgagc tgaccccttt gtctttgtat tggagaccag tgtacacccc
541 acaatatctc atttcccctg acactctcag aaagttgcat ggggagatgt tcccttatac
601 agcctttgac aacaactgtt atgccttctg ctgttgggta cttgacttga acgactcatg
661 gctgagcaga aggatgatac aaagaacaac aggattcttc cgaccctacc aggactggaa
721 caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atattgtcct
781 ctgtgccctc tcagcattgt ttacaagacc aattaaggac attattggga agttgaaacc
841 cctaaacgtc ctcaacatcc tagccacatg tgattggact tttgcaggca tagtagaatc
901 cctgatcctt ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
961 gatcgctccc ttactgggtg attacgagct gcagggaccc gaggacctcg ctgtggaact
1021 cgtacccgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caaaatgctt tcatcagctg cctcaaccct tagggcatgc aaagatctcg gtgcatatgg
1141 gttggagatc ctcaagttgg tcatgaaatg gtttttccca aagaaagaag agaaaaacga
1201 attggcaatg gtgagatcca ttgaggatgc agtgctagat cttgaggcca ttgagaacaa
1261 ccatatgaca gctctactca aggacaaaga cagccttgca acctacatga ggactcttga
1321 catggaggag gagaaggcga ggaaactttc caccaagtct gcctcgccgg acattgtggg
1381 cacaataaat gccttactat caaggattgc agctgcccga tctctagtgc acagggccaa
1441 ggaggagctg tcaagcaggc cccgaccggt cgttgtgatg atttcaggga gaccaggtat
1501 agggaaaacc catttagcta gagagttggc aaagaagatc gcctcctcac tcacaggtga
1561 ccagagggtg ggtcttatcc cacgcaacgg agttgaccac tgggatgcat acaaaggtga
1621 aagagttgtt ctctgggacg actacgggat gagcaaccct atccacgacg ccctcagact
1681 tcaggagctc gctgatacct gtcctcttac actcaactgt gacaggattg agaacaaagg
1741 caaagtcttt gacagtgacg ccataataat aaccaccaat ttagccaacc cagcaccact
1801 ggattacgtc aactttgaag cctgctcaag acgcatagac ttcctcgtct atgctgatgc
1861 ccctgaggtt gagaaggcta aacgggactt tccaggccaa ccagacatgt ggaaagacac
1921 cttcaaacct gatttctcac acataaagct gacattagct ccgcaaggag gttttgataa
1981 gaatggtaac actcctcatg ggaagggtgt catgaagacc ctcactgcca gttccctcgt
2041 tgcccgagca tcagggctcc tccacgagag attagacgaa tatgagctgc agggcccaac
2101 ccccacaaca ttcaacttcg accgcaataa ggtgcttgct tttaggcaac ttgctgctga
2161 aaacaagtac ggtcttgttg acacaatgag agtcggatca cagctcaaga atgtcaagac
2221 catgacagaa cttaagcagg ctctcaataa catctcagtc aagaagtgtc agcttgtgta
2281 tggtggtggc acgtacacac ttgaatctga tggcaaaggc aatgtgcatg tcgagaaggt
2341 gaacaacacc aatgtgcaaa ctaacaacga gctctccgga gctttgcacc acctcaagtg
2401 tgccagaatc aggtactatg ttaagtgtgt ccaggaagct ctctactcca tcttgcaaat
2461 tgccggggct gcattcatca ctacgcgcat tgcaaggcgc acaaacatac aaaacctctg
2521 gtctaaacca caagcagaaa atctggagga gactaacaac gaggagggct gtccaaaacc
2581 taaaaatgat gaagagtttg tcatctcctc taatgacatc acaaccgagg gcaagaaagg
2641 aaagaacaag actggccgtg gcaagaagca cacagccttt tccagcaaag gactcagtga
2701 tgaggagtac gatgagtata aaagaatcag agaagagagg aatggcaagt actccataga
2761 ggaataccta caggacagag acaaatacta tgaggaggtg gccatagcca gggcaactga
2821 ggaagacttc tgtgaagaag aggaggcaaa aatccggcaa aggatattta gaccaacaag
2881 gaaacaacgc aaagaggaaa gggcctctct tggtttggtt acaggttctg agatcagaaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gccgatgatg acaggagtgt
3001 tgactacaat gagaaactta gttttgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctca gggtggggtt tttgggtctc gcccagcctc ttcataacat caacccatgt
3121 cattccccaa ggcgcacagg agttctttgg agtgcccatc aaacaaatac aaattcacaa
3181 gtcaggtgag ttctgccggc tcaggttccc aaaaccaatc aggacagatg tcacaggtat
3241 gatcttggag gaaggtgctc cagaaggcac cgttgccaca cttctcatca agagaccaac
3301 tggggaactc atgcccttgg cagccagaat gggcacccac gcgaccatga aaatccaggg
3361 tcgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agaatatgga
3421 cttgggcaca actcctggcg attgtggttg tccctatatc tacaagagag ggaatgacta
3481 cgtggtcatt ggagtccaca ctgccgccgc tcgtggagga aacactgtca tctgtgcaac
3541 ccaaggaagc gagggtgagg ccatgttaga aggtggtgac aacaagggaa cttattgtgg
3601 agcaccaata ttaggtcctg gaaatgcacc caaactcagc accaaaacca aattctggag
3661 gtcttccacc acccctttgc cacccgggac ctatgagcca gcttatctgg gcggcaagga
3721 tcctagagta aaaggtggcc cctcactgca acaggttatg agggaccaac taaaaccatt
3781 cactgaaccc agaggtaaac cacccaaacc aagcgtgcta gaagctgcca agaggactat
3841 aatcaatgtg cttgaacaaa caatagaccc accccaaaaa tggacatacg cacaggcgtg
3901 tgcatcacta gacaagacca cttctagcgg ccaccctcac cacatgcgga agaacgattg
3961 ctggaatggg gagaccttca caggaaaact ggcagaccaa gcatcaaagg ctaacctaat
4021 gtttgaggaa ggaaagaaca tgaccccagt ttacacagga gctctaaaag atgagctagt
4081 caagactgat aagatctatg gtaaaatcaa gaagagactc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggctaatg gacgaactca aggcccattg
4201 cgtcacgcta ccagtcaggg ttggtatgaa catgaatgag gatggaccca taatatttga
4261 gaaacattcc agatataaat atcattatga tgcagattac tcccgttggg actcaacaca
4321 acaaagagcg gtgctggctg cagccctgga aataatggtc aaattctcac cagaacccca
4381 tctggcccag gtggttgcag aggacctctt gtcccccagt gtgatggatg tgggtgattt
4441 caagatatca atcaacgagg gattaccctc tggtgttccc tgcacctcac aatggaactc
4501 cattgcccac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcaaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 catcaaactg gacccagaga aactaacaac aaaattgaag gaatacgggc tgaaaccaac
4681 ccgccctgac aaaacagaag gacccttaat tatctctgaa gacttggatg gcctgacctt
4741 cttacgtaga acggtgaccc gtgatccggc cgggtggttt ggcaaactgg accaaagttc
4801 aatactcagg cagatgtact ggaccaaggg accaaaccat ggggatccct ccgaaacaat
4861 gataccacac tcccaaagac ccatacaact gatgtcattg ttgggtgaag ctgcgttgca
4921 tggtccatcg ttctacagca aaatcagcaa attggttatc tcagaattga aagagggtgg
4981 aatggatttt tacgtgccca gacaagagcc aatgttcagg tggatgagat tctcagattt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctaat gatggtgccg ccggcctcgt cccagagatc aacaatgagg
5161 caatggcgct agagccagtg gcgggtgcag cgatagcagc gcccctcact ggtcagcaaa
5221 atataattga tccctggatt atgaataatt ttgtgcaagc acctggtggt gagtttacag
5281 tgtcccctag aaattcccct ggtgaagttc ttcttaattt ggaattgggc ccagaaataa
5341 acccctattt ggcccatctt gccagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtggtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaactttcc aattgacaac ctaagtgcgg cacagatcac aatgtgtcca catgtgattg
5521 tggatgtcag gcagctggaa ccagtcaacc tcccgatgcc tgacgttcgc aacaacttct
5581 ttcattacaa tcaagggtct gattcgagat tgcgcctaat tgcaatgttg tatacacctc
5641 ttagggcaaa cagttctgga gatgatgttt ttactgtgtc ttgcagagtg ctaactagac
5701 ctagccctga tttttcattt aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 cattttcact ccctattctg actatctctg aaatgtccaa ttctaggttc ccagtaccaa
5821 ttgattctct gcacactagt cccactgaga atattgttgt ccagtgtcag aatgggcgcg
5881 ttacccttga tggtgagttg atgggctcca cccaactctt acctagccaa atttgtgctt
5941 tcaggggcgt gctcaccaga tcaacaagca gggccagtga ccaggccgac acagcaaccc
6001 ctagattatt taattattat tggcatatac aattggataa tctaaatgga actccttatg
6061 accctgcaga agatatacca tgccccttag ggataccaga tttccagggc aaagtctttg
6121 gcgtggccag ccagagaaat cctgacgcca caactagggc acatgaagca aagatagaca
6181 caacagctgg ccgtttcacc cctaaactag gctcattaga gatttccact gagtctgatg
6241 attttgatca aaacaaacca acaagattca ccccagttgg tattggggtt gaccgtgagg
6301 cagactttca acaatgggct cttcccaact atgctggcca gttcacccat aacatgaact
6361 tagccccagc tgttgctccc aacttccctg gtgagcagct ccttttcttc cgctcacagt
6421 tgccatcctc tggtgggcga tccaacggga tcctggactg ccttgtcccc caagaatggg
6481 tacagcattt ctaccaagaa tcagccccct cccaatctca agtggccctg gttaggtatg
6541 tcaaccctga cactggcaga gtgttatttg aggccaagct gcacaaatta ggtttcatga
6601 ctatagccaa gaatggtgat tctccaataa ctgtccctcc aaatggatac tttaggtttg
6661 aatcttgggt gaaccccttt tatacacttg cccccatggg aacagggaat gggcgtagaa
6721 ggattcaata atggctggag cttttatagc aggattggct ggtgatatgc tcacaaatac
6781 tgtaggatct ttagttaatg caggggctaa tgctattaat cagacaattg attttgaaaa
6841 taataaatat ttgcagaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaggttac aggctgacat gattgctatc aaacaagggg ttttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg cggggcaatt aatgccccca tgacaaaagt
7021 cctagattgg aacgggacga gatactgggc accaggcgcc acctccacga cctcgttgtc
7081 gggtggcttc acaaatcaaa ccgtgcacag acccacacca aattttaaaa cgggccaggc
7141 tcccaaaccc gcacccagca gtgggtcttc agtgaggtca aattcaaccc aagtcactag
7201 cctgagttca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacagaacta gggactgggt caaccaacaa aatttcaatt tggaaccata
7321 tatgcctgga tctcttagga cagcttttgt cactccacca tctagcacag cctctagctc
7381 aggcacagtc tcaactgtgc ccaaaaatgt tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg cttagtgaaa
7501 agattatttt aaatttgatt taaaattagg tttaatctgg aatctttt
//
