Complete norovirus genomes
Length: 7,541 |
3 CDS
ORF1: 5..5104
ORF2: 5085..6731
ORF3: 6731..7495
LOCUS MH218592 7541 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_122_01_12_2014, complete genome.
ACCESSION MH218592
VERSION MH218592.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA
stage; Caliciviridae; Norovirus.
REFERENCE 1 (bases 1 to 7541)
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 7541)
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..7541
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_122_01_12_2014"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="01-Dec-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="AWR17434.1"
/translation="MKMASNDASAAAAAKSNNDNAKSSSDGVLSNMAVTFKRALGARP
KQPPPSDKPPKPPRPPTPELVKAIPPPPPNGEDEPIISYNVKGGVSGLPELSTVTQLE
ENSTAFSVPPLSQRENKDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMIQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGK
LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEERNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLST
KSASPDIVGTINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSSPVHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTM
TELKQALKNISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNTSVQTNNELSGALHHLR
CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRTNIQNLWSKPQVEDLEEINSEEGC
PKPKNDEEFVVSSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGNEGEAMLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPNVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPHHMRKNDCW
NGDSFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGVVKKRLLWGSDL
STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKCHYDADYSRWD
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="AWR17435.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESSDFDQNQP
TRFTPVGVGVDHEADFQQWALPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6731..7495
/gene="ORF3"
CDS 6731..7495
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17436.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQIEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFTHQTVHRSTPNFKTNQAPKPTPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
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 tgttccccct cttagtcaga gggagaacaa
361 agatgcaaag gaaccattga ctggaaccat cctggagatg tgggacggag aaatctacca
421 ttatggctta tacgtagaac gggggttagt gctcggtgta cacaaaccac cagcagccat
481 cagccttgct aaagttgagc tgaccccctt gtctttgtat tggagaccag tgtacacccc
541 acagtacctc atttcccctg acactctcag aaagttgcat ggggagacgt ttccttatac
601 agcctttgac aacaactgtt atgccttctg ctgttgggtg cttgacttga acgattcatg
661 gctgaacaga aggatgatac agaggacaac aggcttcttc cgaccctacc aggattggaa
721 caggaaaccc ctccccacga tggatgactc caaagtgaaa aaggtggcca atgttgtcct
781 atgtgctctc tcatcattgt tcacaagacc aattaaggac attattggga aattaaaacc
841 cctaaacatt ctcaacatct tagccacatg tgactggact tttgcaggca tagtagaatc
901 cctgatcctt ttggctgaac tttttggagt tttctggaca cccccagatg tgtctgcgat
961 gatcgctccc ttactgggtg attatgaact acagggaccc gaggacctcg ctgtggaact
1021 cgtacccgta gtaatgggag gggtaggttt ggtgctggga ttcaccaaag agaaaatcgg
1081 caagatgctt tcttctgctg cttcaaccct gagagcatgt aaagatctcg gtgcatatgg
1141 gttggagatc ctcaaattgg ttatgaaatg gtttttccca aagaaagaag agagaaacga
1201 attggcaatg gtgagatcca tcgaggatgc agtgctagac cttgaagcca ttgaaaacaa
1261 ccacatgaca gctctactca aggataaaga tagccttgca acctacatga gaactcttga
1321 catggaggag gagaaggcga gaaaactttc caccaagtct gcctctccgg atattgtggg
1381 cacgataaat gccctactgt caaggattgc agctgcccgg tctctagtgc acagggctaa
1441 ggaggagctg tcaagtagac cccgaccggt cgttgtaatg atttcaggga aaccgggtat
1501 agggaaaacc catctagcta gagaattggc aaagaagatc gcctccacac tcacaggtga
1561 ccagagggtg ggcctaatcc cacgcaacgg ggtcgaccac tgggatgcat acaaaggtga
1621 aagagtcgtt ctctgggacg actacgggat gagcagccct gtccacgacg ccctcagact
1681 tcaggagctc gctgacacct gtcctctcac actcaactgt gacaggattg agaacaaagg
1741 taaagttttt gatagtgacg 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 cggtgggggc acatacacac ttgaatctga tggcaaaggt aatgtgcatg tcgaaaaggt
2341 gaacaacacc agtgtgcaaa ctaacaacga gctctccggg gctttgcacc 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 ttgtctcctc tgatgacatc aagactgagg gtaagaaagg
2641 aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag gactcagtga
2701 tgaggagtac gatgagtata agagaatcag ggaagaaaga aatggtaagt actccataga
2761 ggaataccta caggatagag acaaatacta tgaagaggtg gccatagcca gggcaactga
2821 ggaagatttc tgtgaagaag aggaggccaa aatccggcag aggatattca gaccaacaag
2881 gaaacaacgc aaagaggaaa gagcttctct tggtttggtt acaggctctg agatcaggaa
2941 gagaaaccca gatgacttca agcccaaagg gaaactatgg gctgatgatg acaggagtgt
3001 tgactacaat gagaaactta gtttcgaggc tccaccaagc atttggtcac gaatagtcaa
3061 ctttggctcg gggtggggct tttgggtctc gcccagcctc ttcataacat cgacccatgt
3121 cattccccaa ggcgcgcagg agttctttgg agtgcccatc aaacaaatac aaattcacaa
3181 atctggtgag ttctgccggc ttaggttccc gaaaccaatc aggacagatg ttacaggcat
3241 gatcttggag gaaggtgctc cagaaggcac tgttgccaca cttctcatca agagaccaac
3301 tggggaactc atgcccttgg cagccaggat gggcacccac gctaccatga aaattcaggg
3361 tcgcactgtt ggtggacaga tgggcatgct actcacaggg tctaacgcta agagcatgga
3421 tttgggcaca actcctggcg attgtggttg cccctatatc tacaagagag ggaacgacta
3481 cgtggtcatt ggagttcaca ctgccgccgc tcgtggagga aacaccgtca tctgtgcaac
3541 ccaaggaaac gagggtgagg ccatgctaga aggtggtgac aataagggaa cttactgtgg
3601 agcaccaata ttaggccctg ggaatgcccc caaactcagc accaaaacca agttctggag
3661 gtcttccacc acccccctgc cacccggaac ctatgagcca gcttatctgg gtggtaagga
3721 ccccagagtg aaaggtggcc cctcactaca acaggttatg agagaccaac taaaaccatt
3781 cactgagccc agaggcaaac cacccaaacc aaatgtgcta gaagctgcca agaagactat
3841 aatcaatgtg cttgaacaaa caatagaccc acctcaaaaa tggacatacg cacaagcgtg
3901 tgcatcacta gataagacca cttccagcgg tcaccctcac catatgcgga agaacgactg
3961 ctggaatggg gactctttca caggaaaact ggcagaccaa gcatcaaagg ccaacctaat
4021 gtttgaggaa ggaaagaaca tgactccagt atacacagga gctctgaaag atgagctagt
4081 caagactgac aagatttatg gggtagtcaa gaagaggctc ctgtggggtt cagacctatc
4141 aaccatgata cggtgtgcac gagccttcgg tgggctaatg gacgagctca aggcccattg
4201 cgtcacacta ccagtcaggg ttggtatgaa catgaatgag gatggaccca taatatttga
4261 gaaacactcc agatacaaat gccattatga tgcagattac tcccgctggg actcaacaca
4321 acaaagagca gtgctagccg cagccctgga aataatggtc aaattctcac cagaacccca
4381 cctggcccag gtggttgcag aagacctttt gtcccccagt gtaatggatg tgggtgattt
4441 taggatatca atcaacgagg gattaccctc tggtgttcct tgcacttcac aatggaactc
4501 cattgctcac tggctcctca cactatgtgc actgtctgaa gtcacagacc tgtcccctga
4561 catcatccag gcgaattccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
4621 catcaaatta gacccagaga aattgacagc aaagctgagg gaatacgggc ttaaaccaac
4681 ccgccctgac aaaacagagg gacccttaat tatctctgaa gatttgaatg gcctgacctt
4741 cttgcggaga acagtgaccc gcgacccggc cggatggttt ggcaaactgg accaaagttc
4801 aatactcaga cagatgtact ggaccaaggg gccaaaccat gaagacccct ttgaaacaat
4861 gataccacac tcccagagac ccatacaatt gatgtcatta cttggtgaag ctgcattgca
4921 tggtccatca ttctacagta aaatcagcaa attggtcatc tcagaactga aagagggtgg
4981 aatggatttt tatgtgccca 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 ggaactgggc ccagaaataa
5341 atccctattt ggcccatctt gctagaatgt ataatggtta tgcaggtgga tttgaagtgc
5401 aggtggtcct agctggaaat gcgtttacag caggaaagat aatctttgca gctattcccc
5461 ccaattttcc aattgataat ctaagtgcgg cacagatcac aatgtgccca catgtgattg
5521 tggatgtcag acagttggaa ccagtcaacc tcccgatgcc tgacgttcgc aataatttct
5581 ttcattataa tcaagggtct gattcaagat tacgcttaat tgcaatgtta tacacacctc
5641 ttagggcaaa caattctggg gatgatgttt ttactgtgtc ttgtagagtg ctgactagac
5701 ctagtcctga tttctcattc aatttccttg tgccacctac tgtggagtca aagacaaaac
5761 ccttttctct ccctatcctg actatctctg aaatgtccaa ttctaggttc ccagtaccaa
5821 ttgattctct gcacaccagt cctactgaga atattgttgt tcagtgccaa aatgggcgcg
5881 tcacccttga tggtgagttg atgggcacca cccaactctt gcctagccaa atctgtgctt
5941 tcaggggcgt tctcaccaga tcaacaagca gggccagtga ccaggccgat acagcaaccc
6001 ctagattgtt taattattat tggcatatac aattggataa tctaaatgga accccttatg
6061 atcctgcaga agatatacca ggccccctag ggacaccaga ttttcgtggc aaagtctttg
6121 gcgtggccag ccaaagaaat cctgatgcca cgactagggc acatgaagca aagatagaca
6181 ccacatctgg ccgcttcacc ccaaagctag gctcattaga gatatccact gaatctagtg
6241 actttgacca aaaccaacca acaagattca ccccagttgg cgttggagtt gaccatgagg
6301 cagactttca acaatgggcc ctacccgatt acgctggtca gttcacacat aacatgaact
6361 tagccccagc tgttgctccc aacttccccg gtgagcagct ccttttcttc cgctcacatt
6421 tgccatcttc tggtgggcga tccaacggga ttctagactg cctggtcccc caagaatggg
6481 tacagcactt ctaccaagag tcagccccct ctcagtctca agtggctctg gttagatatg
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 caggagctaa tgctattaat cagacaattg attttgaaaa
6841 taataaatat ttgcaaaatg cttcttttaa tcatgataag gagatgttga atgcacaaat
6901 tgaggcaaca aagaagttac aggctgacat gattgctatc aagcaagggg tcttgaccgc
6961 tggcggcttc tcccctactg atgcagcccg tggggcaatt aatgccccca tgacaaaagt
7021 cctagattgg aatggaacga gatactgggc accaggtgcc acctctacaa cctcgatgtc
7081 gggtggcttt acacatcaaa ctgtgcacag atccacacca aattttaaaa cgaaccaggc
7141 tcccaaaccc acacccagca gtgggtcttc agtgaggtca aattcaaccc aaatcactag
7201 cctgagctca cactcgtccg ggtcgtctcg atccagcggg tctacagttg tcagctcaat
7261 accatcctct aacaggacta gggactgggt caaccaacaa aattttaatt tggaaccaca
7321 catgcctgga tctcttagga cagcttttgt cactccacca tctagtacag cctctagctc
7381 aggcacagtc tcaactgtgc ccaaaaatat tttggactcc tggacatctg cgtttaacac
7441 gcgcagacag ccgctattcg cacaccttcg cagaaggggg gagtcaaatg tttagtgaaa
7501 agattatttt aaatttggtt taaaattagg tttaatttgg a
//
