Typing tool
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Typing tool
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Complete norovirus genomes
| MH218735 | GII.2 | |
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| GII.P2 |
ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS MH218735 7537 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_96_09_03_2015, complete genome.
ACCESSION MH218735
VERSION MH218735.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7537)
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 7537)
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..7537
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_96_09_03_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="09-Mar-2015"
/note="genotype: GII.P2_GII.2"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17863.1"
/translation="MKMASNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARP
KQPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQPP
EANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
IAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDS
WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPED
IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM
DELKKAIKNITIRKCQIVYGGNTYTLESDGKGRVVVERVQNASVQINNEIAGAVHHLR
CARIRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATTKEGC
PKPRDEEEFVVSSEDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
TVATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHW
NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDL
ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD
STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGP
NHEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSLVNEDGVE"
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..6713
/gene="ORF2"
CDS 5085..6713
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17864.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKQNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6713..7492
/gene="ORF3"
CDS 6713..7492
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17865.1"
/translation="MAGAFVAGLAGDVLSSGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTNEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgttaaca gcaacaacga
61 caacacaaaa tcttcaagtg acggaatgct taacaacatg gccgtcaccc ttaaacgagc
121 ccttggggcc cggcccaaac agccggcccc gagggaaaaa cccccaagac cccctagacc
181 accaacacca gaattaatta aaagaatccc ccccccacca cctaatgatg gggatgaacc
241 aaccgtgatg tttagcactg caggtggtgt gtctggccta cctgagctca caacagtcgg
301 tcaaccacct gaagctaaca cggcctttag cgtgcctccc ctcagccaaa gggaaaacag
361 ggacgccaag gagccgctaa ctggaactat tctggaaatg tgggacgggg agatttatca
421 ctatggactg tatgtggaaa aagggcttgt gttaggcgtg cacaagccac cggctgccat
481 cagcatagcc aaagtggaat taacgcctct ctcactgtat tggaggcctg tgtacacgcc
541 tcagtacctc atatctccag acaccttgag gaaactccac ggtgaactat ttccctatac
601 agcctttgaa aacaactgtt atgccttctg ctgttgggtt ttggacctta acgattcatg
661 gctaagcagg aggatgatta gtaggactac tggctttttc aggccctacc aagagtggaa
721 caggaagccc ctcccaacca tggatgactc aaaattgaaa aaggtcgcaa acatcgttct
781 atgtgcattg tcatcattgt tcactagacc cattaaggat ataattggca agcttaaacc
841 cctcaacatc ctgaacattc tggcctcgtg cgactggacc ttcgctggca tagttgagtc
901 actaatcctc ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat
961 gatcgcaccc ctcctcggtg actatgagct acaaggccct gaagacatcg ctgtggagct
1021 cgtacccgtt gtgatgggtg ggataggtct ggtgttggga ttcaccaaag agaaaatagg
1081 taagatgctc tcttctgcag catcaacttt gagggcatgc aaagatcttg gagcctatgg
1141 actggagata ctgaaactag tcatgaaatg gttcttccca aagaaggatg aggccaacga
1201 actggctatg gttagagcca ttgaagacgc tgtattggac ctggaggcca ttgagaacaa
1261 ccatatgacc actctattga aagacaagaa cagccttgca gcctacatga agaccctgga
1321 catggaagag gaaaaagcta ggaagttatc caccaaatca gcctcccctg acattgtggg
1381 caccataaac gccctgttgg ctaggatcgc tgccgcgcgt tccttagttc atagggccaa
1441 ggaggagctc tccagcaggc caaggccggt cgtcttgatg atctctggca agccagggat
1501 aggaaagacc cacttggcca gagaactggc aaagaaaatc gcctcaacac tcacaggaga
1561 ccagagagtg ggcctcatcc cacggaatgg agttgaccat tgggatgcct acaaaggtga
1621 gagagtggtg ctctgggatg attacgggat gagcaatccc atccacgatg cgttgaggtt
1681 gcaagaactg gcagacacat gtccattgac tctaaattgt gacaggattg agaacaaggg
1741 gaaagtcttc gacagcgatg cgatcataat taccaccaat ttggtcaatc ccgcgccgct
1801 ggattatgtc aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc
1861 cccagaagtc gagaaagcaa agcgggactt ccccggccaa ccagacatgt ggaaggacgc
1921 ttatcgctct gacttctcac acatcaaact acaacttgca ccacaaggtg ggtttgacaa
1981 aaatggtaac acccctcatg gtaaaggagt gatgaagact ctcactgcca gctcactggt
2041 tgcgcgtgcc tctggtctct tgcacgagag gctagatgag tacgaattgc aaggtccacc
2101 cctctcaacc ttcaactttg accgcaacaa aatcgcagcg ttcagacaac tcgctgctga
2161 aaacaagtat ggtctggtag acacgatgag ggtgggtaac cagctcagaa atgtcacgac
2221 catggatgaa ctcaagaagg ctatcaagaa catcacaatc agaaagtgcc agatagtcta
2281 tggtggcaac acttacacgc ttgagtctga cggcaagggt agagttgtgg ttgagagggt
2341 gcagaacgcc agcgtgcaaa tcaacaatga gatcgctggt gcagtacacc accttagatg
2401 tgccagaata cggtattatg ttaagtgtgt ccaagaggcc atctactcac tcctccaaat
2461 tgctggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacatcc aaaatttatg
2521 gtccaggcca ttaactgaag atgcagatga ggccaccacg aaagaggggt gccctaaacc
2581 tagggatgaa gaagaatttg tcgtctcctc agaagatatc aagccagagg gcaagaaagg
2641 taaaaacaag agtggccggg gcaagaaaca cacggcattc tcaagcaaag gtctcagtga
2701 tgaggagtac gaagagtaca aaaggattag agaggagaga aatggaaaat actccataga
2761 ggaataccta caggacagag acaagtacta tgaagaggtg gccattgcca gggcaactga
2821 agaagacttc tgtgaagaag aagaggttaa gattcgtcag aggatcttca ggccaactag
2881 aaagcaacgc aaggaagaaa gagccaacct tggcctcgtc accggatctg agatcaggaa
2941 gaggaaccca gatgacttta aaccaaaagg aaagctgtgg gccgacgatg ataggagcgt
3001 tgactacaac gaaagaatca gctttgaggc cccaccaagc atttggtcta gaattgtcaa
3061 ctttggttct ggatgggggt tttgggtgtc acctagcctc ttcataacat caacacatgt
3121 cataccccaa ggcataactg aagcctttgg tgtacccata aggcaagtgc aaatacacaa
3181 atcgggcgaa ttctgtcgcc tgagattccc aaaacccatc aggacagatg tgtcaggtat
3241 gatactggag gagggagcgc ctgaaggcac tgttgccacc atactcatca agagaaccac
3301 tggagaactg atgccccttg cagcaaggat gggcacccac gcgaccatga ggatacaagg
3361 acgcacggtg ggcggccaaa tgggaatgct gctcactggg tccaatgcaa agagcatgga
3421 tcttggcacc acgcctggtg actgtgggtg tccctatatt tacaaaaggg gcaatgatta
3481 catagtcatt ggagttcaca cagcagctgc ccgtggcgga aacactgtca tctgcgccac
3541 acaaggtagt gagggtgagg ccacactcga gggtggtgac aacaaaggga catactgtgg
3601 ggcaccaatc ctaggacccg ggagtgcccc gaaactgagc actaagacca aattctggag
3661 gtcctctaca acaccactcc ctcccggcac atacgagccg gcatatctgg gaggaaaaga
3721 cccccgagtc aaaggtggac catctctgca acaagtcatg cgagaccaac tgaagccatt
3781 caccgaaccc cgtggtaagc caccaaaacc aagtgtcctt gaagctgcca aaaagacaat
3841 tatcaatgtg ctagagcaaa caatagaccc cccacagaag tggacgtacg cgcaagcgtg
3901 cgcgtctctt gacaaaacca catctagtgg gtttccccac cacgtgcgca aaaacgagca
3961 ctggaatggg gaatctttca caggaaaatt ggctgatcag gcatcaaaag caaacctaat
4021 gtttgaagag ggaaagcaca tgaccccagt ttacacagct gcccttaagg atgagttggt
4081 caaaactgag aaggtgtatg ggaagataaa gaagaggttg ctttggggct ctgatctggc
4141 cacaatggtg cggtgcgcgc gctcttttgg tggtttgatg gacgaactta aggcccactg
4201 tgtaacactt ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga
4261 gaaacactcc agatacaggt atcactatga tgcagactat tccaggtggg actcaacaca
4321 gcagagagcc gttctggctg cggccatgga gattatggtt aaattttcag cagaaccaca
4381 actagcccaa atagttgcag aggatctact gtcgcctagt gtagttgatg tgggcgactt
4441 caaaatttcc atcaacgaag ggttaccatc aggtgtccct tgcacctctc aatggaactc
4501 cattgcacac tggctcctca ccttgtgtgc cctttctgaa gttacagatc tctctcccga
4561 tattgtgcaa gccaactccc tcttctcctt ctatggtgat gatgaaattg tgagtacaga
4621 cattaaatta gacccagaaa aattgacggg gaagttgaga gaatacggcc tcaaacccac
4681 tcggcctgac aagactgagg gccccctgat cattagcgag gatttgaatg gcctgacctt
4741 cttgaggaga accgtcaccc gcgaccctgc aggatggttt ggcaaactgg accagagctc
4801 tatactcagg caattgtatt ggaccaaggg tcctaatcat gaagacccct ttgagtcaat
4861 gattccacac tcccagaggc ccatacaact catgtcactc ttgggcgaag cagcactgca
4921 tgaaccatcg ttttacagca agatcagcaa gcttgtgata tctgagttga aagaaggtgg
4981 aatggatttt tacgtgccca ggcaagaacc catgttcagg tggatgagat tctcggattt
5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg
5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccagtcacc ggtcaaacaa
5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag
5281 tctctccccg taatgcccct ggtgaagtgc tattgaatct agagttgggt ccagaattaa
5341 atccttatct ggcacattta gcaagaatgt ataacgggta tgccggtggg atggaggtgc
5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gctgtaccac
5461 ctcacttccc ggttgaaaac cttagcccac agcaaattac catgttccct catgtgatta
5521 tagatgtaag gaccttagaa cctgttttat taccacttcc tgatgttagg aacaatttct
5581 tccactataa tcagaaagat gatcctaaaa tgagaattgt ggctatgctt tacacccccc
5641 ttaggtctaa tggttcaggt gatgatgtgt tcacagtctc ctgcagggtg ttgactagac
5701 cctcccctga ttttgatttc acatatttgg tgccaccaac agtggaatct aaaacaaaac
5761 cattcactct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca
5821 tagaccagat gtacaccagc cccaatgagg ttatatcagt gcagtgtcaa aatggtaggt
5881 gcacattgga cggggagctt caggggacaa cacaactcca agtcagtggc atttgtgctt
5941 tcaaggggga agtgaccgcc catttacatg acaatgacca cctatataat gtcaccatca
6001 caaacctgaa tgggtccccc tttgacccct ccgaggacat ccctgcccct ctgggcgtgc
6061 ctgatttcca gggaagggtc tttggcatca tctcccaaag agataaacag aatagccctg
6121 ggcacaatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt
6181 acaccccaaa attgggtcag attcaaattg gcacatggca gaccgacgat ctcacagtca
6241 accaaccagt caaatttacc ccagttggtc tcaatgacac tgaacatttt aatcaatggg
6301 tggtccccag atacgctggt gccctaaacc tcaatacaaa tcttgcccct tctgttgctc
6361 cagtgtttcc aggagagcgc ctgcttttct tcagatcata tattcctctc aagggtggtt
6421 atggaaatcc agccattgat tgcctactgc cacaagagtg ggtgcaacac ttctatcagg
6481 aggctgcccc atcaatgagt gaggtggccc ttgtcagata catcaacccg gacactggtc
6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agtaacacca
6601 gtgccccggt ggttgtgcct gccaatggat acttcagatt tgactcttgg gtgaatcaat
6661 tctattctct cgcccccatg ggaactggaa atgggcgtag aagggttcaa taatggctgg
6721 agcttttgta gctggtcttg caggggacgt gctcagcagt gggctcagtt cattgattaa
6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattacagca
6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct
6901 gcaggcagac atgatggcta ttaaacaggg ggtcctgacc gctggcggtt tttcccctgc
6961 tgatgcagcc agaggtgctg tgaatgcgcc catgacacag gcgctggact ggaacggtac
7021 aaggtattgg gcaccaggct ctatgaggac cacatcttat tctgggaaat tcacatcaac
7081 cgccccagtg aggcaggccg actttcagca cacccaaaac cggccatcga gtggctcttc
7141 tgtgtcctcc tttgccactc aatcttcaag gccaactctg accacaacca ctgggtcctc
7201 acatggtaca gcctcatcaa attcaactcg cagcacgagc ctctcccaat caacggtctc
7261 tagagctaca tctagaacta atgagtgggt tagagatcaa aatagaaatt tggaacccta
7321 catgcatggt gccttacaga cagcctttgt caccccaccc tccagcaggg cgtctgatgg
7381 gacagtctca accgtcccaa agggtgtttt ggactcctgg acacctgcgt tcaacacccg
7441 caggcagccg ctctttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg
7501 tggaaaattt gtttagaata aattgatttt acctttt
//