Typing tool
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Typing tool
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Complete norovirus genomes
| MH218691 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218691 7550 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_234_25_01_2016, complete genome.
ACCESSION MH218691
VERSION MH218691.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7550)
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 7550)
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..7550
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_234_25_01_2016"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="25-Jan-2016"
/note="genotype: GII.P4_GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17731.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGTRP
KQPPPREKPQRPPRPPTPELVKNVPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIRDLWSKPQAENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRNVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPRPIRTDVSGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSYVNEDGVE"
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..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17732.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVAGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVLTGSADFAPKLGRVQFGTDTDNDFVTNQNTKFTPVGVIQDG
NTAHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17733.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGVINQKVDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRSLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRSRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcgggacg cggcctaaac aacctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctactcca gaactggtta aaaatgttcc ccctccccca cccaatggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ctccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt gctaggcgtg cacaaaccgc cagctgctat
481 cagcctcgct aaggttgagt tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaagttgtcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgct atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa
721 taggaaacct cttcccacta tggatgactc caaaataaag aaggtggcta acatatttct
781 gtgtgctctg tcctcactgt tcaccaggcc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcttcatg tgattggacc tttgcaggca tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaagggcct gaggaccttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatcagctg cgtccacctt aagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcca tcgaggatgc agtcctggac ctcgaagcaa ttgaaaacaa
1261 tcatatgacc accttgctta aggataaaga cagtctggca acctacatga gaacacttga
1321 ccttgaagag gagaaagcca ggaagctctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaattaac gcccttctgg cgagaatcgc tgccgcacgt tcgctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcggcctccc ttacaggaga
1561 ccagcgtgtt ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtat atgcagaagc
1861 ccctgatgtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gacttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccacgagag gttagatgaa tttgaactgc agggcccagc
2101 tctcaccacc ttcaacttcg atcgcaataa agtgcttgcc tttagacagc tcgctgctga
2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcaaaac
2221 catgccagaa ctcaaacaag cacttaagaa tgtctcaatc aagaagtgtc aaatagtgta
2281 tagtggttgc acctacatac ttgaatccga tggcaagggc aatgtgaaag ttgataggat
2341 ccaaagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcatccaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac gagacctatg
2521 gtccaagcca caagcggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaaaca cacagcattt tcaagcaaag gtctcagtga
2701 tgaagagtac gatgaataca agaggatcag agaagaaagg aatggcaagt actctataga
2761 agagtacctt caggacaggg acaaatatta tgaggaggtg gccattgcca gagcgactga
2821 ggaagacttc tgtgaggagg aggaagccaa gatccgacaa aggattttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctccct cggcttggtc acaggttctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggaatgt
3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atttggtcaa gaatagtcaa
3061 ctttggttca ggctggggtt tctgggtctc ccccagcttg ttcataacat caacccatgt
3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc tagaccaatc agaactgatg tatcgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggttaca ctactcatca aaaggtccac
3301 tggggaactt atgcctctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt gggggccaga tgggcatgct tctgacaggg tccaacgcca agagtatgga
3421 cctgggtact acaccaggtg attgtggttg cccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac
3541 ccaggggagc gaaggggagg ctacacttga gggtggcgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccccagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggtaagc caccaaaacc aagtgtgtta gaggctgcca agaaaaccat
3841 cattaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcctccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttggt
4081 taaaactgac aaaatttatg gtaaaatcaa gaagaggctt ctttggggct cagacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgttacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattct aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggta aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggatg tgggcgactt
4441 cacgatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctccgaa gtcacgaacc tgtctcccga
4561 taccatacag gctaattctc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gacccctcgt catctctgaa gacctgaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttc ggaaaactgg agcaaagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagca ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagttat gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gctggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatttaa
5341 atccctacct atcccacttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccta gtcaggtcac tatgtttccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataacttct
5581 atcattataa tcaatcaaat gactccacca ttaagttgat agcaatgttg tatacaccac
5641 ttagagctaa taatgctggg gacgatgtct tcacagtttc ttgccgagtt ctcacgaggc
5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtct aggactaaac
5761 cattctctgt tccagtctta actgttgagg agatgaccaa ctcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggtaggt
5881 gtacgactga tggcgtactc ctaggcacca cccaactgtc tcctgtcaat atctgcacct
5941 tcagagggga cgtcacccac attgcaggta ctcataacta tacaatgaat ttggcttctc
6001 aaaattggaa taattatgac ccaacagaag agattccagc ccctctagga actccagact
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggc tcaacacgcg
6121 gccacaaagc tacggtgctc actgggagcg ccgactttgc tccaaagctg ggcagagttc
6181 aatttggaac tgacacagac aatgattttg taaccaacca aaacacaaaa ttcaccccag
6241 tcggtgtcat ccaagatggt aacaccgccc accgaaatga accccaacag tgggtgctcc
6301 caagttattc aggcagaaat actcataatg ttcacctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgtagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taaactccat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggctatttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggagcggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttagcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggtc attaatcaaa aagttgattt tgaaaacaac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatt tacaacaggc ttcctttcaa catgacaaag aaatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcagt
6961 gctcctggag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt caacccctca gccatcgggg gcactgccag gaagagctaa
7141 tcttagggac gctgtccctg ctcggggctc ctccagtaaa tcttctaact cttctactgc
7201 tacttctgtg tattcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggagtttg tctcctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta gtcgagggga
7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt ctttttcttt
//