Typing tool
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Typing tool
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Complete norovirus genomes
| MH218714 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218714 7513 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_58-1_13_10_2015, complete genome.
ACCESSION MH218714
VERSION MH218714.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7513)
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 7513)
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..7513
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_58-1_13_10_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="13-Oct-2015"
/note="genotype: GII.P4_GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17800.1"
/translation="MKMASNDASAAAVANSNNDTAKTSSDGVLSSMAVTFKRALGTRP
KQPPPREIPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSAKNGVSGLPDLSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKRLSGETFPYTAFDNNCYIFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDSSKIKKVADIFLCALSSLFTRPIKDLIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGIFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAILDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYSGSTYMLESDGKGNVKVDKVQSAAVQTNNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPRDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEFKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRNVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRAVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMYEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVSLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPQLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLAISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
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..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/codon_start=1
/product="VP1"
/protein_id="AWR17801.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTLNLASQNWNDYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFATDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPLQWVLPSYSGRSTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNTDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17802.1"
/translation="MAGAVLAGLASDVLSSGLGSLINAGAGAINQTIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQVETTKKLQQEMMKIKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRHWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
NSSTVSSVYSNQTTSTRLGSTAGSGASVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
61 caccgcaaaa acttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcgggacg cggcctaaac agcctccccc gagggaaata ccacaaaggc ccccacgacc
181 acccactcca gaactggtta agaacatccc ccctccccca cccaacgggg aagatgaaat
241 agtggtctct tatagtgcca aaaatggtgt ttccggcttg cctgaccttt ctaccgtcag
301 gcaaccggaa gaaaccaaca cagccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactca ctgggacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccgc cagctgccat
481 cagccttgct aaggttgagt tggcaccact ctccttgtac tggagacctg tgtacacccc
541 tcagtacctc atctctccag acaccctcaa gagattgtcc ggagagacgt tcccctacac
601 agcctttgat aacaactgtt atatcttttg ctgctgggtt ctggacctaa atgactcgtg
661 gttgagcaga aggatgatcc agagaacaac tggtttcttc aggccctatc aggactggaa
721 taggaaaccc cttcctacta tggatagctc caaaataaag aaggtggctg acatatttct
781 gtgtgccctg tcctcgctat tcaccagacc cataaaagat ttaataggga agataaggcc
841 tcttaatatc ctcaacatct tggcctcatg tgattggacc tttgcgggca tagtggagtc
901 cctgatactc ttggcagaac tctttggaat tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttactcggtg actacgagct gcaaggacct gaggaccttg cagtggagct
1021 agtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg cgtccacttt gagagcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaaatg gttcttccca aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcca tcgaggatgc aatcctggat ctcgaggcaa ttgaaaacaa
1261 tcacatgacc accttgctta aagataaaga cagtctggca acctacatga gaacacttga
1321 tcttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 tacaatcaac gccctcctgg cgagaatcgc cgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgctgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcca gggaagtggc caagagaatc gcagcctccc ttacaggaga
1561 tcagcgtgtg ggcctcatcc cacgcaacgg tgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctctgggacg attatggaat gagtaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gtcccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gatagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac tttctcgtgt atgcagaggc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact atcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagacc ctcaccactg gctcccttat
2041 tgcccgggca tcagggcttc tccatgagag gttggatgaa tttgaattgc agggcccagc
2101 tctcaccacc ttcaacttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaacaaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcaaaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta
2281 tagtggcagc acttacatgc ttgagtccga tggcaagggc aatgtgaaag ttgacaaagt
2341 ccaaagcgcc gctgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtc
2401 cgccagaatc agatactatg tcaagtgtgt tcaggaagcc ctgtattcca tcatccaaat
2461 cgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctgtg
2521 gtccaagcca caagtggaaa acacagagga gaccaccagt aaggacgggt gcccaaaacc
2581 cagggatgat gaggagttcg tcatttcatc cgacgacatc aagactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattc tcaagcaaag gtctcagtga
2701 tgaagagtat gatgaattca agaggattag agaagaaagg aatggcaagt actccataga
2761 agagtacctt caggacagag acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct tggtctggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggaatgt
3001 ggactacaat gagagactca gctttgaggc cccaccaagc atttggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttggaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca agaggtccac
3301 cggggagctc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcgctgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 cctgggtaca acaccaggtg attgtggctg cccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac
3541 ccaagggagt gaaggggagg ctacacttga gggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgctcc aacacttagc accaaaacca aattctggag
3661 atcgtccaca gcaccacttc cacctggtac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaaacc aagtgtacta gaagctgcca agaaaaccat
3841 catcaatgtc cttgagcaaa caattgatcc accagagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg ccatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca cgggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtatgaagaa gggaagaaca tgactccagt ctacacagct gcgctcaagg atgagttggt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatctggc
4141 aaccatgatt cggtgtgctc gagcattcgg aggcctaatg gatgagctca aagcgcactg
4201 tgtctctctc cccatcagag ttggcatgaa catgaacgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacgt accactatga tgctgactac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag cagctctgga aatcatggtt aaattctccc cagaaccaca
4381 attggctcag gtagtcgcgg aagacctcct ttcccccagc gtggtggacg tgggcgactt
4441 cacaatatca attaatgagg gtcttccctc tggggtgccc tgcacctctc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tgtctcctga
4561 taccatacag gctaattccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaaactcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgc catctctgaa gacctgaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctaggggagg ccgctctcca
4921 cggcccagca ttttacagca aaatcagcaa attggtcatt gcagagctaa aagaaggtgg
4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa
5341 acccctacct atcccattta gccagaatgt acaatggtta tgcaggtggc tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt tatatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccca gccaggtcac catgttcccc catatagtgg
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcattataa ccaatcaaat gactccacca ttaagctgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgccgagtc cttacaagac
5701 catcccccga ttttgatttc atatttttgg tgccccccac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctc
5821 tggaaaagct gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcactcat atcacaggca gtcacaacta cacattgaat ttggcttctc
6001 aaaattggaa cgattatgac ccaacagaag aaattccagc ccctctagga actccagact
6061 ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag gacagatggc tcaacacgcg
6121 gccacaaagc cacagtgtac actgggagtg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgcaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggc agcaccaccc accgaaatga acctctacag tgggtgctcc
6301 ctagttactc aggcagaagt actcataatg tgcatctggc ccccgctgtg gcccccactt
6361 ttccgggtga gcaacttctc tttttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acacggattt ggactgcctg ctcccccagg aatgggtgca gcacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctttgctga gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagctccat aaatcaggct atgttacagt ggctcacact ggccaacacg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ttgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagctgt
6721 ccttgctgga ttggcatctg atgtccttag ctctggactt ggttccctca tcaatgctgg
6781 ggctggggcc atcaaccaaa caattgattt tgaaaataac agaaaattgc aacaagcatc
6841 attccaattt agcagcaatc tgcaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaagtt gagaccacca aaaagctaca acaggaaatg atgaaaatta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gcactgggct cccgatgcca ggaccacaac
7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcactgccag ggagagctaa
7141 tcttagggat gctgcccccg ctcggggttc ctccagcaaa tcttctaact cttctactgt
7201 ctcttctgtg tattcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 tgccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaatttg tcacctttca tgaggggggc tcacaatata tcgtttgtca ccccaccatc
7381 tagcagatcc tccagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta ggcgagggga
7501 gtcacgggtg taa
//