Typing tool
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Typing tool
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Complete norovirus genomes
| MH218607 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218607 7513 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_136_20_02_2015, complete genome.
ACCESSION MH218607
VERSION MH218607.1
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_136_20_02_2015"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="20-Feb-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="AWR17479.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKGGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPVLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM
PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELTGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
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="AWR17480.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17481.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKPS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcccccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctacacca gaactggtta aaaatattcc ccctccccca cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aaggtggtgt ttccggcttg cctgaccttt ccaccgtcag
301 gcagccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggcgtg cacaaaccgc cagctgccat
481 cagcctcgct aaggttgagt tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgct atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtggcta acatatttct
781 gtgtgctctg tcctcgctat tcaccaggcc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgattggacc tttgcgggca tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatcagctg cgtccacctt aagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctata gtgaggtcca tcgaggatgc agtcctggat ctcgaagcaa ttgaaaacaa
1261 tcatatgacc accttgctta aagataaaga cagtctggca acctacatga gaacacttga
1321 ccttgaagag gagaaagcca ggaagctctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgtt ggtctcatcc cacgcaatgg cgtcgaccat tgggatgcgt ataaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gccccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagccccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtat atgcagaagc
1861 ccctgatgtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagaca ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagt
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcaaaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta
2281 tagtggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacaggat
2341 ccaaagcgcc gccgtgcaga ccaacaatga gctgactggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgaataca agaggatcag agaagaaagg aatggcaagt actctataga
2761 agagtacctt caggacaggg acaaatatta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaagccaa gatccgacaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct cggtttagtc acaggttctg aaattaggaa
2941 aagaaaccca gatgacttta aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gttttgaggc cccgccaagc atttggtcaa gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagcttg ttcataacat caactcatgt
3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggttaca ctactcatca aaaggtccac
3301 tggggaactt atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt gggggccaga tgggcatgct tctgacagga tccaacgcca agagtatgga
3421 cctgggcact acaccaggtg attgtggctg cccctacatc tacaagagag gtaatgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggtaagc caccaaaacc aagtgtgtta gaagctgcca agaagaccat
3841 cattaatgtc cttgagcaaa caatcgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtctctt gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctttggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcgcactg
4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctaga aatcatggta aaattctccc cagaaccaca
4381 tttggctcag gtagtcgctg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaactc
4501 catcgcccac tggcttctta ctctctgtgc gctctccgaa gtcacaaacc tgtctcctga
4561 caccatacag gctaattctc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagct ttttacagta agattagcaa attggtcatt gcagagctaa aggaaggtgg
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 ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tgtcccccag aaacgctcca ggtgaaatac tatggagcgc gcccttaggt cctgatttaa
5341 atccctacct atcccatttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcattacaa tcaatcaaat gaccccacca ttaagttgat agcaatgctg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgccgagtt ctcacgagac
5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtct agaactaaac
5761 ctttctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggtaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaattgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac attacaggta gtcgcaacta cacaatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga gctccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag ggcagatggc tcaacacgcg
6121 gccacaaggc tacggtgtac actgggagcg ccgactttgc tccaaaactg ggcagagttc
6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcataatg ttcatctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaacttctc ttctttagat ccaccatgcc cggatgtagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taaacttcat aaatcaggct atgttacagt ggctcacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggagcggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttagcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag aaatgctcca
6901 agctcaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat
6961 gctcctagag ggtgggttct ctgaaacaga tgcagcccgc ggggcaatca acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa
7141 tcttagggat gctgtccctg ctcggggttc ctctagtaaa ccttctaact cttctactgc
7201 tacttcagtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagtctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaatttg tctcctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta aacgagggga
7501 gtcacgggtg taa
//