Typing tool
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Typing tool
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Complete norovirus genomes
| MH218710 | GII.4 Sydney | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MH218710 7517 bp RNA linear VRL 11-JUN-2018
DEFINITION Norovirus GII isolate NORO_53_19_07_2014, complete genome.
ACCESSION MH218710
VERSION MH218710.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7517)
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 7517)
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..7517
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="NORO_53_19_07_2014"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="United Kingdom"
/collection_date="19-Jul-2014"
/note="genotype: GII.P4_GII.4"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="AWR17788.1"
/translation="MKMASNDASAAAVANSNNDTEKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKNGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSTAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEEATSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWTFAQACASLDKTTSSGHPHHIRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLAISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
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="AWR17789.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGNVAHTTGSHNYIMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRADGSTRGHKAIVLTGSADFTPKLGRVQFQTDTDNDFETNQNTKFTPVGVIQNG
GTTHQNEPQQWELPSYSGRDTHNVHLAPAVAPTFPGEQLLFFRSTVPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGRHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/codon_start=1
/product="VP2"
/protein_id="AWR17790.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFGSNLQQASFQHDKEMLQAQIEATKKLQQEMMKIKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRVNLRDAVPARGSSSKSS
NPSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHLRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaata gcaacaacga
61 caccgaaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt tcaaacgagc
121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctactcca gaactggtta agaatatccc ccctccccca cccaacggag aggatgaaat
241 agtggtctct tatagtgtca aaaatggtgt ttccggcttg cctgaccttt ctaccgtcag
301 gcaaccggaa gaatccaaca cagctttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactca ctggaacaat cctggaaatg tgggacgggg aaatctacca
421 ttatggcttg tatgtggagc gaggtcttgt actaggtgtg cacaaaccgc cagctgccat
481 cagccttgct aaggttgagc tggcaccact ctccttgtac tggagacctg tgtacacccc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagagacgt tcccctacac
601 agcctttgac aacaactgtt atgccttttg ttgctgggtt ctggacctaa atgactcgtg
661 gcttagtaga agaatgatcc agagaacaac tggtttcttc aggccctatc aggactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatatttct
781 gtgtgcccta tcctcgctat tcaccagacc cataaaagat ataataggga agataaggcc
841 tctcaatatc ctcaacatct tagcctcatg tgattggacc tttgcgggta tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgtg gtgatggggg gaattggtct ggtgctagga ttcaccaaag agaagattgg
1081 gaagatgttg tcatctgccg cgtccacttt gagagcttgc aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttctttcca aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcca tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 tcatatgacc accttgctta aggataaaga cagtctggcg acctacatga gaacacttga
1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 tacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca agccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 tcagcgtgtg ggcctcatcc cacgcaatgg tgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctgtgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gtcccctcac tctgaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcattgac tttctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgataa
1981 gaacgggaac accccacacg gaaagggcgt catgaagacc ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttggatgaa tttgaactgc agggcccagc
2101 tctcaccacc ttcaacttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga
2161 aaacaaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta
2281 tagtggttgc acttacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagcacc gccgtgcaga ccaacaatga gctggctggt gccctgcacc acttgaggtg
2401 cgccagaatc agatactatg tcaagtgtgt tcaggaagcc ctgtattcca tcatccaaat
2461 cgctggggct gcatttgtca ccacacgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acacagagga ggctaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagttcg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg
2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtat gatgaataca agaggattag agaagaaagg aatggcaagt actctataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccatcgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagtctctct tggtctggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gctttgaggc cccaccaagc atttggtcga gaatagtcaa
3061 ctttggctca ggctgggggt tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc taaaccaatc aggactgatg tgacgggcat
3241 gatcttggaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagttaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 tctgggcact acaccaggtg attgtggctg cccctacatc tacaagagag gtaatgacta
3481 tgtggttatt ggagtccaca cggctgccgc acgcggggga aacactgtca tatgtgccac
3541 ccaagggagt gaaggggagg ctacacttga gggtggcgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcaccacttc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcattgca gcaagtcatg agggaacagt tgaagccatt
3781 tacagagccc aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat
3841 cattaatgtc cttgagcaaa caattgaccc acctgagaaa tggacgtttg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg ccatccgcac cacatacgga aaaacgactg
3961 ctggaacggg gagtccttca cgggcaagct ggcagaccag gcttccaagg ccaacttgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggatttggc
4141 aaccatgatt cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcgcactg
4201 tgtcacactc cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gagacattcc aggtacacgt accactatga tgctgactac tctcggtggg attcaacaca
4321 acagagagcc gtgctggcag cagctctaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttcccccagc gtggtggacg tgggcgactt
4441 cacaatatca atcaatgagg gtcttccctc tggggtgccc tgcacctccc 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 actgtgactc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccaaca 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 ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cctgatctaa
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccca gccaggtcac tatgttcccc catatagtag
5521 tagatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 atcactataa tcaatcaaat gaccccacca ttaaattgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgccgagtt ctcacaagac
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgagtca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggcaggt
5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggaa tgtcgcccat actacaggca gtcacaacta cataatgaat ttggcttctc
6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga actccagact
6061 ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag ggcagatggc tcaacacgcg
6121 gccacaaagc tatagtgctc actgggagcg ccgattttac tccaaaactg ggtagagttc
6181 aatttcaaac tgacacagac aatgattttg aaactaacca aaacacgaag ttcaccccag
6241 tcggtgtcat ccaaaatggt ggcaccaccc accaaaatga acctcaacag tgggagctcc
6301 ctagttattc aggcagagat actcataatg tgcatctggc ccccgctgta gcccccactt
6361 ttccgggtga gcaacttctc ttcttcagat ccaccgtacc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag
6481 ccccagcaca atctgatgtg gctctgctga gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccgacatg
6601 atttggttat cccccccaat ggttatttta ggtttgattc ttgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtgtaatgg ctggagcttt
6721 ctttgctgga ttagcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 attccaattt ggcagcaatc tgcaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaaatta aacaggcaat
6961 gctcctagag ggtgggttct ctgagacgga tgcagcccgc ggggcaatta acgcccccat
7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgca ggccgctttt ccacccctca accatcaggg gcactgccag gaagagttaa
7141 tcttagggat gctgtccctg ctcggggttc ctccagcaaa tcctctaacc cttctattgc
7201 tacttctgtg tattcaaatc aaactacttc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc
7381 tagcagatcc tccagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct caccttcgta agcgagggga
7501 gtcacgggtg taatgtg
//