Typing tool
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Typing tool
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Complete norovirus genomes
| HF952130 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS HF952130 7559 bp RNA linear VRL 18-JUN-2013
DEFINITION Norovirus Hu/GII.4/C00007918/2011/UK complete genome.
ACCESSION HF952130
VERSION HF952130.1
KEYWORDS complete genome.
SOURCE Norovirus Hu/GII.4/C00007918/2011/UK
ORGANISM Norovirus Hu/GII.4/C00007918/2011/UK
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Batty,E.M., Wong,T.H., Trebes,A., Argoud,K., Attar,M., Buck,D.,
Ip,C.L., Golubchik,T., Cule,M., Bowden,R., Manganis,C.,
Klenerman,P., Barnes,E., Walker,A.S., Wyllie,D.H., Wilson,D.J.,
Dingle,K.E., Peto,T.E., Crook,D.W. and Piazza,P.
TITLE A Modified RNA-Seq Approach for Whole Genome Sequencing of RNA
Viruses from Faecal and Blood Samples
JOURNAL PLoS ONE 8 (6), E66129 (2013)
PUBMED 23762474
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7559)
AUTHORS Batty,E.
TITLE Direct Submission
JOURNAL Submitted (19-MAR-2013) Statistics, University of Oxford, 1 South
Parks Road, Oxford, OX1 3TG, UNITED KINGDOM
FEATURES Location/Qualifiers
source 1..7559
/organism="Norovirus Hu/GII.4/C00007918/2011/UK"
/mol_type="genomic RNA"
/strain="Hu/GII.4/C00007918/2011/UK"
/db_xref="taxon:1331843"
5'UTR 1..4
CDS 5..5104
/inference="similar to RNA sequence (same
species):GQ845367.2"
/note="ORF1"
/codon_start=1
/product="non-structural polyprotein"
/protein_id="CCX28636.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSGMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPSPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD
STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR
EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5085..6707
/gene="VP1"
CDS 5085..6707
/gene="VP1"
/inference="similar to RNA sequence (same
species):GQ845367.2"
/codon_start=1
/product="major capsid protein"
/protein_id="CCX28637.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHISGSRNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTPRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6707..7513
/gene="VP2"
CDS 6707..7513
/gene="VP2"
/inference="similar to RNA sequence (same
species):GQ845367.2"
/codon_start=1
/product="minor capsid protein"
/protein_id="CCX28638.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPTRGSSSTSS
NSSIATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
3'UTR 7514..7559
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 caccgcaaaa tcttcaagtg acggagtgct ttctggcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acctactcca gaactggtta aaaatattcc ctctccccca cccaacggag aggatgaaat
241 agtggtttct tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggccttcag tgtccctcca ctcaatcaga gggagaatag
361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 cagcctcgct aaagttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa atgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc aggccctacc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct
781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgactggacc 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 tcatctgctg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctaaagttag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctata gtgaggtcta tcgaggatgc agtcctggat ctcgaggcaa ttgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcaggc caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacacgt gccccctcac tctaaactgt gacaggattg aaaataaagg
1741 aaaagtcttt gacagcgatg tcatcattat caccactaat ttggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtt gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagtcct gatttctcac acataaaact agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctccctcat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacaac ttgctgctga
2161 aaataaatat ggattgatgg acacaatgag agttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacagg cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta
2281 tagtggttgc acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagcgcc gccgtgcaga ccaacaatga gctggctggt gccctgcacc atttgaggtg
2401 tgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aagacctatg
2521 gtccaagcca caagtggaaa acaccgaaga gactaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc tgacgacatc aaaactgagg gtaagaaagg
2641 gaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgagtata agaggattag agaagaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttca ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggctctg agattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atctggtcga gaatagtcaa
3061 ctttggttca ggctgggggt tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat
3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatta aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 cctgggtact acaccaggtg attgtggctg cccctatatc tacaagagag gtaatgatta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtggggga aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ccacacttga aggtggcgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag
3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagccc aggggcaagc caccaaaacc aagtgtgtta gaagctgcca agaagaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcattcg cacaagcttg
3901 tgcgtccctt gacaagacca cttccagtgg tcatccgcac cacatgcgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagtt ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggct cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacactt cccattagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga
4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagct gtgttggcag cagctctaga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc agtggaactc
4501 catcgcccac tggctgctca ctctctgtgc gctctctgaa gtcacaaacc tgtcccctga
4561 taccatacag gctaactccc 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 ccgctcttca
4921 cggcccagca ttttacagca aaatcagcaa attggttatt gcagagctaa aagaaggtgg
4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgta gttggtgccg ccattgcagc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaagcaatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc acccttaggc cctgatttga
5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggt ttgagcccca gtcaggtcac tatgttcccc cacataatag
5521 tagatgttag gcaattggaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 accattataa tcaatcaaat gactccacca tcaaattgat agcaatgttg tacacaccac
5641 ttagggctaa taatgccggg gacgatgtct tcacagtttc ttgtcgagtc ctcacgagac
5701 catcccccga ttttgatttc atatttttgg tgccacccac agttgaatca agaactaaac
5761 cgttctctgt cccagtttta actgttgagg agatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggc cccagtagtg cctttgttgt tcaaccacaa aacggcagat
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atttcaggca gtcgtaacta cacaatgaat ttggcttccc
6001 aaaattggaa cagttacgat ccaacagaag aaatcccagc ccctctagga actccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaaa gacaaatggc tcgacccgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc
6181 aatttgccac tgacacagac aatgattttg aaactaacca aaacacaaag ttcaccccag
6241 tcggtgttat tcaggatggt agtactaccc cccgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggcagaaac acccataatg tacacctggc ccccgctgta gcccccactt
6361 tcccgggcga gcagctcctc ttcttcagat ctactatgcc cggatgcagc gggtacccca
6421 acatggatct ggactgtctg ctcccccagg agtgggtgca gtatttctat caggaggcag
6481 ccccagcaca atctgacgtg gctctgttaa gatttgtgaa cccagataca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggtcaacatg
6601 atttggttat cccccccaat ggttatttta gatttgactc ctgggtcaac cagttctaca
6661 cacttgcccc catgggaaat gggacggggc gtagacgtgc actataatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc
6841 cttccaattt agtagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaagcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgt ggggcaatca acgcccccat
7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggccgctttt ccacccctca accctcgggg gcattaccag gaagagctaa
7141 tcttagggct actgtcccca cccggggttc ctctagcacg tcttctaact cttccattgc
7201 tacttctgtg tattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg
7261 taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcagaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct catattcgca agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttt
//