Typing tool
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Typing tool
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Complete norovirus genomes
| HF952122 | GII.4 New Orleans | |
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| GII.P4 New Orleans |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS HF952122 7559 bp RNA linear VRL 18-JUN-2013
DEFINITION Norovirus Hu/GII.4/C00007880/2011/UK complete genome.
ACCESSION HF952122
VERSION HF952122.1
KEYWORDS complete genome.
SOURCE Norovirus Hu/GII.4/C00007880/2011/UK
ORGANISM Norovirus Hu/GII.4/C00007880/2011/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/C00007880/2011/UK"
/mol_type="genomic RNA"
/strain="Hu/GII.4/C00007880/2011/UK"
/db_xref="taxon:1331835"
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="CCX28612.1"
/translation="MKMASNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARP
KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE
ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK
IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIRLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTM
PELKQALKNVSIKKCQIVYSGCTYILESDGKGNVKVDRIQSAAVQINNELAGALHHLR
SARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSNPQVENTEETTSKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPYHVRKNDCW
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="CCX28613.1"
/translation="MKMASSDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIPGSHNYTMNLASQNWNSYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTNGSTRGHKATVYTGSADFSPKLGRVQFATDTDNDFETNQNTKFTPVGVIQDG
STTPRNEPQQWVLPSYSGRNIHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="CCX28614.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAVN
APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRATVPARGSSSTSS
NSSIATSVHSNQTTSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
3'UTR 7514..7559
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga
61 catcgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc
121 cctcggggcg cggcctaaac agcctccccc gagggaaaaa ccacaaagac ccccacgacc
181 acccactcca gaactggtca aaaacattcc ccctccccca cccaacggag aggatgaaat
241 agtggtctct tatagtgtca aggatggtgt atccggcttg cctgaccttt ccaccgtcag
301 gcaaccggaa gaatctaaca cggccttcag tgtcccccca ctcaatcaga gggagaatag
361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggacgggg aaatctacca
421 ttatggcctg tatgtggagc gaggtcttgt actaggtgtg cacaaaccac cagctgccat
481 cagcctcgct aaggttgagc tagcaccact ctccttgtac tggagacctg tgtacactcc
541 tcagtacctc atctctccag acactctcaa gaaattgtcc ggagaaacgt tcccctacac
601 agcctttgac aacaactgtt atgccttttg ttgctgggtc ctggacctaa acgactcgtg
661 gctgagcagg agaatgatcc agagaacaac tggtttcttc agaccctatc aagactggaa
721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtagcta acatattcct
781 gtgtgctctg tcctcgctgt tcaccagacc cataaaagat ataataggga agataaggcc
841 tcttaacatc ctcaacatct tagcctcatg tgactggact tttgcaggca tagtggagtc
901 cctgatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct
1021 cgtccccgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg
1081 gaaaatgttg tcatctgctg cgtccacctt gagagcttgt aaagaccttg gtgcatatgg
1141 gctagagatc ctgaagctgg tcatgaagtg gttcttcccg aagaaggagg aggcaaatga
1201 gctggctatg gtgaggtcta tcgaggatgc agtcctagat ctcgaggcaa tcgaaaacaa
1261 ccatatgacc accttgctca aagacaaaga cagtctggca acctatatga gaacacttga
1321 ccttgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacccg acatcgtggg
1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa
1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat
1501 agggaagacc cacctcgcta gggaagtggc taagaaaatc gcagcctccc ttacaggaga
1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga
1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct
1681 gcaagaactc gctgacactt gcccccttac tctaaactgt gacaggattg aaaataaagg
1741 aaaggtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagcaccact
1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc
1861 ccctgaagtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc
1921 tttcagttct gatttctcac acataaggct agcactggcc ccacagggtg gtttcgacaa
1981 gaacgggaac accccgcacg gaaagggcgt catgaagact ctcaccactg gctcccttat
2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactac agggcccagc
2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc ttcagacagc ttgctgctga
2161 aaataaatat ggattgatgg acacaatgag ggttgggaaa cagctcaagg atgtcagaac
2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgcc aaatagtgta
2281 tagtggttgc acctacatac ttgagtctga tggcaagggc aatgtgaaag ttgacagaat
2341 ccaaagcgcc gccgtgcaga tcaacaatga gctggctggt gccctgcacc atctgaggag
2401 cgccagaatc agatactatg tcaagtgtgt ccaggaggcc ctgtattcca tcattcaaat
2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aaaacctatg
2521 gtccaatcca caagtggaaa acacagagga gactaccagc aaggacgggt gcccaaaacc
2581 taaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg
2641 aaagaacaag actggccgcg gcaagaagca cacagcattt tcaagcaaag gcctcagtga
2701 tgaagagtac gatgagtaca agaggattag agaagaaagg aatggcaagt actccataga
2761 agagtacctt caggacaggg acaaatacta tgaggaggtg gccattgcca gggcgactga
2821 ggaagacttc tgtgaagagg aggaggccaa gatccggcaa aggatcttta ggccaacaag
2881 gaaacaacgc aaggaggaaa gagcctctct cggtctggtc acaggctctg aaattaggaa
2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt
3001 ggactacaat gagaaactca gttttgaggc cccaccgagc atctggtcga gaatagtcaa
3061 ctttggttca ggctggggat tctgggtctc ccccagtctg ttcataacat caacccatgt
3121 cataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa
3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacaggcat
3241 gatcttggaa gaaggcgccc ctgagggtac cgtggtcaca ctactcatca aaaggtccac
3301 tggggaactc atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg
3361 gcgcactgtt ggaggccaga tgggcatgct tctgacagga tccaacgcca agagcatgga
3421 cctgggtact acaccaggtg attgtggttg cccctatatc tacaagagag gcaacgacta
3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac
3541 ccaggggagt gaaggagagg ctacacttga aggtggtgac aacaagggga catactgtgg
3601 tgcaccaatc ctaggcccag ggagtgcccc aactcttagc accaagacca aattctggag
3661 atcgtctaca gcgtcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga
3721 ccctagagtc aagggtggcc cttcactaca gcaagtcatg agggaacagt tgaagccatt
3781 cacagagcca aggggcaagc caccaaaacc aagtgtatta gaagctgcca agaagaccat
3841 catcaatgtc cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg
3901 cgcgtccctt gacaagacca cttccagtgg tcatccgtac cacgtacgga aaaacgactg
3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttccaagg ccaacctgat
4021 gtttgaagaa gggaagaaca tgaccccagt ctacacagct gcgctcaagg atgagttagt
4081 taaaactgac aaaatttatg gtaagatcaa gaagaggctt ctctggggtt cggacttggc
4141 gaccatgatc cggtgtgctc gagcattcgg aggcctaatg gatgaactca aagcacactg
4201 tgtcacgctt cccattagag ttggcatgaa tatgaatgag gatggtccca tcatcttcga
4261 gaggcattcc aggtacacat atcactatga tgctgattac tctcgatggg attcaacaca
4321 acagagagcc gtgttggcag cagctctcga aatcatggtt aaattctccc cagaaccaca
4381 tttggctcag gtagtcgcgg aagaccttct ttctcctagc gtggtggacg tgggcgactt
4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacttccc aatggaactc
4501 catcgcccac tggcttctca ctctctgtgc gctctctgaa gtcacaaacc tatcccctga
4561 caccatacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga
4621 cataaaattg gacccagaga aattgacagc aaagctcaga gaatatgggt taaaaccaac
4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaacg gcctaacttt
4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc
4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacaat
4861 gattcctcac tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca
4921 cggcccagcc ttttatagca aaatcagcaa gttggtcatt gcagagctga aagaaggtgg
4981 catggatttt tacgtgccca gacaggagcc aatgttcaga tggatgagat tctcagatct
5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacaatgagg
5161 ttatggcttt ggagcccgta gttggtgccg ccattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag
5281 tatcccccag aaacgctcca ggtgaaatat tatggagcgc gcccttaggc cctgatctga
5341 atccctacct ttcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaatcct cgcggggaac gcgttcaccg ccgggaaaat catatttgca gcagtcccac
5461 caaatttccc aactgaaggt ttgagcccca gtcaggtcac tatgtttccc catataatag
5521 tagatgttag gcaattggaa cctgtgttga ttcccttacc cgatgttagg aataatttct
5581 accattataa tcaatcaaat gaccccacca tcaaattgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gacgatgtct tcacagtttc ttgtcgagtt ctcacgagac
5701 catcccccga ttttgatttc atattcttgg tgccacccac agttgaatca agaactaaac
5761 cattctctgt cccaatttta actgttgagg agatgaccaa ttcaaggttc cccattcctt
5821 tggaaaagtt gttcacgggc cccagtagtg cctttgttgt tcaaccacaa aatggcaggt
5881 gcacgactga tggcgtgctc ctaggtacta cccaactgtc ccctgtcaac atctgcacct
5941 tcagagggga tgtcacccat attccaggca gtcataacta cacaatgaat ttggcctccc
6001 aaaattggaa cagttacgat ccaacagaag aaatcccagc ccctctagga accccagatt
6061 tcgtggggaa gattcaaggt gtgctcaccc aaaccacaag gacaaatggc tcgacccgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgacttttc tccaaaactg ggtagagttc
6181 aatttgccac tgacacagac aatgattttg aaactaacca gaacacaaag ttcaccccag
6241 tcggtgttat ccaggatggt agtaccaccc cccgaaatga accccaacaa tgggtgctcc
6301 caagttactc aggcagaaac attcataatg tgcacctggc ccccgctgta gcccccactt
6361 tcccgggcga gcagctcctc ttcttcagat ctactatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac caggaggcag
6481 ccccagcaca atctgatgtg gctctgttaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggcacacact ggccaacatg
6601 atttggttat cccccccaat ggttatttta gatttgattc ctgggtcaac cagttctaca
6661 cacttgcccc tatgggaaat gggacggggc gtagacgtgc attataatgg ctggagcttt
6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctaa tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcctc
6841 cttccaattt agtagcaatc tacaacaagc ttcctttcaa catgacaaag agatgctcca
6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtca aacaagcaat
6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcagtca acgcccccat
7021 gacaaaaact ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atataatgca ggccgctttt ccacccctca accctcgggg gcactaccag gaagagctaa
7141 tcttagggct actgtccccg cccggggttc ctccagcacg tcttctaact cttctattgc
7201 tacttctgtg cattcaaatc aaaccacctc aacgagactt ggttctacag ctggttctgg
7261 taccaatgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaaa
7321 taggaatttg tcacctttca tgaggggggc ccacaacatc tcgtttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca agcgagggga
7501 gtcacgggcg taatgtgaaa agacaaaatt gattatcttt cttctcttta gtgtctttt
//