Typing tool
|
Complete norovirus genomes
KJ710245 | GII.4 New Orleans | ||
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GII.P4 Yerseke |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7513LOCUS KJ710245 7570 bp RNA linear VRL 21-APR-2015 DEFINITION Norovirus GII strain GII/Hu/ZAF/2011/GII.P4_GII.4/CapeTown/6745, partial genome. ACCESSION KJ710245 VERSION KJ710245.2 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7570) AUTHORS Mans,J., Murray,T.Y. and Taylor,M.B. TITLE Norovirus recombinants in South Africa JOURNAL Unpublished REFERENCE 2 (bases 1 to 7570) AUTHORS Mans,J. TITLE Direct Submission JOURNAL Submitted (16-APR-2014) Department of Medical Virology, University of Pretoria, Bophelo Road, Pretoria, Gauteng 0001, South Africa REFERENCE 3 (bases 1 to 7570) AUTHORS Botha,J.C. and Mrray,T. TITLE Direct Submission JOURNAL Submitted (21-APR-2015) Department of Medical Virology, University of Pretoria, Bophelo Road, Pretoria, Gauteng 0001, South Africa REMARK Sequence update by submitter COMMENT On Apr 21, 2015 this sequence version replaced KJ710245.1. FEATURES Location/Qualifiers source 1..7570 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="GII/Hu/ZAF/2011/GII.P4_GII.4/CapeTown/6745" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="South Africa" /collection_date="07-Jan-2011" /collected_by="J. Mans" /note="genotype: GII.P4_Yerseke_2006a/GII.4_Apeldoorn_2007" 5'UTR <1..4 gene 5..5104 /gene="POL" CDS 5..5104 /gene="POL" /codon_start=1 /product="polyprotein" /protein_id="AKE07105.1" /translation="MKMAANDASAAAVANGNNDIAKSSSDRVLSSMAVTFKRALGARS KQPPPREIPQKPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLHQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LARIELSPLSLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYALCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGK LRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPVHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK SKRDFPGQPDMWKNAFSSDFSHMKLTLAPQGGFDKNGNTPHGKGVMKSLTTGSLIARA SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGRQLKDVRTM TELKQALKNIAIKKCQIVYSGYTYILESDGKGDVKVDKIQNTSVQTNNELTGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVTIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPILG PGNAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKSGPSLQQVMREQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWTFAQACASLDKTTSSGHPHHMRKNDCW NGENFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYSKIKKRLLWGSDL ATMVRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPRLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..994 /gene="POL" /product="protein p48" mat_peptide 995..2092 /gene="POL" /product="NTPase" mat_peptide 2093..2629 /gene="POL" /product="protein p22" mat_peptide 2630..3028 /gene="POL" /product="viral genome like protein" /note="VPg" mat_peptide 3029..3571 /gene="POL" /product="3C-like protein" mat_peptide 3572..5101 /gene="POL" /product="RNA dependent RNA polymerase" gene 5084..6707 /gene="VP1" CDS 5085..6707 /gene="VP1" /note="major capsid protein" /codon_start=1 /product="capsid protein VP1" /protein_id="AKE07106.1" /translation="MKMASSDANPSDGSTANLVPEVNDEVMALEPVVGAALAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD ARNNFYHYNQSNESTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSLDFDFIFLVPP TVESRTKPFSVPILTVEEMTNSRFPIPLERLFTGPSSAFAVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHTTGSHNYTMNLASQNRSNYDPTEEIPAPLGTPDFVGKIQGAL TQTTRADGSTRGHKATVYTGSADFTPKLGRVQFATDTDHDFDTNQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVAHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6707..7513 /gene="VP2" CDS 6707..7513 /gene="VP2" /note="minor capsid protein" /codon_start=1 /product="capsid protein VP2" /protein_id="AKE07107.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKDMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPSGALPGRANLRAAVPARGPSSTSS NSSTATSVYSNQTTSTRLGSTAGSGASVSSLPSTARTVNWVRDQNRSLSPFMRGAHNT SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRTRGESRV" 3'UTR 7514..7570 ORIGIN 1 gtgaatgaag atggcggcta acgacgcttc cgctgccgct gttgctaacg gcaacaacga 61 catcgcaaaa tcttcaagtg accgagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggtctaaac agcctccccc gagggaaata ccacaaaagc ccccacgacc 181 acctactcca gaactggtta aaaacattcc ccctcccccg cccaacggag aggatgaaat 241 agtggtttct tatagtgtca aagatggtgt ttccgggttg cccgaccttt ccaccgtcag 301 gcaaccggaa gaatctaaca cggcctttag tgtccctcca ctccatcaga gggagaatag 361 agatgctaag gagccactta ctggaacaat tctggaaatg tgggatggag aaatctacca 421 ttatggcctg tatgtggagc gaggccttgt actgggtgta cacaaaccgc cagctgccat 481 cagcctcgct aggattgagc tatcaccact ctccttgtac tggagacctg tgtacactcc 541 tcagtacctc atctctccag acaccctcaa gaagttacac ggagaaacgt tcccctacac 601 agcctttgac aacaattgtt atgccctttg ttgttgggtc ctggacctaa atgactcgtg 661 gctgagcagg agaatgatcc agaggacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaattaaag aaggtagcta acatattcct 781 gtgtgctctg tcttcgctat tcaccaggcc cataaaagat ataataggta agctaaggcc 841 tcttaacatc ctcaacatct tagcctcatg tgattggact tttgcaggca tagtggaatc 901 cctgatactc ttggcagagc tctttggagt gttctggaca cccccagatg tgtctgcgat 961 gattgccccc ttactcggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccctgta gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaagattgg 1081 gaagatgttg tcatctgctg cgaccacttt gagggcttgt aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagttgg tcatgaagtg gttcttcccg aagaaggagg aagcaaacga 1201 actggctata gtgagatcta tcgaggacgc agtcctagat ctcgaggcaa ttgaaaacaa 1261 ccatatgacc accttgctca aagacaaaga cagcttggca acctacatga gaacccttga 1321 cctcgaggag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg 1381 cacaatcaat gcccttctgg cgagaatcgc tgctgcacgt tctctggtgc atcgagcgaa 1441 ggaggaactt tccagcaggc caagaccagt agtattgatg atatcgggca gaccaggaat 1501 agggaagacc cacctcgcta gagaagtggc caagagaatc gcgtcctccc tcacaggaga 1561 ccagcgtgtg ggcctcatcc cacgcaatgg cgtcgaccat tgggatgcgt acaaggggga 1621 gagggtcgtc ctatgggacg attatggaat gagtaaccct gttcatgatg ccctcaggtt 1681 gcaagaactc gctgacactt gcccccttac tctaaactgt gacaggattg agaacaaagg 1741 aaaagtcttt gatagcgatg tcatcattat caccactaat ctggccaacc cagcaccact 1801 ggactatgtc aactttgaag catgctcgag gcgcatcgac ttcctcgtgt atgcagaagc 1861 ccctgaagtc gaaaagtcaa agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 cttcagttct gatttctcac acatgaaact aacattggcc ccacagggtg gcttcgacaa 1981 gaacggaaac accccacacg gcaagggcgt catgaagtct ctcaccactg gctcccttat 2041 tgcccgggca tcaggactac tccatgagag gttagatgaa tttgaactac agggcccaac 2101 cctcaccacc ttcaattttg atcgcaataa agtacttgcc tttagacaac ttgctgctga 2161 gaacaaatat gggttgatgg acacaatgag ggttgggaga cagctcaagg atgtcagaac 2221 catgacagaa ctcaaacaag cactcaagaa tatcgcaatc aagaagtgcc agatagtgta 2281 tagtggttac acctacatac ttgagtctga tggtaagggc gatgtgaaag ttgacaaaat 2341 tcagaacacc tccgtgcaga ccaacaatga gctgactggt gctctgcacc atctgaggtg 2401 cgccagaatc agatactatg tcaagtgtgt tcaggaggcc ctgtattcca tcattcaaat 2461 tgctggggct gcatttgtca ccacgcgcat cgtcaagcgc atgaacatac aagacctatg 2521 gtccaaacca caagtggaag acacagagga gaccaccagc aaggatgggt gcccaaaacc 2581 caaagatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gtaagaaagg 2641 gaagaacaag actggccgcg gcaagaagca cacagccttc tcaagcaaag gcctcagtga 2701 tgaagagtac gacgagtaca agaggattag agaagagagg aatggcaagt actccataga 2761 agagtacctt caggacaggg acaaatacta tgaggaggtg accattgcca gggcaactga 2821 ggaagacttc tgtgaagagg aggaggccaa gatccgacaa aggatcttca ggccaacaag 2881 gaaacaacgc aaggaggaaa gagcttcgct cggtctggtc acaggttctg aaattaggaa 2941 aagaaaccca gatgatttca aacccaaggg gaaactgtgg gctgacgatg acagaagtgt 3001 ggactacaat gagaaactca gttttgaggc cccaccaagc atctggtcaa ggatagtcaa 3061 ctttggttca ggttggggat tctgggtctc ccccagtctg ttcataacat caacccacgt 3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaattc aggtgcacaa 3181 gtcaggcgag ttctgtcgct tgagattccc aaaaccaatc aggactgatg tgacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggtcaca ctactcatca aaaggtccac 3301 tggggaactc atgcccctag cagctagaat ggggacccat gcaaccatga agatccaagg 3361 gcgcactgtt ggaggccaaa tgggcatgct tctgacagga tccaacgcca aaagcatgga 3421 tctgggcact acaccaggtg attgtggctg tccctacatc tacaagagag gcaatgacta 3481 tgtagtcatt ggagtccaca cagccgccgc tcgtggagga aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ctgtgcttga aggtggtgac aacaagggga cgtactgtgg 3601 tgcaccaatc ctaggcccag ggaatgcccc aacacttagc accaagacca aattttggag 3661 atcgtccacg gcaccactcc cacctggcac ctatgaacca gcctaccttg gtggcaagga 3721 ccctagagtc aagagtggcc cttcactgca gcaagtcatg agggaacagt tgaagccatt 3781 cacagagccc aggggcaagc caccaaagcc aagtgtgtta gaagctgcca agaaaaccat 3841 catcaatgtc cttgaacaaa caattgatcc acctgagaaa tggacatttg cacaagcttg 3901 cgcgtccctt gacaagacca cttccagtgg ccacccgcac cacatgcgga aaaacgactg 3961 ctggaacggg gagaacttca caggcaagct ggcagaccag gcttccaagg ccaacttgat 4021 gtttgaagaa ggaaagaaca tgaccccagt ctatacagct gcgctcaagg atgagctagt 4081 taaaactgat aaaatttata gcaagatcaa gaagaggctt ctctggggtt cggacttggc 4141 gaccatggtc cggtgtgctc gagcattcgg aggcctaatg gacgaactca aagcacactg 4201 tgtcacactt cccattagag ttggtatgaa catgaacgag gatggcccca tcatcttcga 4261 gaaacattcc aggtacacat atcactatga tgctgattac tctcgatggg attcgacaca 4321 acagagagcc gtgttggcag cagctctaga aatcatggtt aaattctctc cagaaccacg 4381 cttggctcag gtagttgcgg aagatcttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca atcaacgagg gtcttccctc tggggtgccc tgcacctccc aatggaattc 4501 catcgcccac tggcttctca ctctctgcgc gctctctgaa gtcacaaact tgtcccctga 4561 caccatacag gctaactccc tcttctcttt ttatggtgat gatgaaattg ttagcacaga 4621 tataaaattg gacccagaga aattgacagc aaagcttagg gaatatggat tgaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgag gacttggatg gcctaacctt 4741 cctgcggaga actgtgaccc gtgacccagc tggttggttt ggaaaactgg agcagagctc 4801 aatactcagg caaatgtact ggacaagggg ccccaaccat ggagacccat ctgaaacaat 4861 gattccacac tcccaaagac ccatacaatt gatgtcccta ttgggggagg ccgctctcca 4921 cggcccagca ttctacagca aaatcagcaa gttagtcatt gcagagctaa aagaaggtgg 4981 catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccacag ccaacctcgt cccagaggtc aacgatgagg 5161 ttatggcttt ggagcccgtt gttggtgccg cccttgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagttcacag 5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttaggc cccgatttga 5341 atccctacct ttctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtgatcct cgcggggaat gcgttcaccg ccggaaaggt catatttgca gcagtcccac 5461 caaatttccc aactgaaggc ttgagcccca gccaggtcac tatgttcccc cacataatag 5521 tagatgttag gcaattggaa cctgtgttga tccccttacc cgatgctagg aataatttct 5581 accactacaa tcaatcaaat gaatccacca tcaaattgat agcaatgttg tatacaccac 5641 ttagggctaa caatgctggg gacgatgtct tcacagtctc ttgtcgagtc ctcacgagac 5701 catccctcga ttttgatttc atatttttag tgccacccac agttgagtca agaactaaac 5761 cattctctgt cccaatttta actgttgagg aaatgaccaa ttcaagattc cccattcctt 5821 tggaaagatt gttcacgggt cccagcagtg cctttgccgt tcaaccacaa aacggcaggt 5881 gcacgactga tggcgtgctc ctaggtacta ctcaactgtc tcctgtcaac atctgcacct 5941 tcagaggaga tgtcacccac accacaggta gtcacaacta cacaatgaat ttggcttccc 6001 aaaatcggag caattatgac ccaacagaag aaatcccagc ccctctagga actccagact 6061 tcgtggggaa gattcaaggt gcgctcaccc aaaccacaag ggcagatggc tcgacccgcg 6121 gccacaaagc tacagtgtac actgggagcg ccgactttac tccaaaactg ggtagagttc 6181 aatttgccac tgatacagac catgattttg atactaacca aaacacaaag ttcaccccag 6241 tcggtgtcat ccaggatggt tctactaccc accggaatga accccaacaa tgggtgctcc 6301 caagttactc aggcagaaat actcataatg tgcacctggc ccccgctgtg gcccccactt 6361 ttccgggtga acagcttctc ttctttaggt ccactatgcc cggatgtagt gggtacccca 6421 acatggattt ggactgcctg ctcccccaag aatgggtggc gcacttctac caagaggcag 6481 cccccgcaca atctgatgtg gctctgctaa gatttgtgaa tccagataca ggcagggttt 6541 tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttacttta gatttgattc ctgggtcaac cagttctaca 6661 cacttgcccc catgggaaat ggaacggggc gtagacgtgc attgtaatgg ctggagcttt 6721 ctttgctgga ttggcatctg acgtccttgg ctctggactt ggttccctga tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgaatt tgaaaataac agaaaattgc aacaagcttc 6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgataaag atatgctcca 6901 agcacaaatt gaggccacca aaaagttgca acaggaaatg atgagagtta aacaggcaat 6961 gctcctagag ggtggattct ctgagacaga tgcagcccgt ggggcaatca acgcccccat 7021 gacaaaggct ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac 7081 atacaatgca ggccactttt ccacccctca accctcgggg gcgctgccag ggagagctaa 7141 tctcagggct gctgtccccg ctcggggtcc ctccagcaca tcttctaatt cttctactgc 7201 tacttctgtg tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg 7261 tgccagtgtc tcgagcctcc cgtcaactgc aaggaccgtg aactgggtta gggatcaaaa 7321 caggagtttg tcacctttca tgaggggggc ccacaacaca tcgtttgtca ccccaccgtc 7381 tagcagatcc tctagtcaag gcacagtctc aaccgtgccc aaagaagttt tggactcctg 7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgca cgcgagggga 7501 gtcacgggtg taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtctttga 7561 aaaaaaaaaa //