Typing tool
|
Complete norovirus genomes
OM980240 | GII.4 Sydney | ||
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GII.P4 New Orleans |
ORF1: 1..5090 ORF2: 5071..6693 ORF3: 6693..7499LOCUS OM980240 7536 bp RNA linear VRL 18-MAR-2022 DEFINITION Norovirus GII isolate Hu/ES/2019/GII.4[P4NewOrleans]/4008ALC nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OM980240 VERSION OM980240.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7536) AUTHORS Navarro-Lleo,N., Santiso-Bellon,C., Vila-Vicent,S., Carmona-Vicente,N., Gozalbo-Rovira,R., Rodriguez-Diaz,J. and Buesa,J. TITLE Wide Diversity of Recombinant Noroviruses Circulating in Spain, 2016 to 2020 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7536) AUTHORS Navarro-Lleo,N., Santiso-Bellon,C., Vila-Vicent,S., Carmona-Vicente,N., Gozalbo-Rovira,R., Rodriguez-Diaz,J. and Buesa,J. TITLE Direct Submission JOURNAL Submitted (13-MAR-2022) Microbiology and Ecology, University of Valencia, Av. Blasco Ibanyez 15, Valencia, Valencia 46010, Spain COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.11.1; MEGAHIT v. 1.2.4 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7536 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/ES/2019/GII.4[P4NewOrleans]/4008ALC" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Spain: Valencia" /collection_date="19-Dec-2019" /note="genotype: GII.4[P4 New Orleans]" gene <1..5090 /gene="ORF1" CDS <1..5090 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="UNB81966.1" /translation="SNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPP PREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPEESNT AFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV ELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR RMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRPL NILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRI AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRD FPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLVARASGLL HERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMPELK QALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCARI RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENIEETTSKDGCPKPK DDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGSE IRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFI TSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVT LLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGGA PTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGKP PKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES FTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMV RCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQ RAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWN SIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGL KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHGD PSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVIAELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..980 /gene="ORF1" /product="p48" mat_peptide 981..2078 /gene="ORF1" /product="NTPase" mat_peptide 2079..2615 /gene="ORF1" /product="p22" mat_peptide 2616..3014 /gene="ORF1" /product="VPg" mat_peptide 3015..3557 /gene="ORF1" /product="Pro" mat_peptide 3558..5087 /gene="ORF1" /product="RdRp" gene 5071..6693 /gene="ORF2" CDS 5071..6693 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UNB81967.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAV" gene 6693..7499 /gene="ORF3" CDS 6693..7499 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UNB81968.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDVAPARGPSSKPS NSSTTTSVYSNQTTSTRLGSTAGSGASVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 cgtctaacga cgcttctgct gccgctgttg ctaacagcaa caacgacacc gcaaaatctt 61 caagtgacgg agtgctttct agcatggctg tcacttttaa acgagccctc ggggcgcggc 121 ctaaacagcc ccccccgagg gagaaaccac aaagaccccc tcgaccacct acaccagaac 181 tggttaaaaa tattcccccc cccccaccca acggagagga tgaaatagtg gttacctata 241 gtgtcaaaga tggtgtttcc ggcttgcctg acctttccac cgtcaggcag ccggaagaat 301 ccaacacggc cttcagtgtt cctccactta atcagaggga gaatagagat gctaaggaac 361 cactcactgg aacaatactg gagatgtggg acggggaaat ctatcactat ggcctgtatg 421 tggagcgagg tcttgtgcta ggcgtgcaca aaccgccagc tgctatcagc ctcgctaagg 481 tagagttagc accactctcc ttgtactgga ggcctgtgta cactcctcag tacctcatct 541 ctccagacac tctcaagaaa ttgtccggag aaacgttccc ctacacagcc tttgacaaca 601 actgctatgc cttttgttgc tgggtcctgg acctaaatga ctcgtggctg agcaggagaa 661 tgatccagag aacaactggt ttcttcaggc cctaccaaga ctggaatagg aaaccccttc 721 ccactatgga tgactccaaa ataaagaagg tggctaacat atttctgtgt gctctgtcct 781 cgctattcac caggcccata aaagatataa tagggaagat aaggcctctt aacatcctca 841 acatcttagc ctcatgtgat tggacctttg cgggcatagt ggagtccctg atactcttgg 901 cagaactctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt gcccccttac 961 ttggtgacta cgagctacaa ggacctgagg accttgcagt ggagctcgtc cccgtggtaa 1021 tggggggaat tggtttggtg ctaggattca ccaaagagaa gattgggaaa atgttgtcat 1081 cagctgcgtc caccttaaga gcttgcaaag accttggtgc atatgggcta gagatcctaa 1141 agttagttat gaagtggttc ttcccgaaga aagaggaggc aaatgagctg gctatagtga 1201 ggtccatcga ggatgcagtc ctggatctcg aagcaattga aaacaatcat atgaccacct 1261 tgcttaaaga taaagacagt ctggcaacct acatgagaac acttgacctt gaagaggaga 1321 aagccaggaa actctcaacc aagtctgcct cacctgatat cgtgggcaca atcaacgccc 1381 tcctggcgag aatcgctgcc gcacgctctc tggtgcaccg agcgaaggag gagctttcca 1441 gcagaccaag acctgtggtg ttgatgatat caggcaggcc aggaataggg aagacccacc 1501 tcgctaggga agtggctaag agaattgcag cctccctcac aggagaccag cgtgttggtc 1561 tcatcccacg caatggcgtc gaccattggg atgcatataa gggggagagg gtcgtcctat 1621 gggacgatta tggaatgagc aaccctattc acgacgccct caggctgcaa gaactcgctg 1681 acacttgccc ccttactctg aactgtgaca ggattgaaaa taaaggaaag gtctttgaca 1741 gcgatgtcat catcatcacc actaatctgg ccaacccagc cccactggac tacgtcaact 1801 ttgaagcatg ctcgaggcgc attgacttcc ttgtatatgc agaagcccct gatgtcgaaa 1861 aggcgaagcg tgacttccca ggccagcctg acatgtggaa gaacgctttc agctctgatt 1921 tctcacacat aaaactagca ctggccccac agggtggttt cgacaagaac gggaacaccc 1981 cacacgggaa gggcgtcatg aagactctca ccactggctc ccttgttgcc cgggcatcag 2041 ggctactcca tgagaggtta gatgaatttg aactgcaggg cccagctctc accaccttca 2101 attttgatcg caacaaagtg cttgccttta gacagcttgc tgctgaaaat aaatatggac 2161 tgatggacac aatgagggtt gggaaacagc tcaaggatgt caaaaccatg ccagaactca 2221 aacaagcact caagaatgtc tcaatcaaga agtgtcaaat agtgtatagt ggttgcacct 2281 acatgcttga gtctgatggc aagggcaatg tgaaagttga caggatccaa agcgccgccg 2341 tgcagaccaa caatgagctg gctggtgccc tgcaccactt gaggtgcgcc agaatcagat 2401 actatgtcaa gtgtgtccag gaggccctgt attccatcat tcaaattgct ggggctgcat 2461 ttgtcaccac gcgcatagcc aagcgcatga acatacaaga cctatggtcc aagccacaag 2521 tggaaaacat agaggagact accagcaagg acgggtgccc aaaacctaag gatgatgagg 2581 agtttgtcat ttcatccgat gacatcaaaa ctgagggcaa gaaagggaag aacaagactg 2641 gccgtggcaa gaagcacaca gcattttcaa gcaaaggcct cagtgatgaa gagtacgacg 2701 aatacaagag gatcagggaa gaaaggaatg gcaagtactc tatagaagag tacctccagg 2761 acagggataa atattatgag gaggtggcca ttgccagagc gactgaggaa gacttctgtg 2821 aagaggagga agccaagatc cgacaaagga tctttaggcc aacaaggaaa caacgcaagg 2881 aggaaagagt ctctctcggc ttagtcacag gttctgaaat taggaaaaga aacccagatg 2941 acttcaagcc caaggggaaa ttgtgggctg acgacgacag gagtgtggac tacaatgaga 3001 aactcagttt tgaggccccg ccaagcattt ggtcaagaat agtcaacttt ggttcaggct 3061 ggggattctg ggtctccccc agcttgttca taacatcaac ccacgttata ccccagggcg 3121 caaaggagtt ctttggagtc cccatcaaac aaatacaggt acacaagtca ggcgagttct 3181 gtcgcttgag attccctaag ccaatcagga ctgatgtgac gggcatgatc ttagaagaag 3241 gcgcacctga gggcaccgtg gttacactac tcatcaaaag gtccactggg gaacttatgc 3301 ccctagcagc taggatgggg acccacgcga ccatgaagat ccaagggcgc actgttgggg 3361 gccagatggg catgcttctg acaggatcca acgccaagag tatggacctg ggtactacac 3421 caggtgattg tggctgcccc tacatctaca agagaggtaa tgactatgtg gtcattgggg 3481 tccacacggc tgccgcacgt ggggggaaca ctgtcatatg tgccacccag gggagtgaag 3541 gagaggctac acttgagggt ggtgacaaca aggggacata ctgtggtgca ccaatcctag 3601 gcccaggggg tgccccaaca cttagcacca agaccaaatt ctggagatcg tccacagcat 3661 cactcccacc tggcacctat gaaccagcct atcttggtgg caaggaccct agagtcaagg 3721 gtggcccttc actgcagcaa gtcatgaggg aacagttgaa gccattcaca gagcccaggg 3781 gtaagccacc aaaaccaagt gtgttagaag ctgccaagaa aaccatcatc aatgtccttg 3841 agcaaacaat tgatccacct gagaaatggt cgttcgcaca agcttgcgcg tctcttgaca 3901 agaccacttc cagtggtcac ccgcaccaca tgcggaaaaa cgactgctgg aacggggagt 3961 ccttcacagg caagctggca gaccaggcat ccaaggccaa cctgatgttt gaagaaggga 4021 agaacatgac cccggtctac acagctgcgc tcaaggatga gttagttaaa actgacaaaa 4081 tctatggtaa gatcaagaag aggcttcttt ggggctcgga cttggcgacc atggtccggt 4141 gtgctcgagc attcggaggc ctgatggatg aactcaaagc gcactgcgtc acacttccca 4201 ttagagttgg catgaacatg aatgaggatg gccccatcat cttcgagagg cattccaggt 4261 acacgtacca ctatgatgct gattactctc gatgggactc aacacaacag agagccgtgt 4321 tggcagcagc tctagagatc atggtaaaat tctccccaga accacatttg gctcaagtag 4381 tcgctgaaga cctcctttct cctagtgtgg tggacgtggg cgacttcaca atatcaatca 4441 acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc gcccactggc 4501 ttctcactct ctgtgcactc tccgaagtca caaacctgtc tcctgatact atacaggcta 4561 attctctctt ctctttttat ggtgatgatg aaattgtcag cacagacata aaactggacc 4621 cagagaaatt gacagcaaag ctcaaagaat atgggttaaa accaacccgc cctgacaaaa 4681 ctgaaggacc tcttgtcatc tctgaagacc tgaatggcct gactttcctg cggagaactg 4741 tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata ctcaggcaaa 4801 tgtactggac taggggtccc aaccatggag acccatctga aacaatgatt ccacattccc 4861 aaagacccat acaattgatg tccctactgg gggaggccgc tctccacggc ccatcatttt 4921 acagcaaaat tagcaaattg gtcattgcag agctaaaaga aggtggtatg gatttttacg 4981 tacccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg 5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca 5101 tctgatgggt ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag 5161 cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc 5221 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac 5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atttaaatcc ctacctatcc 5341 catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt gattctcgcg 5401 gggaacgcgt tcaccgccgg gaaagtcatc tttgcagcag tcccaccaaa ttttccaact 5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa 5521 ctagaacctg tgttaattcc cttacccgat gttaggaata atttctatca ttacaatcaa 5581 tcaaatgacc ccaccattaa gttgatagca atgttgtaca caccacttag ggccaacaat 5641 gctggggacg atgtcttcac agtctcttgc cgagtcctca cgagaccatc ccccgatttt 5701 gatttcatat ttctagtgcc acccacagtt gagtctagaa ctaaaccatt ctctgtccca 5761 gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc 5821 acgggtccca gcagtgcctt tgtcgttcaa ccacaaaacg gtaggtgcac gactgatggc 5881 gtgctcctag gcaccaccca attgtctcct gtcaacatct gcaccttcag aggggatgtc 5941 actcacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa ttggaacaat 6001 tatgacccaa cagaggaaat cccagcccct ctaggagctc cagattttgt ggggaagatt 6061 caaggtatgc tcacccaaac cacaagggca gatggctcaa cacgcggcca caaggctacg 6121 gtgtacactg ggagcgccga ctttgctcca aaactgggca gagttcaatt tgaaactgac 6181 acagaccatg attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa 6241 gatggtagca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ctactcaggc 6301 agaaatactc acaatgttca tctggctcct gctgtggccc ccacttttcc gggtgagcaa 6361 cttctcttct ttagatccac catgcccgga tgtagcgggt accccaacat ggatttggac 6421 tgcctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacagtct 6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaaa 6541 cttcataaat caggctatgt tacagtggct cacactggcc aacatgatct ggttatcccc 6601 cccaatggtt attttagatt tgattcctgg gtcaaccagt tctacacgct tgcccccatg 6661 ggaaatggag cggggcgtag acgtgcagta taatggctgg agctttcttt gctggattag 6721 catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca 6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca 6841 gcaatctaca acaggcttcc tttcaacatg acaaggaaat gctccaagca caaattgagg 6901 ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc ctggagggtg 6961 ggttctctga aacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagttttgg 7021 actggagcgg gacaaggtac tgggctcctg acgctaggac tacaacatac aatgcaggcc 7081 gcttttccac cccccaacca tcgggggcac tgccaggaag agctaatctt agggatgttg 7141 cccctgctcg gggtccctct agtaaacctt ctaattcttc tactactact tctgtgtatt 7201 caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggtgct agtgtctcga 7261 gtctcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtctc 7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta 7381 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca 7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca cgagtgtaat 7501 gtgaaaaggc aaaattgatt atctttcttt ttcttt //