Typing tool
|
Complete norovirus genomes
MW305583 | GII.4 New Orleans | ||
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GII.PNA3 |
ORF1: 1..5069 ORF2: 5050..6666 ORF3: 6666..7457LOCUS MW305583 7506 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate T091 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305583 VERSION MW305583.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7506) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7506) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7506 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="T091" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Tunisia" /collection_date="30-Sep-1976" /note="genotype: GII.4[GII.PNA]" gene <1..5069 /gene="ORF1" CDS <1..5069 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59085.1" /translation="AVANSNNDNAKSSSDGVLSSMAVTFKRALGARPKQPPPREIPQR PPRPPTPELVKRIPPPPPNGEDEPVVSYSVRDGVSGLPELSTVRQPEETNTAFSVPPL NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL FWRPVYTPQYLISPDTLRRLHGELFPYTAFDNNCYAFCCWVLELNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILNILA SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAAEIVPVVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEASELAMV RSIEDAVLDLEAIENNHLTTLLKDKDSLATYMKTLDLEEEKARKLSTKSASPDIVGTI NALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLARELAKKIATTLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKRDFPGQPDM WKNAFSSDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTIGSLIARASGLLHERLDEY ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGGQLKGVRTMPELKQALKSIS IKRCQIVYSGSTYTLESDGKGSVKVDRVQSATVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQLEDTEEAAGKEGCPKPKDYEEFVV SSDDIKAEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPD DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGTQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGSAPKLSTKT KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKQPKPSVLE AAKRTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHIRKNECWNGESFTGKLAD QASKANLMFEEGKNMTPIYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIP HSQRPTQLMSLLGEAALHGPAFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..959 /gene="ORF1" /product="p48" mat_peptide 960..2057 /gene="ORF1" /product="NTPase" mat_peptide 2058..2594 /gene="ORF1" /product="p22" mat_peptide 2595..2993 /gene="ORF1" /product="VPg" mat_peptide 2994..3536 /gene="ORF1" /product="Pro" mat_peptide 3537..5066 /gene="ORF1" /product="RdRp" gene 5050..6666 /gene="ORF2" CDS 5050..6666 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59086.1" /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSMPLSPELNPYLSHLSRMYNGYAGG FEVQVILAGNAFTAGKIIFAAIPPNFPTDGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQANDSTLKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVDEMTNSRFPTPLEKLHTGPNNSIVVQPQNGRCTIDGVLLGTT QLSTVNICNFRGSTTRAGQSHAYTMNLVSQNWNNYDPTEEIPAPLGTPDFVGKIVGML SQTTRENSSTRAHKATVSTGDAHFTPKSGSVLFTTDTDDLQNGQNTRFTPVGVAQDGE PHQNEPQQWRLPNYSGTPGHNVHLAPPVAPTFPGEQLLFFRSTMPGCGGYPNMDLDCL LPQEWVRHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYITVSHTGPYDLVIP PNGYFRFDSWVNQFYALAPMGTGTGRRRAL" gene 6666..7457 /gene="ORF3" CDS 6666..7457 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59087.1" /translation="MAGAFFAGLASDVLGTGLGSLIGAGAGAINQKVEYENNRKLQQA SFQFSSDLQQASFQHDKDMLQAQIKATQKLQHDLMRVKQAVLLEGGFSPTDAARGAIN APMTKVLDWSGTRYWAPGARVTTSNAGQFSFSQPIREPSGRTAPARSPANRASSVSAP SSTLSNQTTSTRLGTSAGSGASVSGSSSASRVRSWVEGQNRSLSPFMDGALHTSFVTP PSSKSSSQGTVSTVPKEVLDSWTGAFNTHRQPLFAHVRRQGESRV" ORIGIN 1 ccgctgttgc taacagcaac aacgacaacg caaaatcttc aagtgacgga gtactttcta 61 gtatggctgt cacttttaaa cgagccctcg gggcacggcc taagcagccg cccccgaggg 121 agataccaca aagaccccca cgaccgccca ctccggagtt ggtcaagagg atacctcccc 181 cccctcctaa tggggaggat gaaccagtgg tctcttatag tgtcagagat ggtgtctccg 241 ggctgcctga gctctccact gtcaggcagc cagaagagac caacacagca tttagtgtcc 301 ctccacttaa ccagagagag aacagggatg ccaaagagcc actgactgga acaatcctgg 361 agatgtggga tggggagatc taccattatg gcttgtatgt ggaacggggc ttagtgcttg 421 gcgtgcacaa accaccagca gccattagcc tcgccaaggt tgaactgaca ccactctctt 481 tgttttggag acctgtgtac actccccagt acctcatctc cccagacact cttaggagac 541 tgcatgggga actgttccct tacacagcct ttgacaacaa ttgctatgcc ttctgttgct 601 gggttctaga actgaatgac tcatggctga gtaggaggat gatacagagg acaactggtt 661 tctttagacc ttaccaagac tggaacagga agccccttcc caccatggat gattccaaac 721 taaagaaggt ggccaacata ttcctatgtg ccttgtcttc attgttcacc agaccaatca 781 aggacataat agggaagcta agacccctta acatccttaa catcttggct tcatgtgatt 841 ggacctttgc aggcatagtg gaatccctaa tccttttagc agagctcttt ggagttttct 901 ggacgccccc agacgtgtct gcgatgattg cccccttgct gggtgactac gagctacagg 961 ggcctgagga cctcgcggca gaaatagtgc cagtagtgat ggggggaata ggtttggtgc 1021 taggattcac caaagaaaag attgggaaga tgttgtcatc tgctgcatcc acattgaggg 1081 cttgtaaaga ccttggtgca tacggtctgg agatcttaaa actggtcatg aagtggttct 1141 tcccaaagaa agaggaggca agcgagttgg ccatggttag gtccattgag gatgcagtgt 1201 tggacctcga agcaattgaa aacaaccact tgaccacctt gcttaaggac aaggacagcc 1261 tggcgactta catgaaaact ctcgaccttg aggaagagaa agccaggaaa ctctcaacta 1321 agtctgcttc acctgatatc gtgggtacaa tcaacgctct cctggcgagg attgcagctg 1381 cccgttccct agtgcatcgg gcgaaggaag agctttccag caggccgaga cctgttgttg 1441 tgatgatatc aggaaaacca gggataggga agacccacct cgccagagag ctggccaaaa 1501 agatcgcaac caccctcacg ggggaccaga gagtgggcct tatcccacgc aatggcgtcg 1561 accactggga tgcatacaag ggagagaggg tcgtcctttg ggatgactac ggaatgagca 1621 accccatcca cgacgctctc aggttgcagg agcttgctga cacctgcccc ttaacactaa 1681 attgtgatag aattgaaaac aaaggtaaag tctttgacag tgatgctata atcatcacca 1741 ctaacttggc caacccagca ccactggact atgtcaattt tgaggcgtgc tcaaggcgca 1801 ttgatttcct cgtgtacgcc gaagcccctg atgtcgagaa ggcgaagcgc gacttcccgg 1861 gccaacctga catgtggaag aatgctttca gctctgactt ctctcacata aagctgatgc 1921 tggctccaca gggtggtttt gacaagaatg gcaacacccc acatgggaag ggcgtcatga 1981 agaccctcac tatcggttcc ctcatcgccc gcgcttcagg gctccttcat gagaggctgg 2041 atgagtacga gctgcaaggc ccagccctta caaccttcaa ctttgaccga aacaaagtgc 2101 tcgccttcag gcagctggct gctgaaaaca agtatgggtt gatggacaca atgagagttg 2161 gagggcaact caagggcgtc agaaccatgc cagagctcaa gcaagcactc aagagcatct 2221 caattaagag gtgccagata gtgtatagtg gcagcaccta tacacttgag tctgatggca 2281 agggcagtgt aaaggttgac agagttcaga gcgctactgt gcagaccaac aatgagctag 2341 ccggcgccct acaccacctc aggtgtgcca ggattaggta ctacgtcaag tgtgttcagg 2401 aggccctgta ctccatcatc caaattgcag gggccgcatt tgtcaccaca cgcattgtca 2461 agcgcatgaa catacaggac ctttggtcta agccacagct ggaggacaca gaagaagctg 2521 ccggtaaaga agggtgccca aaacccaaag attatgagga gtttgttgtc tcgtctgacg 2581 acatcaaggc cgagggcaag aaagggaaga acaagaccgg tcgcggcaag aaacacacag 2641 ccttctcgag taaaggtctc agtgatgagg agtacgatga gtacaaaaga atcagggagg 2701 aaagaaacgg caagtactct atagaggagt atctccagga tagagacaag tattatgagg 2761 aggttgccat cgccagagcg actgaggagg atttctgcga agaagaagag gccaaaatcc 2821 ggcagagaat cttcagacca acaaggaaac aacgcaagga agagagagct tctctcggcc 2881 tagtcacggg ctccgaaatc aggaaaagaa acccggatga cttcaaacct aagggaaagc 2941 tatgggccga tgacgacaga agtgtcgact acaatgagaa gctcaatttt gaagccccac 3001 caagtatctg gtcaaggata gtcaactttg gctcaggttg gggtttctgg gtttctccta 3061 gtctgttcat aacatcaact catgtcatac cccagggcac acaggagttc tttggagtac 3121 ccatcaaaca gatccaaata cacaagtcag gcgagttctg ccgtttgagg ttcccaaagc 3181 caattagaac tgatgtaacg ggtatgatct tggaggaggg tgcccccgaa ggaaccgtgg 3241 tcacgctact catcaagaga ccaactggtg aactcatgcc cttagcagcc agaatgggca 3301 ctcatgcaac tatgaaaatc caaggtcgca ctgttggagg tcaaatgggt atgctcctaa 3361 cagggtctaa tgctaagagt atggacctgg gcaccacacc cggtgactgt ggttgccctt 3421 acatctataa gagggggaat gactacgtgg tcatcggggt tcacacggct gctgctcgtg 3481 gaggaaacac cgtcatatgc gccactcagg gaaatgaagg tgaggccaca cttgaaggtg 3541 gtgacaacaa aggcacctac tgtggtgccc cgatcctagg cccaggaagt gccccaaaac 3601 tcagcaccaa gactaaattt tggagatcat ccacagcacc actcccgcct ggcacctatg 3661 aaccagctta cctcggcggt aaggacccca gagttaaggg tggtccatca ctacaacagg 3721 tcatgaggga tcagttgaaa ccattcacag aaccacgagg caaacaacca aagccaagtg 3781 tgctggaagc tgccaagaga accatcatta atgtccttga acaaacaata gacccacctc 3841 aaaaatggtc attcgcgcaa gcttgcgcgt ctcttgacaa aaccacctcc agtggtcacc 3901 cacaccatat acggaagaat gagtgctgga atggggagtc ctttacaggt aagttggcgg 3961 atcaggcttc aaaggccaac ttgatgtttg aggaggggaa gaacatgact ccaatttata 4021 caggtgccct caaggatgag ttagtcaaaa ctgacaagat atatggtaag atcaagaaga 4081 ggctgctttg gggatcggac ctggcaacca tgatccggtg cgcccgggcg ttcggaggcc 4141 tgatggatga gctcaaggcc cactgtgtca cacttcccgt cagagttggc atgaacatga 4201 atgaggatgg ccccatcatc tttgagaagc actccaggta cagataccat tatgatgcag 4261 attactctcg gtgggactca acacaacaga gagctgtgct agctgcagcc ctggagatca 4321 tggttaaatt ctccccagag ccacacttgg cccagatagt tgcagaagac ctcttatccc 4381 ctagtgtgat ggacgtaggt gatttcaaga tatcaatcaa cgagggcctt ccctccgggg 4441 taccttgcac ctcacaatgg aactccatcg ctcactggct cctcacactc tgtgcactct 4501 ctgaagtcac ggacctctcc cctgacatcg tccaggccaa ttctcttttc tccttctatg 4561 gtgatgatga aattgtgagt acagatataa aattggaccc agaaaaattg acagcaaaat 4621 tgaaagaata cgggctgaaa ccaactcgcc ctgacaagac tgagggaccc ctgatcattt 4681 ctgaggatct aaatggtttg actttcttgc ggaggactgt gacccgtgac ccagctggtt 4741 ggtttggcaa actggaacag agttcaatac tcaggcagat gtactggacc aggggcccca 4801 accatgagga cccatctgaa acaatgatac cacactccca aaggcccaca caactgatgt 4861 ccctgctggg tgaggctgcg ttacacggcc cagcgttcta tagcaaaatc agcaaactgg 4921 tcatcacaga gttgaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccgatgt 4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca 5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac 5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ctgttgttgg agctgctatt 5161 gcagccccag tggcaggtca acaaaatgta attgacccct ggattagaaa caattttgtg 5221 caagcccccg gtggggagtt tacagtgtct cctagaaatg ccccaggtga aatattatgg 5281 agtatgcctt taagccctga attgaacccc tacctttcac atttatctag gatgtataat 5341 gggtatgcag gtggttttga ggtgcaggtg atcctcgcgg ggaatgcgtt caccgcgggg 5401 aagatcatat tcgcagcaat ccccccaaat tttcccactg atggcctgag tcctagtcag 5461 gtcaccatgt ttccgcatat aattgtggat gttagacaat tggaacctgt gctgataccc 5521 ttacccgatg ttaggaacaa tttttatcat tataatcagg caaatgattc caccttgaaa 5581 ttgatagcta tgctgtacac accacttaga gctaataatg ctggagatga tgtttttact 5641 gtttcttgcc gtgtattaac aaggccatcc cctgattttg atttcatatt cttggtccct 5701 cccacagtcg aatcaagaac gaaacctttc actgtcccta tactgactgt tgatgaaatg 5761 accaattcga ggttccctac ccccctggag aaattgcata cgggcccaaa caactctata 5821 gttgtccaac ctcagaatgg aaggtgcaca attgatggcg tcctcttggg cactacgcag 5881 ttgtccaccg tcaacatctg caactttaga ggtagcacca cacgtgcagg tcagtcacac 5941 gcctacacga tgaatttggt ctctcaaaat tggaacaatt atgacccaac agaggagatt 6001 ccagcccctt tggggacacc agactttgtc gggaagatcg tgggcatgct ctcgcagacc 6061 accagagaga acagttcaac gcgagcccac aaggccacgg tgagcactgg agatgcccac 6121 ttcacgccaa agtcaggcag tgtcttgttc accactgaca ctgacgacct ccaaaatggc 6181 caaaatacaa gattcacccc agtcggagtt gcacaagatg gtgaacccca ccagaatgag 6241 ccacaacaat ggcgactccc aaattattct ggcacacccg gccacaatgt gcacctggca 6301 ccccctgtcg cacccacttt cccaggtgaa cagttgctct tctttaggtc caccatgcca 6361 ggttgtggtg gttatcctaa catggatttg gattgcctgc tccctcaaga gtgggtgcgc 6421 catttctacc aagaagccgc accagcacaa tctgatgtgg ctctgctgag gtttgtgaat 6481 ccagacacgg gaagggtgtt atttgagtgc aagctccaca aggcaggata catcacagtc 6541 tctcacactg gtccctatga cttggtcatt ccacctaatg gttactttag atttgattcc 6601 tgggttaatc agttttatgc acttgccccc atgggaactg gaacggggcg cagacgtgct 6661 ttataatggc tggggctttc tttgctggat tagcgtctga cgtactcggc accggccttg 6721 gttctctaat cggcgccggg gctggcgcca tcaatcagaa agtggaatat gagaataaca 6781 gaaaattgca gcaggcttcc ttccaattta gtagtgattt acagcaagct tctttccaac 6841 atgataagga tatgctccaa gctcagatta aggcaaccca aaaattgcaa catgatctta 6901 tgagagtcaa gcaggcagtg ctactagagg gaggcttttc ccccaccgac gctgcacgtg 6961 gtgcaatcaa cgcacctatg acaaaggtct tggactggag cgggactcgc tactgggctc 7021 ctggggctag ggttacaaca tctaacgcag gccaattctc tttctcacaa cccatccggg 7081 agccatctgg caggaccgcc cccgcccgaa gtcccgccaa tcgagcttct agtgtatctg 7141 caccctcttc tacactttct aatcaaacaa cctcaacgag acttggcact tcagcaggtt 7201 ctggtgccag tgtctcgggc tcttcatcgg cctcgagggt taggagctgg gtagagggcc 7261 aaaacaggag cctttcgccc ttcatggacg gggcgctcca cacttcattt gtcacacccc 7321 catcaagtaa gtcctctagc caaggcacag tctcaaccgt gcccaaagaa gttttggact 7381 cctggactgg tgctttcaac acgcacagac agccgctctt cgcccacgtg cgcagacaag 7441 gggagtcacg agtttaaagt gaaaagatta cttaaaattt tctttttctt aagattagtg 7501 tctttt //