Typing tool
|
Complete norovirus genomes
MT474042 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5094 ORF2: 5075..6697 ORF3: 6697..7503LOCUS MT474042 7503 bp RNA linear VRL 15-MAY-2020 DEFINITION Norovirus GII isolate JH22 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MT474042 VERSION MT474042.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7503) AUTHORS Hernandez,J.M., Silva,L.D., Souza Junior,E.C., Cardoso,J.F., Reymao,T.K., Portela,A.C.R., Lima,C.P., Teixeira,D.M., Lucena,M.S., Nunes,M.R. and Gabbay,Y.B. TITLE Evolutionary and Molecular Analysis of Complete Genome Sequences of Norovirus from Brazil: Emerging Recombinant Strain GII.P16-GII.4 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7503) AUTHORS Hernandez,J.M., Silva,L.D., Souza Junior,E.C., Cardoso,J.F., Reymao,T.K., Portela,A.C.R., Lima,C.P., Teixeira,D.M., Lucena,M.S., Nunes,M.R. and Gabbay,Y.B. TITLE Direct Submission JOURNAL Submitted (14-MAY-2020) Virology, Evandro Chagas Institute, BR316, Ananindeua, PARA 67030000, Brazil COMMENT ##Assembly-Data-START## Assembly Method :: IDBA-UD v. 1 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7503 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.Pe_GII.4/JH22/2015/PA/BRA" /isolate="JH22" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil: Belem, PA" /lat_lon="1.448822 S 48.473166 W" /collection_date="06-Mar-2015" /note="genotype: GII.PE/GII.4" gene <1..5094 /gene="ORF1" CDS <1..5094 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJT97667.1" /translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ PPPKEIPPRPPRPPTPELVRKIPPPPPNGEDEPVVSYSTKGGVSGLPELTTVRQPEET NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA KVELTPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD LKQTLKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCA RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLK PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPG SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLAT MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST QQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEY GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSIIRQMYWTRGPNH EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..984 /gene="ORF1" /product="p48" mat_peptide 985..2082 /gene="ORF1" /product="NTPase" mat_peptide 2083..2619 /gene="ORF1" /product="p22" mat_peptide 2620..3018 /gene="ORF1" /product="VPg" mat_peptide 3019..3561 /gene="ORF1" /product="Pro" mat_peptide 3562..5091 /gene="ORF1" /product="RdRp" gene 5075..6697 /gene="ORF2" CDS 5075..6697 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJT97668.1" /translation="MKMASSDANPSNGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6697..7503 /gene="ORF3" CDS 6697..7503 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJT97669.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga catcgcaaaa 61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg 121 cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc acccacacca 181 gaattggtca gaaagatccc tcctccccca cccaacgggg aggatgaacc agtggtctct 241 tacagcacca aaggtggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa 301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag 361 gagccactaa ctggaacaat cattgagatg tgggatggag aaatctacca ttacggcctg 421 tatgtggaac gaggtcttat acttggtgtg cacaagccac cggcagccat cagccttgcc 481 aaggtcgagc taacaccgct ctctttgttc tggagacctg tatacacccc ccagtatctc 541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac 601 aacaactgct acgccttttg ttgttgggta ttagacctaa acgactcatg gttaagcagg 661 agaatgattc agagaacgac aggtttcttc aggccgtacc aggattggaa caggaaaccc 721 ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt gtgcactttg 781 tcttcactat tcaccagacc cattaaggat ataataggga agttgaaacc tcttaacatc 841 cttaacattc tggctacatg tgattggacc ttcgcaggca tagtggaatc tttaatactc 901 ttagcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc 961 ttactaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata 1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaattgg aaagatgctg 1081 tcatccgctg catccacttt aagagcttgc aaagaccttg gtgcatacgg actggaaatc 1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg 1201 gtgagatcca tcgaggacgc agtgctagac ctcgaggcaa ttgaaaacaa ccacatgacc 1261 accctactca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag 1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac 1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa agaagagctc 1441 tccagcaggc cgagacctgt cgttgtgatg atatcgggaa gaccagggat agggaaaact 1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg 1561 ggccttatcc cacgcaatgg tgtcgatcac tgggacgcat acaagggcga aagagttgtc 1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt 1681 gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg gaaagtcttt 1741 gacagtgatg ccataattat caccaccaat ctggccaatc cagcaccact ggattatgtc 1801 aactttgaag cgtgctcgag acgtattgac ttcctcgtgt acgcagaagc ccctgaggtg 1861 gagaaggcaa agcgcgactt cccaggccaa cctgacatgt ggaagaacgc tttcagtcct 1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac 1981 accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat cgcccgagca 2041 tcagggttac tccatgagag gctagatgaa tatgaactgc aaggcccagc cctcaccact 2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat 2161 gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac 2221 ctcaaacaga cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtagc 2281 acctacacac ttgaggccga tggcaagggt agtgtgaaag ttgacaaagt gcaaagtgcc 2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc 2401 aggtactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct 2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg gtccaaacca 2521 caggtggaag acacagaaga gatgaccaac aaagatggtt gcctaaaacc caaagatgat 2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag 2641 tccggccgtg gcaagaagca cacagccttt tcaagcaaag ggctcagtga tgaggaatac 2701 gatgagtaca agagaattag agaagaaagg aatggtaagt attccataga agagtacctt 2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc 2821 tgtgaggaag aagaggccaa aatccggcag agaatcttca gaccaacaag gaaacaacgc 2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca 2941 gaagacttca aacccaaggg aaaactgtgg gctgatgatg acagaagtgt tgactacaat 3001 gagaaactca attttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca 3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa 3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa atcaggtgaa 3181 ttctgccgat tgagattccc aaagccaatc agaactgatg tgacgggcat gattctagaa 3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatta agagaccaac tggagagctc 3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcaccgtt 3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca 3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata 3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccaggggggt 3541 gagggagaag ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc 3601 ttgggcccag ggagcgctcc gaagctcagt accaagacta agttttggag atcatcgaca 3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggtaaaga ccccagagtt 3721 aaaggtggcc cttcattgca acaagttatg agggaccagc taaaaccatt cacagaaccc 3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc 3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt 3901 gacaaaacca cctccagcgg ccacccgcac catatgcgga aaaacgattg ttggaatggg 3961 gagtccttca cgggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag 4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat 4081 aaagtttatg gtaagatcaa aaagaggctt ctgtggggtt cagacctggc gaccatgata 4141 cggtgcgccc gagcttttgg aggccttatg gatgaactca aggcgcactg tgtcacactt 4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatctttga gaagcactcc 4261 agatatagat accactatga tgctgattat tcccggtggg actcaacaca acaaagggat 4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag 4381 gtagttgcag aagaccttct ttcccctagc gtgatggatg taggtgactt tcaaatatca 4441 ataagtgagg gtcttccctc tggggtacct tgtacctccc agtggaattc catcgcccac 4501 tggctcctca ctctttgtgc actctctgaa gtcacggacc tgtctcctga catcattcag 4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg 4621 gacccagaga agctgacagc aaaactcaag gagtacgggc taaaaccaac tcgccccgac 4681 aaaactgagg gaccccttgt tatctctgaa gacctggatg gcctgacatt cctccggaga 4741 actgtgaccc gtgatccggc tggctggttt ggaaaattgg aacaaagttc aattattaga 4801 caaatgtact ggaccagagg tcccaaccat gaagatccat ttgaaacaat gataccacac 4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccagca 4921 ttttatagca aaatcagcaa attagtcatt gcagagttga aggaaggtgg catggatttt 4981 tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg 5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa 5101 cccatctaat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct 5161 ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa atgtaattga 5221 cccctggatt agaaataatt ttgtacaagc ccctggcgga gagtttacag tatcccctag 5281 aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctacct 5341 atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaatact 5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc 5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgtcag 5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattataa 5581 tcaatcaaat gaccccacta ttaagttgat agcaatgttg tatacaccac ttagggctaa 5641 taatgctggg gatgatgtct ttacagtttc ttgccgggtt ctcacgagac catcccccga 5701 ttttgatttc atatttctag tgccacccac agttgaatca agaaccaaac cattctctgt 5761 cccagtttta actgttgagg agatgaccaa ttcaaggttc cccattcctc tggaaaagtt 5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggcaggt gcacgactga 5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaat atctgtacct tcagaggaga 5941 tgtcacccat atcacaggta gtcataatta cacaatgaat ttggcttctc aaaattggaa 6001 caattatgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa 6061 gattcaaggc gtgctcaccc aaaccacaag gacagatggc tcaacacgcg gccacaaagc 6121 cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc agtttgaaac 6181 tgacacaaac catgattttg aagccaacca aaatacaaag ttcaccccag tcggtgtcat 6241 ccaagatggt agcaccaccc atagaaatga accccaacag tgggtgctcc caagttactc 6301 aggcagaaac actcataatg tgcatctggc ccccgctgta gcccccactt ttccgggtga 6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccta acatggattt 6421 ggactgtctg ctcccccagg aatgggtaca gtacttctac caagaggcag ccccagcaca 6481 atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggtct tgtttgagtg 6541 taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg atttggttat 6601 tccccccaat ggttatttta gatttgattc ctgggtcaac cagttttaca cgcttgcccc 6661 catgggaaat ggaacggggc gtagacgtgc agtataatgg ctggagcttt ctttgctgga 6721 ttggcatctg atgtcctggg ctctggactt ggctccctta tcaatgctgg ggctggggcc 6781 atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc cttccaattt 6841 agcagcaatc tacaacaggc ttcctttcaa cacgacaaag agatgctcca agcacaaatt 6901 gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat gctcctagag 6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct 7021 ttggactgga gcgggacaag gtactgggct cccgatgcta ggaccacaac atacaatgca 7081 ggccgctttt ccacccctca accatcgggg gcactgccag gaagagctaa tcttagggat 7141 gctgtccctg ctcggggttc ctccagtaaa tcttctaact cttctactgc tacttctgtg 7201 tactcaaatc aaaccacttc aacgagactt ggttctacag ctggttctgg caccagtgtc 7261 tcgagcctcc cgtcaactgc aaggaccagg agctgggttg aggatcaaag taggaattta 7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc 7381 tctagccaag gcacagtctc aaccgtgcct aaagaggttt tggactcctg gactggcgct 7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggcg 7501 taa //