Typing tool
|
Complete norovirus genomes
MN525275 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS MN525275 7544 bp RNA linear VRL 07-OCT-2019 DEFINITION Norovirus GII isolate JH28 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MN525275 VERSION MN525275.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7544) AUTHORS Juliana,H.M., Silva,L.D., Junior,E.C., Cardoso,J.F., Massafra,J.M., Lima,C.P. and Nunes,M.R. 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Analysis of Complete Genome Sequences of Norovirus from Brazil: Emerging Recombinant Strain GII.P16-GII.4 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7544) AUTHORS Juliana,H.M., Silva,L.D., Junior,E.C., Cardoso,J.F., Massafra,J.M., Lima,C.P. and Nunes,M.R. TITLE Direct Submission JOURNAL Submitted (01-OCT-2019) Virology, Instituto evandro Chagas, BR316, Ananindeua, Para 67030000, Brazil COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 8.1.9 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7544 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="JH28" /isolation_source="Human stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Brazil" /collection_date="29-Sep-2016" /note="genotype: GII.P16_GII.4" gene 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QEX93391.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRGEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVVRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKERIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDVFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKSKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMVLEEGAPEG TVVTVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGGEGEATLEGGDDKGTYCGAPILG PGSAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGDTFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 1..996 /gene="ORF1" /product="p48" mat_peptide 997..2094 /gene="ORF1" /product="NTPase" mat_peptide 2095..2625 /gene="ORF1" /product="p22" mat_peptide 2626..3024 /gene="ORF1" /product="VPg" mat_peptide 3025..3567 /gene="ORF1" /product="Pro" mat_peptide 3568..5097 /gene="ORF1" /product="RdRp" gene 5081..6703 /gene="ORF2" CDS 5081..6703 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QEX93392.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6703..7509 /gene="ORF3" CDS 6703..7509 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QEX93393.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFRHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGHFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc tgccccgaga ggcgaaccac aaaagccccc aagaccacca 181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa 241 ccagtcgtta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaaccctc aggaggctca acggagaggc gttcccttac 601 accgctttcg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca 661 tggcttagca ggaggatggt gcaaagaaca acgggcttct ttagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc 781 ttatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag 901 tctctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccctactcgg ggactacgag cttcaagggc cagaagacct cgccgttgaa 1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagagaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat 1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcca tggtgagggc catagaggat gccgtactag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aggagaaagc cagaaggttg tcaacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctgct ggcccgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagcag gataagacca gtagttgtta tgatatctgg caaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg 1561 gatcaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tactgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc 1681 atacaagaat tggctgatac gtgtcccctt acattaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca 1801 ctcgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac 1921 gtcttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcaccac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc 2101 acaatcacca ccttcaattt cgaccggaac agaatcacag cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtgaaa 2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc 2281 tacggtggct ccacgtatga ccttgagtct gatggcaaga gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gaattggctg gggccctgca ccatctcaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga ccaaaatgaa tcagagacta aggaagaggc ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag 2701 gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag 2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacagaagaa 2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa 2881 caaagaaagg aagagagggc cacattaggg ctggtaacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctatgggccg atgacaacag aagtgttgac 3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctagaat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc 3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca 3181 ggtgaatttt gccgattcag attcccaaaa ccaattaggc cagatgtgac aggaatggtc 3241 ttggaagaag gtgcgcctga aggcaccgtg gtaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgccaaagg aatggatttg 3421 ggaacaactc ctggtgactg tggctgtcct tacatttata aaaggggcaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag 3541 ggaggtgagg gtgaggcaac tcttgagggc ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccctgggag cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacctc cagcgggcat ccccaccacg tccgaaagaa tgaattctgg 3961 aatggtgaca ccttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacacatgac accagtgtac acagcagcac tcaaggacga gctagtcaag 4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc 4141 atgatccggt gcgctaggtc atttggtggg cttatggacg agatgaaggc acactgcata 4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat ataaatacca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtggg ggactttaaa 4441 atcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaagcaa actccatgtt ctcattttac ggtgatgacg agattgtcag caccgacatc 4621 aaattggacc ctgaacagtt aaccgccaag ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaga ccgagggacc cctgatcatc agtgaagact tgaacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata 4861 ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct acagtagaat cagtaaatta gtcataactg aactcaaaga aggtgggatg 4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat 5161 ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaagatcata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga 5521 tgttagacaa ttagaacctg tgctgattcc cttacccgat gttaggaata atttctatca 5581 ttacaatcag tcaaatgact ccactattaa gttgatagca atgttatata caccactcag 5641 ggctaataat gctggggatg atgttttcac agtttcgtgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga 5821 aaagttgttc acaggcccca gcagtgcctt tgttgttcaa ccacaaaacg gcaggtgcac 5881 aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag 5941 aggggatgtc acccacatca caggtagtcg caactacaca atgaatttgg cttctcaaaa 6001 ttggaacaac tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca 6121 caaagccaca gtgtacactg ggagcgccga ctttgctcca aaattgggta gagttcaatt 6181 tgaaactgac acagaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag 6301 ttactcaggc agaaatactc acaatgtgca tctggccccc gctgtagccc ccacctttcc 6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaggaatg ggtgcaatac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgtagta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctgca acaggcttcc tttcgacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca 7021 aaagctttgg actggagcgg gacaaggtac tgggctccag atgctaggac tacaacatac 7081 aatgcaggcc acttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg tccctgctcg gggaccctcc aacaaatctt ctaactcttc tactgctacc 7201 tctgtgtact caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc 7261 agtgtctcta gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc 7381 agatcctcca gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact 7441 ggcgctttta acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgggtgtgat gtgaaaagac aaaactgatt atttttcttt ttct //