Typing tool
|
Complete norovirus genomes
MK073894 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7499LOCUS MK073894 7499 bp RNA linear VRL 07-FEB-2019 DEFINITION Norovirus GII.4 isolate Hu/USA/2016/GII.P16-GII.4 Sydney/Nashville-0085 nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds. ACCESSION MK073894 VERSION MK073894.1 DBLINK BioProject: PRJNA322324 KEYWORDS . SOURCE Norovirus GII.4 ORGANISM Norovirus GII.4 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7499) AUTHORS Steece,R., Moore,C., Britt,N., Kellem,R., Marine,R. and Castro,C.J. TITLE Direct Submission JOURNAL Submitted (19-OCT-2018) Polio and Picornavirus Laboratory Branch, Centers for Disease Control and Prevention, 1600 Clifton Rd. NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.9 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7499 /organism="Norovirus GII.4" /mol_type="genomic RNA" /isolate="Hu/USA/2016/GII.P16-GII.4 Sydney/Nashville-0085" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:489821" /country="USA: TN, Nashville" /collection_date="25-May-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="AZJ17768.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQSAPRDEPQKPPRPPTPELVKRIPPPPPNGDGEEEPIIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLASALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT 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="AZJ17769.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6703..>7499 /gene="ORF3" CDS 6703..>7499 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AZJ17770.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKQGES" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag 61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagtc tgccccgaga gacgaaccac aaaagccccc aagaccacca 181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgacgg agaagaagaa 241 ccaatcatta 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 attagcatgg caagagtgga gctgacgccg ctgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaactctc aggaggctca acggagaggc gttcccttac 601 accgccttcg acaacaactg ctatgctttt tgctgctggg tgttagacct caatgactca 661 tggcttagta ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaagc ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc 781 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag 901 tctctgatat tacttgctga actcttcgga gttttctgga cgcccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagatct cgccgttgaa 1021 ctcgtacctg tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggcct gcaaagatct tggtgcctat 1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcca tggtgagggc catagaggat gccgttctag atcttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacgatca acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagcag gatgagacca gtggttgtta tgatatctgg caaaccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg 1561 gaccaaagag tcggactcat accaagaaac ggtgtggacc attgggatgc gtacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ccattcatga tgctcttcgc 1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca 1801 cttgattatg tcaacttcga ggcctgttcc aggagaattg atttcctggt gtacgctgag 1861 gcaccagaag tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggac 1921 gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc 2101 acaatcacca ccttcaattt cgaccggaac agaatcacag cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaactaaa aggagtgaaa 2221 accatggaag aactaaaaca agcaatcaga aatgtgacca tcaagaggtg ccggatcatc 2281 tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaacaac gagttggccg gggccctgca ccatctcaaa 2401 cacgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaattaga tcaaaatgaa tcagagacta aggaagaggc ccccaaatca 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 cacggaagaa 2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa 2881 caaagaaagg aagagagggc cacattagga ctggtaacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac 3001 tataatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc 3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca 3181 ggtgaatttt gccgattcag attcccaaaa ccaattagac cagacgtgac aggaatgatc 3241 ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg 3421 ggaacaactc ctggtgactg tggctgccct tacatctaca aaaggggcaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgcggggca 3601 cccattctag gccctggggg tgcaccaaag ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc ccctcccacc agggacatat gagcctgcct acctcggtgg ccgcgatccg 3721 cgtgttaagg gtgggccctc cttgcagcag gtaatgagag accagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccattatc 3841 aatgtcctcg aacaaaccct ggatcctcca caaaaatgga catacgcaca ggcgtgtgcc 3901 tcacttgaca aaaccacttc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg caaattggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacacatgac accagtgtat acagcagcac tcaaggacga actagtcaag 4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggctctga cttatccacc 4141 atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata 4201 tcactcccag tacgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat acaaatacca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagtac tagcatcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 gcacagatag tcgctgagga tctgctggcc cctagcgtag tagatgtagg agactttaaa 4441 atcacaataa atgaagggct cccatctggt gtgccatgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata 4621 aaattggacc ctgaacagtt aaccgccaag ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaga ccgagggacc cctgatcatc agtgaagatt tgaacggact cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag atcccaatga gacaatgata 4861 ccccactctc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct acagtagaat tagtaaattg 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 ccccagaaac gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaaccc 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 atgttgtaca caccacttag 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 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagatcatg attttgaagc taatcaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtagca ccacccatcg aaatgaaccc caacagtggg tgctcccaag 6301 ttactcaggc agaaatactc acaatgtaca tctggccccc gctgtagccc ccacctttcc 6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggct actttaggtt tgattcctgg gtcaaccagt tctatacgct 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 tttcaacatg ataaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caattaacgc ccccatgaca 7021 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg tccctgctcg gggaccctcc aacaagtctt ctaactcttc tactgccacc 7201 tctgtgtatt caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc 7261 agtgtctcga gcctcccgtc aactgcaaga actaggagct gggttgagga tcaaaatagg 7321 aatttgtcac ccttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc 7381 agatcctcta gtcaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagca aggggagtc //