Typing tool
|
Complete norovirus genomes
MK789434 | GII.4 Sydney | ||
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GII.P4 New Orleans |
ORF1: 1..5093 ORF2: 5074..6696 ORF3: 6696..7502LOCUS MK789434 7540 bp RNA linear VRL 20-APR-2019 DEFINITION Norovirus GII isolate 3546 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK789434 VERSION MK789434.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7540) AUTHORS Santiso-Bellon,C., Fuentes-Trillo,A., Vila-Vicent,S., Monzo,C., da Silva Ribeiro de Andrade,J., Gozalbo Rovira,R., Buesa,J., Chaves,F.J. and Rodriguez-Diaz,J. TITLE Nearly Complete Genome Sequences of Human Norovirus from Valencia (Spain) JOURNAL Unpublished REFERENCE 2 (bases 1 to 7540) AUTHORS Santiso-Bellon,C., Fuentes-Trillo,A., Vila-Vicent,S., Monzo,C., da Silva Ribeiro de Andrade,J., Gozalbo Rovira,R., Buesa,J., Chaves,F.J. and Rodriguez-Diaz,J. TITLE Direct Submission JOURNAL Submitted (12-APR-2019) Microbiology and Ecology, University of Valencia, Avenida Blasco Ibanez 17, Valencia, Valencia 46010, Spain COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. v3.11.1; MEGAHIT with CD-HIT v. v1.1.3 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7540 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="3546" /isolation_source="stool sample" /host="Homo sapiens" /db_xref="taxon:122929" /country="Spain: Valencia" /collection_date="Sep-2016" /note="genotype: GII.P4.NewOrleans2009_GII.4.Sydney2012" gene <1..5093 /gene="ORF1" CDS <1..5093 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QCA41770.1" /translation="ASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQP PPREKSQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESN TAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAK VELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRP LNILNILASCDWTFAGIVESLILLAELLGVFWTPPDVSAMIAPLLGDYELQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKR IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT LNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKR DFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL LHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLRDVKTMPEL KQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCAR IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPKP KDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGS EIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLF ITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVV TLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGS APTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGK PPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE SFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATM IRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQ QRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYG LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHG DPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..983 /gene="ORF1" /product="p48" mat_peptide 984..2081 /gene="ORF1" /product="NTPase" mat_peptide 2082..2618 /gene="ORF1" /product="p22" mat_peptide 2619..3017 /gene="ORF1" /product="VPg" mat_peptide 3018..3560 /gene="ORF1" /product="Pro" mat_peptide 3561..5090 /gene="ORF1" /product="RdRp" gene 5074..6696 /gene="ORF2" CDS 5074..6696 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QCA41771.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEASQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV" gene 6696..7502 /gene="ORF3" CDS 6696..7502 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QCA41772.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRTNLRDTVPARGSSSKSF NSSTVTSVHSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRSLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tggcgtctaa cgacgcttcc gctgccgctg ttgctaacag caacaacgac accgcaaaat 61 cttcaagtga cggagtgctt tctagcatgg ctgtcacttt taaacgagcc ctcggggcgc 121 ggcctaaaca gcctcccccg agggaaaaat cacaaagacc cccacgacca cccacaccag 181 aactggttaa aaatattccc ccccccccac ccaacggaga ggacgaaata gtggtttctt 241 atagtgttaa agatggtgtt tccggcttgc ctgacctttc caccgtcagg cagccggaag 301 aatccaacac ggccttcagt gtccctccac tcaatcagag ggagaataga gatgctaagg 361 aaccactcac tggaacaatt ctggaaatgt gggacgggga gatctaccat tatggcctgt 421 atgtggagcg aggtcttgta ctaggcgtgc acaaaccccc agctgccatc agcctcgcta 481 aggttgagtt agcaccactt tccttgtact ggagacctgt gtacactcct cagtacctta 541 tctctccgga cactctcaag aaattgtccg gagaaacgtt cccctacaca gcctttgaca 601 acaactgcta tgccttttgt tgctgggtcc tggacctaaa tgactcgtgg ctgagcagga 661 gaatgatcca gagaacaact ggtttcttca ggccctacca agactggaat aggaaacccc 721 tccccactat ggatgactcc aaaataaaga aggtggctaa catatttctg tgtgctctgt 781 cctcgctatt caccaggccc ataaaagata taatagggaa gataaggcct cttaacatcc 841 tcaacatctt agcctcatgt gattggacct ttgcgggcat agtggagtcc ctgatactct 901 tggcagaact ccttggagtt ttctggacac ccccagatgt gtctgcgatg attgccccct 961 tacttggtga ctacgagcta caaggacctg aggaccttgc agtggagctc gtccccgtgg 1021 tgatgggggg aattggtttg gtgctaggat tcaccaaaga aaagattggg aaaatgttgt 1081 catcagctgc gtccacctta agagcttgca aagaccttgg tgcgtatggg ctagagatcc 1141 taaagttagt catgaagtgg ttcttcccga agaaggagga ggcaaatgag ctggctatag 1201 tgaggtccat cgaggatgca gtcctggatc tcgaagcaat tgaaaacaat catatgacca 1261 ccttgctcaa agataaagac agtctggcaa cctacatgag aacacttgac cttgaagagg 1321 agaaagccag gaaactctca accaaatctg cctcacccga tatcgtgggc acaatcaacg 1381 ccctcctggc gagaatcgct gccgcacgtt ctctggtgca tcgagcgaag gaggagcttt 1441 ccagcagacc aagacctgtg gtgttgatga tatcaggcag gccaggaata gggaagaccc 1501 accttgctag ggaagtggct aagagaatcg cagcctccct tacaggagac caacgtgttg 1561 gtctcatccc acgcaatggc gtcgaccatt gggatgcgta caagggggag agggtcgtcc 1621 tatgggacga ttatggaatg agcaacccta ttcacgatgc cctcaggctg caagaactcg 1681 ctgacacttg ccccctcact ctgaactgtg acaggattga aaataaagga aaggtctttg 1741 acagcgatgt catcattatc accaccaatc tggccaaccc agccccactg gactatgtca 1801 actttgaagc atgctcgagg cgcattgact tcctcgtgta tgcagaagcc cctgatgtcg 1861 aaaaggcgaa gcgtgacttc ccaggccaac ctgacatgtg gaagaacgct ttcagttctg 1921 atttctcaca cataaaacta gcactggccc cacagggtgg tttcgacaag aacgggaaca 1981 ccccacacgg aaagggcgtc atgaagactc tcaccactgg ctcccttatt gcccgggcat 2041 cagggctact ccatgagagg ttagatgaat ttgaactgca gggtccagct ctcaccacct 2101 tcaatttcga tcgcaataaa gtgcttgcct ttagacagct tgctgctgaa aataaatatg 2161 gattgatgga cacaatgagg gttgggaaac agctcaggga tgtcaaaacc atgccagaac 2221 tcaaacaagc actcaagaat gtctcaatca agaagtgtca aatagtgtat agtggttgca 2281 cctacatgct tgagtctgat ggcaagggca atgtgaaagt tgacaggatc caaagcgccg 2341 ccgtgcagac caacaatgag ctggctggtg ccctgcacca cttgaggtgc gccagaatca 2401 gatactatgt caagtgtgtc caggaagccc tgtattccat cattcaaatt gctggggctg 2461 catttgtcac cacgcgcatt gccaagcgca tgaacataca ggacctatgg tccaagccac 2521 aagtggaaaa cacagaggag actaccagca aggacgggtg cccaaaacct aaggatgatg 2581 aggagtttgt catttcatcc gacgacatca aaactgaggg caagaaaggg aagaacaaga 2641 ctggccgtgg caagaagcac acagcatttt caagcaaagg cctcagtgat gaagagtacg 2701 atgaatacaa gaggatcagg gaagaaagga atggcaagta ctctatagaa gagtaccttc 2761 aggacaggga caaatactat gaagaggtgg ccattgccag agcgactgag gaagacttct 2821 gtgaagagga ggaagccaag atccgacaaa ggatctttag gccaacaagg aaacaacgca 2881 aggaggaaag agtctctctc ggtttggtca caggttctga aattaggaaa agaaacccag 2941 atgacttcaa acccaagggg aaattgtggg ctgacgatga caggagtgtg gactacaatg 3001 agaaactcag ttttgaggcc ccgccaagca tttggtcaag aatagtcaac tttggttcag 3061 gctggggatt ctgggtctcc cccagcttgt tcataacatc aacccatgtt ataccccagg 3121 gcgcaaagga gttctttgga gtccccatca aacaaataca ggtacacaag tcaggcgagt 3181 tctgtcgctt gagattccct aaaccaatta ggactgatgt gacgggcatg atcttagaag 3241 aaggcgcacc tgagggcacc gtggttacac tactcatcaa aaggtccact ggggaactta 3301 tgcccctagc agctaggatg gggacccatg cgaccatgaa gatccaaggg cgcactgttg 3361 ggggccagat gggcatgctt ctgacaggat ccaacgccaa gagtatggac ctgggtacca 3421 cgccaggtga ttgtggctgc ccctacatct ataagagagg taacgactat gtggtcattg 3481 gggtccacac ggctgccgca cgcgggggga acactgtcat atgtgccacc caggggagtg 3541 aaggagaggc tacacttgag ggtggtgaca acaaggggac atactgtggt gcaccaatcc 3601 taggcccagg gagtgcccca acacttagca ccaagaccaa attctggagg tcgtccacag 3661 catcactccc acctggcacc tatgaaccag cctatcttgg tggcaaggac cctagagtca 3721 agggtggccc ttcgctgcag caagtcatga gggaacagtt gaagccattc acggagccca 3781 ggggtaagcc accaaagcca agtgtgttag aagctgccaa gaaaaccatc attaatgtcc 3841 ttgagcaaac aattgatcca cctgagaaat ggtcgttcgc acaagcttgc gcgtctcttg 3901 acaagaccac ttccagtggc catccgcacc acatgcggaa aaacgactgc tggaacgggg 3961 agtccttcac aggcaagctg gcagaccagg cttctaaagc caacctgatg tttgaagaag 4021 ggaagaacat gaccccagtc tacacagctg cgctcaagga tgagttagtt aaaactgaca 4081 agatttatgg taagatcaag aagaggcttc tttggggctc ggacttggcg accatgatcc 4141 ggtgtgctcg agcattcgga ggcctaatgg atgaactcaa agcgcattgt gtcacacttc 4201 ccattagagt tggcatgaat atgaatgagg atggccctat catctttgag aggcattcca 4261 ggtacacgta ccactatgat gctgattact ctcgatggga ttcaacacaa cagagagccg 4321 tgttggcagc agctttagaa atcatggtaa aattctcccc agaaccacat ttggctcagg 4381 tagttgctga agaccttctt tctcctagcg tggtggacgt gggcgacttc acaatatcaa 4441 tcaacgaggg cctcccctct ggggtgcctt gcacctccca atggaactcc atcgcccact 4501 ggcttctcac tctctgtgcg ctctccgaag tcacaaacct gtctcctgat accatacagg 4561 ctaattccct cttctctttt tatggtgatg atgaaattgt tagcacagac ataaaattgg 4621 acccagagaa attgacagca aagctcaaag aatatgggct aaagccaacc cgccctgaca 4681 aaactgaagg accccttgtc atctctgaag acctggatgg cctaactttc ctgcggagaa 4741 ctgtgacccg cgacccagct ggttggtttg gaaaactgga gcagagctca atactcaggc 4801 aaatgtactg gactaggggt cccaaccatg gagacccatc tgaaacaatg attccacact 4861 cccaaagacc catacaattg atgtccctac tgggggaggc cgctctccac ggcccagcat 4921 tttacagtaa aattagtaaa ttggtcattg cagagctaaa agaaggtggt atggattttt 4981 acgtgcccag acaagagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg 5041 agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac 5101 ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg 5161 gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac 5221 ccctggatta gaaataattt tgtacaagcc cctggtggag agtttacagt gtcccccaga 5281 aacgctccag gtgaaatact atggagcgcg cccttaggcc ctgatttaaa tccctaccta 5341 tcccatttgg ctagaatgta taatggttat gcaggtggtt ttgaagtgca ggtaattctc 5401 gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaatttccca 5461 actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt agatgttagg 5521 caattagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta tcattataat 5581 caatcaaatg accccaccat taagttgata gcaatgttgt acacaccact tagggctaat 5641 aatgctgggg acgatgtctt cacagtttct tgccgagttc tcacgagacc atcccccgat 5701 tttgatttca tatttctagt accacctaca gttgagtcta gaactaaacc attctctgtc 5761 ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattcctct ggaaaagttg 5821 ttcacgggtc ccagcagtgc ctttgttgtt caaccacaaa acggtaggtg cacgactgat 5881 ggcgtgctcc taggcaccac ccaattgtct cctgtcaaca tctgcacctt cagaggggat 5941 gtcacccaca ttacaggtag tcgtaactac acaatgaatt tggcttctca aaattggaac 6001 aattatgacc caacagaaga aatcccagcc cctctaggag ctccagattt tgtggggaag 6061 attcaaggca tgctcaccca aaccacaagg gcagatggct caacacgcgg ccacaaagcc 6121 acggtgtaca ctgggagcgc cgactttgct ccaaaactgg gcagagttca atttgaaact 6181 gacacagacc atgattttga agctagccaa aacacaaagt tcaccccagt cggtgtcatc 6241 caagacggca gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc aagttactca 6301 ggcagaaata ctcataatgt tcatctggcc cccgctgtag cccctacttt tccgggtgag 6361 caactcctct tctttaggtc cactatgccc ggatgtagcg ggtaccccaa catggatctg 6421 gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc cccagcgcaa 6481 tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgt 6541 aaactccata aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc 6601 ccccccaatg gttattttag gtttgattcc tgggtcaacc agttctacac gcttgccccc 6661 atgggaaatg gagcggggcg tagacgtgta gtataatggc tggagctttc tttgctgggt 6721 tagcatctga tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca 6781 tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta 6841 gcagcaatct acaacaggct tcctttcaac atgacaaaga aatgctccaa gcacaaattg 6901 aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg ctcctagagg 6961 gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg acaaaagctt 7021 tggactggag cgggacaagg tactgggctc ctgatgctag gactacaaca tacaatgcag 7081 gccgcttttc cacccctcaa ccatcggggg cactgccagg aagaactaat cttagggata 7141 ctgtccctgc tcggggttcc tctagtaaat cttttaactc ttctactgtt acttctgtgc 7201 actcaaatca aaccacttca acgagacttg gttctacagc tggttctggt accagtgtct 7261 cgagtctccc gtcaactgca aggactagga gctgggttga ggatcaaagt aggagtttgt 7321 ctcctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct agcagatcct 7381 ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg actggcgctt 7441 tcaacacgcg caggcagcct ctcttcgctc acattcgtaa acgaggggag tcacgggtgt 7501 aatgtgaaaa gacaaaattg attatctttc tttctcttta //