Typing tool
|
Complete norovirus genomes
OR844380 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7507LOCUS OR844380 7553 bp RNA linear VRL 29-NOV-2023 DEFINITION Norovirus GII isolate NGII.4/18794/Kyoto/Sep/2021-2022, complete genome. ACCESSION OR844380 VERSION OR844380.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7553) AUTHORS Hoque,S.A., Pham,N., Okitsu,S., Shimizu,Y.O. and Ushijima,H. TITLE Direct Submission JOURNAL Submitted (24-NOV-2023) Department of Pathology and Microbiology, Nihon University Graduate School of Medicine, Itabashi-ku, Itabashi-Ku, Itabashi 173-8610, Japan COMMENT ##Assembly-Data-START## Assembly Method :: SOAPdenovo v. May-2022 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7553 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="NGII.4/18794/Kyoto/Sep/2021-2022" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan" /collection_date="17-Sep-2021" /note="genotype: GII.4" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="WPK51435.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVVAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..994 /gene="ORF1" /product="p48" mat_peptide 995..2092 /gene="ORF1" /product="NTPase" mat_peptide 2093..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6707 /gene="ORF2" CDS 5085..6707 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="WPK51436.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6707..7507 /gene="ORF3" CDS 6707..7507 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="WPK51437.1" /translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGATN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRARDAVPARGSSSKSSNS SAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISF VTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga 61 catcgcaaaa tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc 121 cctcggggcg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc 181 acccacacca gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact 241 agtggtctct tacagcgcca aagatggcgt tttcggactg cctgagctca ccactgtcag 301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gagagagcag 361 agacgccaag gagccattaa ctggaacaat cattgaaatg tgggatggag aaatctacca 421 ttacggcctg tacgtggagc gaggtcttat acttggtgtg cacaagccac cagcagccat 481 cagcctcgcc aaggtcgagc tggcaccgct ctctttgttc tggagacctg tatacacccc 541 ccagtacctc atctctccag acactcttag gagattacat ggagagtcat tcccctacac 601 tgcatttgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcgtg 661 gctaagcagg agaatgattc agagaacaac aggcttcttc aggccgtacc aggattggaa 721 caggaaaccc ctccctacta tggatgattc caaattaaag aaggtagcta acatattctt 781 gtgcactttg tcttcactat tcaccagacc cattaaggat ataataggga agttgaaacc 841 tctcaacatc cttaatattc tggctacatg tgattggacc tttgcaggca tagtggaatc 901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat 961 gatcgccccc ttgctaggtg attatgaact gcaaggaccc gaggaccttg cagtggaact 1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg 1081 aaagatgctg tcatccgctg catccacttt aagagcttgc aaagaccttg gtgcatacgg 1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga 1201 actggctatg gtgagatcca tcgaggatgc agtgctagac ctcgaggcaa ttgaaaacaa 1261 ccacatgacc actctgctca aagacaaaga cagcttggca acctacatga gaacccttga 1321 ccttgaggag gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg 1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcgaa 1441 agaagagctc tccagcaggc cgagacctgt cgttgtaatg atatcgggaa gaccagggat 1501 agggaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga 1561 ccagcgtgtg ggccttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga 1621 aagagttgtc ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt 1681 gcaggagctt gctgacactt gtcccctcac gctaaattgt gacaggattg agaacaaggg 1741 aaaagtcttt gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact 1801 ggattatgtc aactttgaag cgtgctcgag acgcattgat ttcctcgtgt acgcagaggc 1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc 1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa 1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat 2041 cgctcgagca tcagggttgc tccatgagag gctagatgaa tatgaattgc aaggcccagc 2101 cctcaccact ttcaactttg accgcaacaa ggtacttgct tttagacagc ttgctgctga 2161 aaacaagtat gggctgatgg acacaatgag agttgggaaa cagctcaagg atgtcaagac 2221 tatgtcagac ctcaaacaag cacttaagaa catcgcgatc aagaagtgcc agatagtgta 2281 caacggtggc acctacacac ttgaggctga tggcaagggc aatgtgaaag ttgacaaagt 2341 gcaaagtgcc actgtgcaga ccaacaatga actagccggt gccctacacc acctaagatg 2401 cgctagaatc agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat 2461 cgctggggct gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg 2521 gtccaagcca caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc 2581 caaagatgat gaagagtttg tcgtttcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga 2701 tgaggagtac gatgagtaca aaagaatcag agaagaaagg aatggtaagt actccataga 2761 agagtacctt caggacagag acaggtacta cgaggaagtg gccattgcca gggcaaccga 2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag aggattttca gaccgacaag 2881 gaaacaacgc aaagaagaga gggcctctct cggcttggtc acaggatctg aaatcaggaa 2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt 3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa 3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt 3121 cataccccaa ggtgcaaaag aattcttcgg agtccctatc aagcaaattc agatacacaa 3181 gtcaggtgaa ttctgccgat tgagattccc aaagccaatc agaactgatg tgacgggcat 3241 gattctagaa gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac 3301 tggagagctc atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg 3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga 3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta 3481 cgtggtcata ggggtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac 3541 ccagggaagt gagggagagg ccacacttga aggaggtgac agtaaaggga catactgtgg 3601 cgcgccaatc ttgggcccag ggagcgctcc gaagctcagc accaagacta agttttggag 3661 atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga 3721 ccctagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt 3781 cacagaaccc agaggcaaac caccaaggcc aaatgtgttg gaagctgcca agaaaaccat 3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg 3901 cgcatccctt gacaaaacca cctccagcgg ccacccgcac cacatgcgga aaaacgactg 3961 ttggaatggg gagtctttca caggaaaatt ggctgaccaa gcctccaagg ccaacctaat 4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt 4081 aaagaccgat aaagtttatg gtagggtcaa gaagaggctt ctgtggggtt cagatctggc 4141 gaccatgata cggtgcgccc gagctttcgg aggcctcatg gatgaactca aggcacactg 4201 cgtcacactc cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatcttcga 4261 gaagcactcc agatatagat accactatga tgctgactat tcccggtggg actcaacaca 4321 acaaagggat gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca 4381 cctggcccag atagttgcag aagacctcct ctcccccagc gtgatggatg tgggtgactt 4441 tcaaatatca ataagtgagg gtctcccctc tggggtgcct tgtacctccc agtggaattc 4501 catcgcccac tggctcctca ctctatgtgc actctctgaa gtcacggacc tgtcccctga 4561 tatcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga 4621 cataaagttg gacccagaga ggctgacagc aaaactcaag gagtacgggc tgaaaccaac 4681 ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg gtctgacatt 4741 cctccggaga actgtgaccc gtgatccagc cggctggttt gggaaattgg aacaaagttc 4801 aattcttagg caaatgtact ggaccagggg tcccaaccat gaagacccat ttgaaacaat 4861 gataccacat tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca 4921 cggcccggca ttttacagca aagttagcaa attagttgtt gcagagttga aggaaggagg 4981 catggatttt tacgtaccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tgtcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa 5341 atccctactt atctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc 5401 aggtaattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag 5521 tagatgttag gcaattagaa cctgtgttga ttcccctacc cgatgttagg aataatttct 5581 atcattacaa tcaatcaaat gaccccacta ttaagttgat agcaatgttg tatacaccac 5641 ttagggctaa taatgctggg gatgatgtct tcacagtctc ttgccgagtt ctcacgaggc 5701 catcccccga ttttgacttc atatttctag tgccacccac agttgagtca agaactaaac 5761 cattctctgt cccagttttg actgttgagg agatgaccaa ttcaagattc cccatccctt 5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggtaggt 5881 gcacgactga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcgcct 5941 tcagaggaga tgtcacccac atcacaggta gtcataacta cacaatgaat ttggcttctc 6001 aaaattggag caattacgac ccaacagaag aaattccagc ccctctaggg actccagact 6061 ttgtggggaa gattcaaggc atgcttaccc aaaccacaag gacagatggc tcaacacgcg 6121 gccacaaagc cacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc 6181 aatttgaaac tgacacaaac aatgattttg aagctaacca aaacacaaag ttcaccccag 6241 ttggtgtcat ccaagatggt ggcaccaccc accgaaatga accccaacag tgggtgctcc 6301 caagttactc aggcaggaac actcctaatg tgcatctggc ccccgctgta gcccccactt 6361 ttccgggtga gcaactcctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca 6421 acatggattt ggattgtctg ctccctcagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgaatg taagcttcat aaatcaggct atgttacagt ggctcacact ggccaacatg 6601 atttggttat cccccccaat ggttatttca ggtttgattc ctgggtcaac cagttttaca 6661 cgcttgcccc catgggaaac ggagcggggc gtagacgtgc actataatgg ctggaacttt 6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggctccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataat agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca 6901 agcacaaatt gaggctacca aaaggttaca acaggaaatg atgaaagtta agcaggcaat 6961 gctcttagag ggtgggttct ctgagacaga tgcagcccgc ggggcgacca acgcccctat 7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac 7081 atacaatgca ggccgcttct ccacccccca accatcgggg gcgctaccag gaagagctag 7141 ggatgctgtc cctgctcggg gttcctctag taagtcttct aattcttctg ctgctacttc 7201 tgtgtactca aatcaaacta tttcaacgag acttggttct acagctggtt ctggtaccag 7261 tgtctcgagc ttcccgtcaa ctgcaaggac taggagctgg gttgaggatc agagtaggaa 7321 tttgtcacct ttcatgaggg gggcccacaa catatcgttt gtcaccccac catctagcag 7381 atcctctagt caaggcacag tctcaaccgt gcctaaagag attttggact cctggactgg 7441 cgcttttaac acgcgcaggc agccactctt cgctcacatt cgtaagcgag gggagtcacg 7501 ggtgtaatgt gaaaagacaa aattgatcat ctttcttttc tttagtgtct ttt //