Typing tool
|
Complete norovirus genomes
MT158855 | GII.2 | ||
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GII.P16 |
ORF1: 1..5100 ORF2: 5081..6709 ORF3: 6709..7488LOCUS MT158855 7488 bp RNA linear VRL 08-APR-2021 DEFINITION Norovirus GII isolate 35-GII.P16-GII.2 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MT158855 VERSION MT158855.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7488) AUTHORS Li,Q., Yao,P., Jiang,J., Mao,X., Wang,F. and Zhang,W. TITLE Molecular identification of emergent GII.Pe-GII.4 and GII.P17-GII.17 norovirus genotypes, China, 2019 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7488) AUTHORS Li,Q., Yao,P., Jiang,J., Mao,X., Wang,F. and Zhang,W. TITLE Direct Submission JOURNAL Submitted (08-MAR-2020) Performance management office, Shanghai Public Health Clinical Center, No. 2901 Caolang Road, Shanghai 201508, China COMMENT ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7488 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="35-GII.P16-GII.2" /isolation_source="Anal swab" /host="Homo sapiens" /db_xref="taxon:122929" /country="China" /collection_date="08-Nov-2018" /note="genotype: GII.P16-GII.2" gene 1..5100 /gene="ORF1" CDS 1..5100 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QII23008.1" /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPRDKTQKPPRPPTPELVRRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKVGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLTQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE 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..6709 /gene="ORF2" CDS 5081..6709 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QII23009.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFEFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IVSQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDIEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6709..7488 /gene="ORF3" CDS 6709..7488 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QII23010.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaaa 61 gaaaaatctt caggtgaagg cttatttaca aatatgtctt ccaccttaaa gaaagccctc 121 ggggctaggc ccaaacagcc tgccccgaga gacaaaacac aaaagccccc aagaccacca 181 actcccgagt tggtcaggag gataccccct cctccaccta acggcgaaga agaagaagag 241 ccagtcatta ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc 301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac 361 agggaggcca aggagccgct aacaggggca atattagaga tgtgggatgg agagatatac 421 cactatggtc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc 481 ataagcatgg caagagtgga gctgacgccg ttgtcattgt actggcgtgt ggtgtacact 541 ccccaatacc tcatctcccc tgaaaccctc aggaggctca acggagaggc attcccttac 601 accgcctttg acaacaactg ctatgccttt tgctgctggg tgttagacct caatgactca 661 tggcttagta ggagaatggt acaaaggaca acgggcttct tcagacctta ccaagagtgg 721 aacagaaaac ccctgcctac catggatgac tccaaaatta agaaggtagc aaatatattc 781 ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa 841 ccattgaaca tactgaatat cctggcaacg tgtgactgga cttttgccgg aatagtggag 901 tctctgatat tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct 961 atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgtcgaa 1021 ctcgtacctg tggtaatggg ggggattggt ttggtgttgg gattcaccaa agagaaagtt 1081 ggcaaaatgt tgtcctcagc agcatcaaca ctcagggctt gcaaagatct tggtgcctat 1141 ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat 1201 gagctagcta tggtgagggc catagaggat gctgtactag accttgaggc aatagaaaat 1261 aaccacatga caaccctgtt gaaagataaa gacagcttag caacatacat gaaaacactg 1321 gacatggagg aggagaaagc caggaggttg tccacaaaat ctgcatcccc tgacatagtt 1381 gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc 1441 aaggaagagc tatctagtag gataaggcca gtagttgtta tgatatctgg caagccagga 1501 ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac actcacaggg 1561 gatcaaagag tcggactcat accacgaaac ggtgtggacc attgggatgc atacaaaggt 1621 gagagagtcg tgctgtggga cgactatggc atgagtaacc ctattcatga tgctcttcgc 1681 atacaagaat tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag 1741 ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca 1801 cttgattatg tcaactttga ggcctgctcc aggagaattg acttcctggt gtacgctgat 1861 gcaccagaag tagaaaaggc aaaacgggac tttcctggtc agccagatat gtggaaggat 1921 gccttcaagc cggacttttc acacatcaag ctacagcttg caccccaggg cggctttgac 1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg 2041 attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggcccc 2101 acaatcacca ccttcaattt cgaccgaaac agaatcacgg cattcagaca attggctgca 2161 gaaaacaagt atggattggt ggataccatg aaagttggca atcaattaaa aggagtgaaa 2221 accatggaag aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccagatcatc 2281 tacggtggtt ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag 2341 gtcaagaaca cctctgtaca gaccaataat gagttggctg gggccctgca ccatctcaaa 2401 catgcccgaa tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatacaa 2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc 2521 tggtcgaagc cacaactaga tcaaaatgaa tcagagacta aggaagaggc ccccaagtca 2581 gaagatgacg agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa 2641 aataaaactg gccgtggcaa gaaacacact gcattctcca gcaaaggctt 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 cacattaggg ctagtaacag gttcagaaat cagaaaaaga 2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag gagtgttgac 3001 tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt 3061 ggctctggct ggggcttctg ggtgtcacca agccttttca taacatcaac tcatgtaatc 3121 cccgcaggca taacagaagc atttggggtc tccatcaaac aaattcagat ccacaaatca 3181 ggcgaatttt gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc 3241 ttggaagaag gtgcgcctga gggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga 3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc 3361 atggttggcg gacagatggg tatgttgctc actggatcaa atgctaaagg aatggacttg 3421 ggaacaactc ctggtgactg tggctgtcct tacatctata aaaggggcaa tgactatata 3481 gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ctgtcatctg tgccacacag 3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca 3601 cccattctag gccctggggg tgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca 3661 tcgaacacgc cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgatccg 3721 cgtgttaagg gtgggccttc cctgcagcag gtgatgagag accagttgaa gccattcact 3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagccaaaca aaccatcatc 3841 aatgtcctcg aacaaaccct ggaccctcca caaaaatggt catacgcaca ggcttgtgcc 3901 tcacttgaca aaaccacctc cagcgggcac ccccatcacg tccgaaagaa tgaattctgg 3961 aatggtgaga ccttcactgg taaactggca gaccaagcat caaaagcaaa cctaatgttt 4021 gaggaaggga aacacatgac accagtgtac acagcagctc tcaaggacga gctagtcaag 4081 actgagaaaa tctatggaaa gatcaagaag agactgctct ggggttctga cttgtccacc 4141 atgatccggt gcgctaggtc atttggtggg cttatggacg agatgaaggc acactgcata 4201 tcactcccag tccgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa 4261 cattccagat ataaatatca ctatgatgca gactactctc gttgggattc aacacaacag 4321 agggcagttc tagcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg 4381 acacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa 4441 attacaataa atgaagggct cccttctggt gtgccatgca cttctcaatg gaactccatc 4501 gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt 4561 atacaggcaa attccatgtt ctcattttac ggtgatgacg agatcgtcag taccgacata 4621 aaattggacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc 4681 ccagacaaaa ccgagggacc cctgattatc agtgaagatt tgaacggtct cactttcctc 4741 cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt 4801 ttgaggcaga tgtactggac tagaggacca aatcatgaag accccaatga gacaatgata 4861 ccccattccc aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga 4921 ccctctttct acagtaaaat cagtaaattg gtcataactg aactcaaaga aggtgggatg 4981 gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgagattttc tgacttgagc 5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga 5101 cgccgctcca tctactgatg gcgcagccgg cctcgtgcca gaaagtaaca atgaggtcat 5161 ggctcttgaa cccgtggctg gtgccgcctt ggcagccccg gtcaccggtc aaacaaatat 5221 tatagaccct tggattagag caaattttgt ccaggccccc aatggtgaat ttacagtctc 5281 tccccgaaat gcccctggtg aagtgctact gaatctagag ttgggtccag aattaaatcc 5341 ttatctggca catttagcaa gaatgtacaa tggatatgcc ggtgggatgg aggtgcaggt 5401 catgttggct gggaacgcgt tcacagccgg caagttggtc ttcgccgccg tgccacccca 5461 cttcccggtt gaaaacctta gcccacagca aatcaccatg ttccctcatg tgatcataga 5521 tgtgagaacc ttggaacctg ttttattacc actccctgat gttaggaata acttcttcca 5581 ttataaccag aaagatgatc ccaagatgag aattgtggct atgctttata cccccctcag 5641 gtctaatggt tcaggtgatg atgtgtttac agtctcctgt agagtgttga ctagaccttc 5701 ccctgacttt gaattcacat acctggtgcc accaacagtg gagtctaaaa caaagccatt 5761 caccctccca atcctcacac ttggggaact ttccaattct aggttcccag tgtccataga 5821 ccagatgtac accagcccca atgaaattat atcagtgcag tgtcaaaatg gtaggtgcac 5881 actggacggg gagctccaag ggacaacaca actccaagtc agtggcattt gtgctttcaa 5941 aggtgaggtg accgcccact tgcatgacaa tgatcaccta tataatgtca ccatcacaaa 6001 cttgaatggg tccccttttg atccctccga ggatatccct gcccctttgg gtgtgcctga 6061 cttccaggga agggtttttg gtatcgtctc ccaaagagat aaacacaata gtcctgggca 6121 taatgaacca gcaaacaggg gacacgacgc tgtggtccct acttacacag cacagtacac 6181 tccaaaactt ggacaaattc aaattggcac atggcaaact gacgacctta cagtcaacca 6241 accagtcaaa ttcaccccag ttggacttaa tgacattgaa cactttaacc aatgggtggt 6301 ccctaggtat gctggtgccc taaacctcaa tacaaacctt gccccttctg ttgctccagt 6361 atttccagga gagcgcctgc tcttcttcag atcatacatt cccctcaagg gcggttatgg 6421 aaacccagcc attgattgcc tactaccaca agagtgggtg caacacttct atcaggaagc 6481 agccccttca atgagtgagg tggccctcgt cagatacatc aacccggaca ctggtcgggc 6541 actgtttgag gccaagctcc acagagctgg tttcatgacg gtctcgagca acaccagtgc 6601 cccggtggtt gtgcctgcca acgggtactt cagatttgat tcttgggtga accaatttta 6661 ttctctcgcc cccatgggaa ctgggaatgg gcgtagaagg gttcaataat ggctggagct 6721 tttgtagctg gtcttgcagg ggacgtgctc agcaatgggc ttagttcatt aatcaacgca 6781 ggtgctaatg caataaatca gagggcagaa ttcgatttta atcaaaaatt gcagcaaaat 6841 tcttttaatc atgataagga gatgttgcag gctcagattc aggcaactaa gcagctgcag 6901 gcagacatga tggctataaa acaaggggtc ttgaccgctg gcggcttttc ccctgctgat 6961 gcagccagag gtgctgtaaa cgcgcccatg acacaggcgc tggattggaa tggcacaagg 7021 tattgggcac caaactccat gaggaccaca tcttattctg gaaaattcac atcaaccgcc 7081 ccagtgaggc aggctgactt ccagcacacc caaagccggc cttcgagtgg ctcctctgtg 7141 tcttcctttg ccactcagtc ttcaaggcca actctgacca caaccactgg ttcctcacat 7201 ggcacagcct catcaaattc aactcgcagc acaagcctct cccaatcaac ggtctccaga 7261 gctacatcta ggactggtga gtgggtcaga gatcaaaata gaaatttgga accctacatg 7321 catggtgcct tacagacagc ctttgtcacc ccaccttcca gcagggcatc tgacgggaca 7381 gtctcaaccg tccctaaagg tgttttggac tcctggacac ctgcgtttaa cacccgcagg 7441 cagccgcttt ttgcacacct ccgtaagagg ggggagtcac aagcttag //