Typing tool
|
Complete norovirus genomes
OP727607 | GII.4 Sydney | ||
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GII.P4 New Orleans |
ORF1: 1..5092 ORF2: 5073..6695 ORF3: 6695..7501LOCUS OP727607 7519 bp RNA linear VRL 01-NOV-2022 DEFINITION Norovirus GII isolate OBS3 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OP727607 VERSION OP727607.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7519) AUTHORS Kelly,D., Allen,D.J. and Iturriza-Gomara,M. TITLE Direct Submission JOURNAL Submitted (27-OCT-2022) Clinical Infection, Microbiology and Immunity, Institute of Infection and Global Health, 8 West Derby Street, Liverpool, Please select. L697BE, United Kingdom COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 3.15.4 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7519 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="OBS3" /isolation_source="stool sample" /host="Homo sapiens" /db_xref="taxon:122929" /country="United Kingdom" /collection_date="Jan-2017" /note="genotype: GII.P4/GII.4" gene <1..5092 /gene="ORF1" CDS <1..5092 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="UYR40571.1" /translation="ASNDASAAAVANSNNDTEKSSSDGVLSSMAVTFKRALGARPKQP PPREKSQRPPRPPTPELIKNIPPPPPNGEDEIVVSYSVKDGVSGLPDLSTVRQPEESN TAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAK VELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIRP LNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKR IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT LNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEKAKR DFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKSLTTGSLIARASGL LHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMPEL KQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSATVQTNNELAGALHHLRCAR IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPRP KDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTGS EIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLF ITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVV TLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGS APTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRGK PPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE SFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATM IRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQ QRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYG LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHG DPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..982 /gene="ORF1" /product="p48" mat_peptide 983..2080 /gene="ORF1" /product="NTPase" mat_peptide 2081..2617 /gene="ORF1" /product="p22" mat_peptide 2618..3016 /gene="ORF1" /product="VPg" mat_peptide 3017..3559 /gene="ORF1" /product="Pro" mat_peptide 3560..5089 /gene="ORF1" /product="RdRp" gene 5073..6695 /gene="ORF2" CDS 5073..6695 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UYR40572.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGGVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRVV" gene 6695..7501 /gene="ORF3" CDS 6695..7501 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UYR40573.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSF NSSTAISVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgaca ccgaaaaatc 61 ttcaagtgac ggagtgcttt ctagcatggc tgtcactttt aaacgagccc tcggggcgcg 121 gcctaaacag cctcccccga gggaaaaatc acaaagaccc ccacgaccac ccacaccaga 181 actgattaaa aatattcccc cccccccacc caacggagag gatgaaatag tggtgtctta 241 tagtgtcaag gatggtgttt ccggcttgcc tgacctttcc accgtcaggc agccggaaga 301 atccaacacg gccttcagtg tccctccact caatcagagg gagaatagag atgctaagga 361 accactcact ggaacaattc tggaaatgtg ggacggggag atctaccatt atggcctgta 421 tgtggagcga ggtcttgtac taggcgtgca caaaccgcca gctgccatca gcctcgctaa 481 ggttgagtta gcaccactct ccttgtactg gagacctgtg tacactcctc agtacctcat 541 ctctccagac actctcaaga aattgtccgg agagacgttc ccctacacag cctttgacaa 601 caactgctat gccttttgtt gctgggtcct ggacctaaat gactcgtggc tgagcaggag 661 aatgatccag agaacaactg gtttcttcag gccctaccaa gactggaata ggaaacccct 721 tcccactatg gatgactcca aaataaagaa ggtggccaac atatttctgt gtgctctgtc 781 ctcgctattc accaggccca taaaagatat aatagggaag ataaggcctc ttaacatcct 841 caacatctta gcctcatgtg attggacctt tgcgggtata gtggagtccc tgatactctt 901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga ttgccccctt 961 acttggtgat tacgagctac aaggacctga ggaccttgca gtggagctcg tccccgtggt 1021 gatgggggga attggtttgg tgctaggatt caccaaagag aagattggga agatgttgtc 1081 atcagctgcg tccaccttaa gagcttgcaa agaccttggt gcatatgggc tagagatcct 1141 aaagttagtc atgaagtggt tcttcccgaa gaaggaggag gcaaatgagc tggctatagt 1201 gaggtccatc gaggatgcag tcctggatct cgaagcaatt gaaaacaatc atatgaccac 1261 cttgcttaaa gataaagaca gtctggcaac ctacatgaga acacttgacc ttgaagagga 1321 gaaagccagg aaactctcaa ccaaatctgc ctcacccgac atcgtgggca caatcaacgc 1381 tctcctggcg agaatcgctg ccgcacgttc tctggtgcat cgagcgaagg aggagctttc 1441 cagcagacca agacctgtgg tgttgatgat atcaggcagg ccaggaatag ggaagactca 1501 cctcgctagg gaagtggcta agagaatcgc agcctccctt acaggagacc aacgtgttgg 1561 tctcatccca cgcaatggcg tcgaccattg ggatgcgtac aagggggaga gggtcgtcct 1621 atgggacgat tatggaatga gcaaccctat tcacgatgcc ctcaggctgc aagaactcgc 1681 tgacacttgc cccctcactc tgaactgtga caggattgaa aataaaggaa aggtctttga 1741 cagcgatgtc atcattatca ccaccaatct ggccaaccca gccccactgg actatgtcaa 1801 ctttgaagca tgctcgaggc gcattgactt cctcgtgtat gcagaagccc ctgatgtcga 1861 aaaggcgaag cgtgacttcc caggccagcc tgacatgtgg aagaacgctt tcagttctga 1921 tttctcacac ataaaactag cactggcccc acagggtggt ttcgacaaga acgggaacac 1981 cccacacgga aagggcgtca tgaagtctct caccactggc tcccttattg cccgggcatc 2041 agggctactc catgagaggt tagatgaatt tgaactgcag ggcccagctc tcaccacctt 2101 caatttcgat cgcaataaag tgcttgcctt tagacagctt gctgctgaaa ataaatatgg 2161 attgttggac acaatgaggg ttgggaaaca gctcaaggat gtcaaaacca tgccagaact 2221 caaacaagca ctcaagaatg tctcaatcaa gaagtgtcaa atagtgtata gtggttgcac 2281 ctacatgctt gagtctgatg gcaagggcaa tgtgaaagtt gacaggatcc aaagcgccac 2341 cgtgcagacc aacaatgagc tggctggtgc cctgcaccac ttgaggtgcg ccagaatcag 2401 atactatgtc aagtgtgtcc aggaagccct gtattccatc attcaaattg ctggggctgc 2461 atttgtcacc acgcgcattg ccaagcgcat gaacatacaa gacctatggt ccaagccaca 2521 agtggaaaac acagaggaga ctaccagcaa ggacgggtgc ccaagaccca aggatgatga 2581 ggagtttgtc atttcgtccg acgacatcaa aactgagggc aagaaaggga agaacaagac 2641 tggccgtggc aagaagcaca cagcattttc aagcaaaggc ctcagtgatg aagagtacga 2701 tgaatacaag aggatcagag aagaaaggaa tggcaagtac tctatagaag agtaccttca 2761 ggacagggac aaatactatg aagaggtggc cattgccaga gcgactgagg aagacttctg 2821 tgaagaggag gaagccaaga tccgacaaag gatctttagg ccaacaagga aacaacgcaa 2881 ggaggaaaga gtctctctcg gtttggtcac aggttctgaa attaggaaaa gaaacccaga 2941 tgacttcaaa cccaagggga aattgtgggc tgacgatgac aggagtgtgg actacaatga 3001 gaaactcagt tttgaggccc cgccaagcat ttggtcaaga atagtcaact ttggttcagg 3061 ctggggattc tgggtctccc ccagcttgtt cataacatca acccatgtta taccccaggg 3121 cgcaaaggag ttctttggag tccccatcaa acaaatacag gtacacaagt caggcgagtt 3181 ctgtcgcttg agattcccta aaccaattag gactgatgtg acgggtatga tcttagaaga 3241 aggcgcacct gagggcaccg tggttacact actcatcaaa aggtccactg gggaacttat 3301 gcccctagca gctaggatgg ggacccatgc gaccatgaag atccaagggc gcactgttgg 3361 gggccagatg ggcatgcttc tgacaggatc caacgccaag agtatggacc tgggtaccac 3421 accaggtgat tgtggctgcc cctacatcta caagagaggt aatgactatg tggtcattgg 3481 agtccacacg gctgccgcac gtggggggaa cactgtcata tgtgccaccc aggggagtga 3541 aggagaggct acacttgagg gtggtgacaa caaggggaca tactgtggtg caccaatcct 3601 aggcccaggg agtgccccaa cacttagcac caagaccaaa ttctggaggt cgtccacagc 3661 atcactccca cctggcacct atgaaccagc ctatcttggt ggcaaggacc ctagagttaa 3721 gggtggccct tcactgcagc aagtcatgag ggaacagttg aagccattca cagagcccag 3781 gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaaccatca ttaatgtcct 3841 tgagcaaaca attgatccac ctgagaaatg gtcgttcgca caagcttgcg cgtctcttga 3901 caagaccact tccagtggtc atccgcacca catgcggaaa aacgactgct ggaacgggga 3961 gtccttcaca ggcaagctgg cagaccaggc ttctaaggcc aacctgatgt ttgaagaagg 4021 gaagaacatg accccagtct acacagctgc gctcaaggat gagttagtta aaactgacaa 4081 aatttatggt aagatcaaga agaggcttct ttggggctcg gacttggcga ccatgatccg 4141 gtgtgctcga gcattcggag gcctaatgga tgaactcaaa gcgcactgtg tcacacttcc 4201 cattagagtt ggcatgaata tgaatgagga tggccccatc atcttcgaga ggcattccag 4261 gtacacgtac cactatgatg ctgattactc tcgatgggat tcaacacaac agagagccgt 4321 gttggcagca gccctagaaa tcatggtaaa attctcccca gaaccacatt tggctcaggt 4381 agttgctgaa gaccttcttt ctcctagcgt ggtggacgtg ggcgacttca caatatcaat 4441 caacgagggt cttccctctg gggtgccttg cacctcccaa tggaactcca tcgcccactg 4501 gcttctcact ctctgtgcgc tctccgaagt cacaaacctg tctcctgata ccatacaggc 4561 taattctctc ttctcttttt atggtgatga tgaaattgtt agcacagaca taaaattgga 4621 cccagagaaa ttgacagcaa agctcagaga atatgggtta aagccaaccc gccctgacaa 4681 aactgaaggg ccccttgtca tctctgaaga cctgaatggt ctaactttcc tgcggagaac 4741 tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagttcaa tactcaggca 4801 aatgtactgg actaggggtc ccaaccatgg agacccatcc gaaacaatga ttccacactc 4861 ccaaagaccc atacaattga tgtccctact gggggaggcc gctctccacg gcccagcatt 4921 ttacagtaaa attagcaaat tggtcattgc agagctaaaa gaaggtggta tggattttta 4981 cgtgcccaga caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga 5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc 5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg 5161 agcccgttgt tggtgccgcc attgcggcac ctgtagcggg ccaacaaaat gtaattgacc 5221 cctggattag aaacaatttt gtacaagccc ctggtggaga gtttacagtg tcccccagaa 5281 acgctccagg tgaaatacta tggagcgcgc ccttaggccc tgatctaaat ccctacctat 5341 cccatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag gtaattctcg 5401 cggggaacgc gttcaccgcc gggaaagtca tatttgcagc agtcccacca aatttcccaa 5461 ctgaaggctt gagccccagc caggtcacta tgttccccca tatagtagta gatgttaggc 5521 aactagaacc tgtgttgatt cccttacccg atgttaggaa taatttctat cattacaacc 5581 aatcaaatga ccccaccatt aagttgatag caatgttgta cacaccactt agggctaata 5641 atgctgggga cgatgtcttc acagtttctt gccgagttct cacgagacca tcccccgatt 5701 ttgatttcat atttctagtg ccacccacag ttgagtctag aactaaacca ttctctgtcc 5761 cagttttaac tgttgaggag atgaccaatt caagattccc cattcctctg gaaaagttgt 5821 tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa cggtaggtgc acgactgatg 5881 gcgtgctcct aggcaccacc caattgtctc ctgtcaacat ctgcaccttc agagggggtg 5941 tcacccacat tacaggtagt cgtaactaca caatgaattt ggcttctcaa aattggaaca 6001 attatgaccc aacagaagaa atcccagccc ctctaggagc tccagatttt gtggggaaga 6061 ttcaaggcat gctcacccaa accacaaggg cagatggctc aacacgcggc cacaaagcta 6121 cggtgtacac tgggagcgcc gactttgctc caaaactggg cagagttcaa tttgaaactg 6181 acacagacca tgattttgaa gctaaccaaa acacaaagtt caccccagtc ggtgtcatcc 6241 aagatggcag caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag 6301 gcagaaatac tcacaatgtt catctggccc ccgctgtagc ccctactttt ccgggtgagc 6361 aacttctctt ctttaggtcc actatgcccg gatgtagcgg gtaccccaac atggatttgg 6421 actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat 6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgca 6541 aacttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc 6601 cccccaatgg ttattttagg tttgattcct gggtcaacca gttctacacg cttgccccca 6661 tgggaaatgg agcggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt 6721 agcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat 6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag 6841 cagcaatcta caacaggctt cctttcaaca tgacaaagaa atgctccaag cacaaattga 6901 ggccaccaaa aagctacaac aggaaatgat gagagttaag caggcaatgc tcctagaggg 6961 tgggttctct gagacagatg cagcccgcgg ggcaatcaac gcccccatga caaaagcttt 7021 ggactggagc gggacaaggt actgggctcc tgatgctagg actacaacat acaatgcagg 7081 ccgcttttcc acccctcaac catcgggggc actgccagga agagctaatc ttagggatgc 7141 tgtccctgct cggggttcct ctagtaaatc ttttaactct tctactgcta tttctgtgta 7201 ctcaaatcaa accacttcaa cgagacttgg ttctacagct ggttctggta ccagtgtctc 7261 gagtctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc 7321 ccctttcatg aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc 7381 tagccaaggc acagtctcaa ccgtgcctaa agaggttttg gactcctgga ctggcgcttt 7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaaa cgaggggagt cacgggtgta 7501 atgtgaaaag acaaaattg //