Typing tool
|
Complete norovirus genomes
OP729314 | GII.20 | ||
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GII.P20 |
ORF1: 1..4870 ORF2: 4851..6464 ORF3: 6464..7240LOCUS OP729314 7245 bp RNA linear VRL 01-NOV-2022 DEFINITION Norovirus GII isolate OAS6 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OP729314 VERSION OP729314.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7245) 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. v3.15.4 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7245 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="OAS6" /isolation_source="stool sample" /host="Homo sapiens" /db_xref="taxon:122929" /country="United Kingdom" /collection_date="Jan-2017" /note="genotype: GII.P20/GII.20" gene <1..4870 /gene="ORF1" CDS <1..4870 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="UYR50070.1" /translation="PPPNGEDVVYYNSKNDTVDGLPDLTTVQDEHEHSPYTVPPLSER EHKPAMEPLPGTILEMWDGEFYHYSIYVSNGKALGVHKPPAAISVATIDLTPISLYWR PVYTPPYLVHPDTLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLSRKSISRTTGFY KPYQSWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLLNLLASCD WTFAGIVETVILAAELFNVFWTPPDVSNFIASLIGDFEMQGPEDLAVELVPVVMGGIG MVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEMETLRAI EDAVLDMEAIGNNHLTTLLKDKDSLTAYMKTLDLEEEKARKLSTKSSSPDIVGTINAI LARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARQLAKTIAGTMTGDQRV GLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCDRIENKGK MFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPEIEKVKKDFPGQPDMWRD HFKPDSSHIRLSLAPQGGFDKNGNTPHGKGTMKTLTQGSLTARVAGLVHERRDEFQFQ GDEVHLYNFDANRVSAFRKLAADNKYSLMETMKVGSALKNVKTLEDLKVALRTVKFKE CEILYRGSKYRVSSDGCGNVSVTKVKDMMSQTTNEVHSALIRLRQARARYYISCFQDL IYTLIQVAGASFVVHRISRRFSWERWIKPSEALPEDGQVGLTDNTERWEVEPKDADPE GKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRVREERGGKYTIEEYLQDRDRFYEEVA VARATEEDFCEEEIAKIRQRVFRPTKKQRKEERSVLGLVTGSEIRKRKPDDFQPKGNL WADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGVRELFG VDIKQVQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILVRRPTGEMIPLAV RMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTIPGDCGCPYIYKRGNDIVVAGVH TAAARGGNTVICATQGPDGEAVLEGGDDKGTYCGAPILSVGKAPKLSTKTKFWRSSPE ALPPGTYEPAYLGGKDPRVEKGPSLHQVMRDQLKPFTAPRGKPPNPTVLEEAKKTVMN VLEQTIDPAKPWTYAQACASLDKTTSSGSPHHLKKNDHWNGESFTGPLADQASKANLM YEQAKHVSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLLDSMKE SCVALPCRVGMNMNEDGPIIFDKHSKYRFHYDADYSRWDSTQQRCILAAAMEVMVKFS AEPELAQIVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWIITLSAMAEV SGLSPEVIQANSCFSFYGDDEIVSTDINLDPAKLTQKLREYGLVPTRPDKTEGPLVIT ENLHGLTFLRRTVTRDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQRATQL MALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTWEGDRN LAPDGVNEDGVE" mat_peptide <1..775 /gene="ORF1" /product="p48" mat_peptide 776..1873 /gene="ORF1" /product="NTPase" mat_peptide 1874..2395 /gene="ORF1" /product="p22" mat_peptide 2396..2794 /gene="ORF1" /product="VPg" mat_peptide 2795..3337 /gene="ORF1" /product="Pro" mat_peptide 3338..4867 /gene="ORF1" /product="RdRp" gene 4851..6464 /gene="ORF2" CDS 4851..6464 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UYR50071.1" /translation="MKMASNDASPSSDGSANLVPEINNEVMALEPVAGAAIAAPVAGQ QNIIDPWIRNNFVQAPGGEFTVSPRNAPGEVLLNLPLSPDINPYLAHLSRMYNGYAGG VEVEVVLAGNAFTAGKIIFAAVPPNFPPENLSPSQITMLPHIIVDVRQLEPVRIPLPD VRNNFYHYSRENDSTLRLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESKSKPFTIPILTIEEMTNSRFPAPLEMMTTGPSHEIVVQPQNGRCTIDGVLLGTT QLSPVNICSMRGVPTKRDNGNNNCFVHLENINGTPYDPTEDIPAVLGAPDFVGVLYGT ISQRSPDNSTRAHPFTLNTGDDRYTPKLGSIDIHIDDVDDMQNNQTVKMTPVGLAGLE RGSTTHQWQLPRYSGVATHNMHLAPSVSPLFPGEQILFFRSTVPGCGGYPDTKIDCLI PQEWVQHFYQESAPARTDVALLRFINPDTGRVLFECKLHKQGYITVAYSGVHDLVMPP NGYFRFESWVNQFHTLAPMGTGSGRRRIQ" gene 6464..7240 /gene="ORF3" CDS 6464..7240 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UYR50072.1" /translation="MAGAFLANLAGGVASNGIGSLINAGANAINQRVEYDFNRQLQNA SFAHDKDMLQAQIQATKQLQRDMMAIKQEVLTAGGFSPADAARGAVGAPMTKLVDWSG TRYWAPNSMKTTGYSGTFSSQPISQLATQPKVVKQPAPGKNPPSVPSSGSSVSSLVTQ STSLQSSPSRSASSQSTSLTIPSHSRTSDWVRSQNDRLSPFMGGALQTAFVTPPSSRA SSAGTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESRV" ORIGIN 1 ccccccccca aatggtgagg acgtggttta ttacaacagt aaaaatgaca ccgttgatgg 61 cttgcctgac ctgaccacag tccaggatga gcatgaacat tctccttaca cggtgccccc 121 tctaagtgaa agagaacaca aacccgcaat ggaaccatta ccaggcacca tacttgaaat 181 gtgggatggt gagttttacc attactccat atatgtcagc aacggcaagg cgcttggcgt 241 gcataaacca cccgctgcta taagcgtcgc caccattgat ttgactccca tatcattata 301 ctggaggcca gtgtacactc caccatacct agtgcaccct gacactctca agggccttgc 361 tggagagaaa tttccataca cggcatttag caacaattgt tacaatttct gttgctgggt 421 tctggacttg aatgactcgt ggctgagtag gaaatccata tccagaacaa ctggtttcta 481 taaaccatac caatcatgga acaggaaacc cctccccaca gttgatgatg ggaagatcaa 541 gaaggtggcc aacgcagtgt tgtgtgccct aggatcactg ttctcaaaac ctatcaaaga 601 cttgcttgga aagttgaaac ccctgaactt gcttaaccta ttggcatcat gtgattggac 661 attcgccggg atagtggaaa cggtcatcct ggcagcagag ttattcaatg tgttttggac 721 tccccctgat gtgtccaatt ttatagcctc tctgattggg gactttgaaa tgcaagggcc 781 ggaagatctc gccgtggagc ttgtgcccgt agtgatgggg gggattggaa tggttctggg 841 cttcaccgca gaaaagatag ggcgcatgct ttcttcggcc gcctccactt taagggcttg 901 taaagacctg ggaaactacg ccctggacat actcaagctg gtcatgaaat ggttcttccc 961 caagaaggag gagaaggccg agatggaaac cctgagagcc atagaagatg cggttcttga 1021 tatggaggca ataggcaata accacctgac tacactgctc aaagacaaag acagtctaac 1081 cgcctacatg aaaaccctgg atttggaaga agaaaaggca cgaaagcttt caacaaaatc 1141 atcatcacca gacattgtgg gcacaataaa cgcgatcttg gccagaatcg cggctgctag 1201 atcacttctc cacaaagcta aggaagaaat gttcagcagg attagacctg ttgtagtgat 1261 gatctcagga agacccggta tagggaaaac ccatatggcg aggcaattgg ccaaaacaat 1321 cgccggcacg atgactggag accagagagt cggacttgtt cctcgcaatg gggttgatca 1381 ttgggatgcc tacagggggg agagagtggt tctttgggac gattacggta tggggaatac 1441 aatcaaggat gccctcaccc tgcaagaact ggcggataca tgccccgtca cccttaactg 1501 tgacaggatt gagaacaaag ggaaaatgtt tgacagcgat gtcatcataa taaccaccaa 1561 tctagtcaac ccagcacccc tcgactacgt caacttcgag gcctgctgca gaagaattga 1621 cttcctagtc tatgctgaag ctccagaaat agaaaaagtg aagaaagact tcccaggaca 1681 accggatatg tggcgcgacc acttcaaacc agattcatcc catatcagac tgtccctggc 1741 ccctcaaggt gggtttgaca agaatggaaa caccccacat ggaaaaggaa cgatgaagac 1801 cctcacccag ggctccctca ctgctcgagt agccggcttg gtgcatgaga ggagggacga 1861 gtttcagttc caaggggatg aggtgcatct ttacaacttt gatgccaaca gagtgtctgc 1921 atttaggaag ttagcagctg acaataagta cagcctcatg gaaactatga aggttggttc 1981 cgccctcaag aatgtcaaaa ccctagaaga cctaaaggtc gcactcagga ctgtaaaatt 2041 caaagagtgc gaaatattat acagagggtc aaagtaccgt gtctcatccg atggctgtgg 2101 gaatgtctca gttactaaag taaaagacat gatgtcacag accaccaatg aggttcactc 2161 agccttgatc agattgagac aagcccgggc taggtactac attagttgct tccaagacct 2221 aatttacacc ctcatccagg ttgccggcgc ttccttcgtt gtgcacagaa tatcaaggag 2281 gttctcatgg gagcggtgga tcaaaccctc tgaggccctt cccgaggatg gccaagtcgg 2341 cctaacggat aacactgaga ggtgggaggt tgagccgaaa gatgccgatc cagagggcaa 2401 gaaaggtaaa aacaagaaag gcagaggcag aaaacacaca gccttctcta gcaagggcct 2461 cagtgatgaa gagtatgatg aattcaagag agtgagggaa gaaaggggtg gaaagtacac 2521 catcgaggaa tacctccaag acagagaccg cttttatgaa gaggtagcgg tagctcgtgc 2581 cactgaagag gacttctgtg aggaagaaat tgctaagatc agacagcggg tctttaggcc 2641 taccaagaag caaaggaaag aagagcgcag tgtccttggc cttgtgactg ggtctgaaat 2701 cagaaaaagg aaaccagatg acttccaacc aaagggcaac ctctgggctg atgacacaag 2761 gagtgtagac tacaatgaga gattagactt tgaggcccca cctagcgttt ggtcacgtat 2821 agtccccctg ggtactggct ggggattctg ggtttcatca aatctgctca taactaccac 2881 tcatgtgcta ccaaaaggtg ttagggaact atttggtgtt gacataaaac aagttcaaat 2941 acataaatca ggtgaatttt gcagattcag atttccccga ccaattaggc cagatgtgac 3001 cgggttaatc ctagaagaag gggcgcccga aggcacagtg tgttcaatcc tagtgaggag 3061 acccacaggg gaaatgatcc ctcttgctgt taggatgggg acacatgcct ccatgaagat 3121 acaaggtaga acagttggtg ggcagatggg catgcttctg accggagcga atgccaagaa 3181 catggacttg ggcaccatac caggagactg tggctgtcca tacatttaca agaggggtaa 3241 tgacattgta gtagccggag ttcacactgc tgctgcaaga ggaggaaaca ctgtcatctg 3301 tgccacacaa gggcctgacg gagaggccgt tttggaagga ggggacgaca agggaacgta 3361 ctgtggcgcg ccgatactta gtgttggcaa ggcccctaaa ttgagcacaa aaacaaaatt 3421 ctggcgatca tccccagaag cattgccacc aggaacgtac gaacctgcct acctgggtgg 3481 caaagacccc agggttgaaa aaggaccttc gctccatcag gtcatgagag atcaattgaa 3541 acctttcacc gcgcccaggg gaaaaccgcc gaatcccact gtccttgaag aagccaagaa 3601 gaccgttatg aatgtcctcg agcaaaccat agaccctgca aaaccttgga cctatgctca 3661 agcctgcgct tctcttgata aaaccacctc cagtggcagt ccccaccacc tgaagaagaa 3721 cgaccactgg aacggagaat ctttcacggg acccttagct gaccaagcct ctaaagccaa 3781 cctaatgtat gaacaggcga aacacgtcag tcctgtttat acagcagccc tcaaggatga 3841 gttagtcaaa actgacaaga tctacaaaaa gattaagaag aggttgttgt gggggtctga 3901 tctgggcact atgatcaggt gtgctagggc ctttgggggt ctccttgaca gtatgaaaga 3961 gagctgtgtg gccttacctt gtagagtagg tatgaacatg aatgaagatg gccccatcat 4021 atttgacaag cactcaaaat acagattcca ttatgatgca gattactcta ggtgggactc 4081 aacacagcaa aggtgcatct tggccgcagc aatggaggtc atggtgaagt tctcagctga 4141 acccgagctg gcccaaatag ttgcagaaga cctgctagcc cctagccaac ttgatgttgg 4201 ggactttgtg atctccgtgc aggagggtct tccttctggt gtcccttgca cttcacaatg 4261 gaactcaata gcacattgga tcatcaccct aagtgctatg gcagaagtgt ctggtctctc 4321 cccagaagtt atacaggcca actcatgctt ctctttttac ggggatgatg agatagtgag 4381 cactgatatt aacttggacc cagccaaatt gactcagaaa ttgagggaat atggattagt 4441 gcccaccaga ccagataaga cagaaggccc cttagttatc actgaaaact tgcatggact 4501 gacatttctg cgaagaactg tcactcgtga cccagcaggt tggtttggaa aactggatca 4561 agactcaatt ctaagacagc tttactggac aagaggccca aatcatgaga acccctacga 4621 aagcatggtc ccccactcac aacgtgccac tcaactcatg gcccttttgg gggaagcctc 4681 tctccatgga ccccaattct acaagaaagt cagcaagatg gtcattaatg agataaaaag 4741 tggtggtctg gagttttatg tgcccagaca agaggccatg tttagatgga tgagattttc 4801 agacctcagc acatgggagg gcgatcgcaa tcttgctccc gatggtgtga atgaagatgg 4861 cgtcgaatga cgcgagtccg tctagtgacg ggtcagccaa cctcgtccca gagatcaaca 4921 atgaggtgat ggctcttgaa ccagtagcag gtgctgctat tgccgcacca gttgctggac 4981 aacaaaatat aatagatccc tggattagaa ataattttgt gcaggcccct ggtggtgaat 5041 ttacagtttc cccaagaaat gcaccagggg aagtgctcct aaatttgcct ttaagccctg 5101 atatcaaccc atatttggcc catttgtccc gaatgtacaa tggctatgca ggaggcgtgg 5161 aggtagaggt ggtcctcgct gggaatgcgt tcacggcggg aaaaatcatc tttgccgcag 5221 tgccacccaa tttccctcct gaaaacctta gcccaagcca aataactatg ctcccccata 5281 ttatagttga tgttaggcaa ttggaaccag tgcgcatacc cttgccggat gtgcgcaaca 5341 atttctacca ttattcaaga gaaaatgatt ccacattgag gttgattgca atgctgtata 5401 ctccccttag agctaataat gctggtgatg atgtcttcac tgtctcctgc agggtgttaa 5461 caagaccctc tcccgacttc gatttcatat ttctggtgcc tcctactgtt gaatctaagt 5521 ctaagccctt tactatccca atcttgacta ttgaggagat gactaactcc agatttcccg 5581 ccccattgga aatgatgact actggcccga gccacgagat tgtggtgcaa ccgcagaatg 5641 ggcgctgcac tatcgatgga gtgctgctcg gcaccacaca attgtctcct gttaacatct 5701 gctctatgag gggtgtcccg acaaagaggg ataatggaaa caacaactgc tttgtgcatc 5761 ttgagaacat caatggaacc ccctatgatc ctactgaaga catccctgcc gtgctgggag 5821 cgcctgattt tgtgggagtg ttgtatggga caatcagcca aaggagcccc gacaactcaa 5881 ccagggccca ccccttcacc ctcaacactg gagatgacag gtacacccct aagttaggtt 5941 ccatagacat acacattgat gatgtcgatg acatgcaaaa caaccaaact gtgaaaatga 6001 ccccagtggg tttagctgga ttggaaagag gatcaaccac ccaccagtgg caactaccaa 6061 ggtactccgg ggtggccacc cacaacatgc acttggcccc atctgtctcc cctcttttcc 6121 ctggagagca aattcttttc ttccggtcga cagtccccgg ctgtgggggt tacccggaca 6181 caaaaattga ctgcttaatc ccccaggaat gggtccagca tttctaccaa gagagcgccc 6241 cagcgcgcac tgatgtggcc ctgctgagat tcatcaaccc ggatactggc agggttctat 6301 ttgagtgcaa attacataaa caagggtaca tcactgtggc ctattcagga gttcatgatt 6361 tggttatgcc ccctaatgga tacttcagat ttgagtcttg ggtgaatcag tttcacactc 6421 ttgcccccat gggaacaggt tcgggcagaa ggcgcatcca ataatggcag gagcattctt 6481 ggcaaattta gctggtggtg tggcgtcaaa cggaatcggg tcattgatca atgcaggcgc 6541 gaacgccata aatcagaggg tggaatatga tttcaacaga cagttacaaa atgcatcatt 6601 tgcccatgac aaggacatgc tccaagcaca gattcaggca acaaaacagc ttcaacgcga 6661 catgatggcc atcaagcagg aggtcttgac cgcgggcggc ttttcccctg ctgatgccgc 6721 aagaggggcg gttggggcac caatgacaaa actagttgac tggagtggta caaggtactg 6781 ggcaccaaat tctatgaaga ccacaggcta ttccggaact tttagcagcc aaccaatctc 6841 acaactcgca actcaaccaa aagttgtgaa acaaccagct ccagggaaaa accccccctc 6901 agtcccctca agtggttctt ctgtgagttc tcttgtgaca caatcaactt ccctacagag 6961 ttcccctagt agatcagcat ctagccaatc aacgagcctc accattccct ctcattcaag 7021 aacatcagac tgggtccgca gtcagaatga caggctgagc cctttcatgg gtggagcact 7081 tcaaacagcc tttgtgactc ccccatcaag tagggcttct agtgctggca cagtctcaac 7141 cgtgccaaag gaggttttgg actcctggac tcccatgttt aacacacata ggcagccact 7201 cttcgcccat cttcgtaggc gaggggagtc acgagtctag tgaaa //