Typing tool
|
Complete norovirus genomes
OP162336 | GI.7 | ||
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GI.P7 |
ORF1: 1..5379 ORF2: 5363..6982 ORF3: 6982..7629LOCUS OP162336 7629 bp RNA linear VRL 21-JUN-2023 DEFINITION Norovirus GI isolate RIVM-NOV-2016-0265_R01-06 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION OP162336 VERSION OP162336.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7629) AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T., Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A. TITLE Shotgun whole genome sequencing for gastroenteritis surveillance using Norovirus as a model JOURNAL Unpublished REFERENCE 2 (bases 1 to 7629) AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T., Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A. TITLE Direct Submission JOURNAL Submitted (05-AUG-2022) Center for Infectious Diseases, Rijksinstituut voor Volksgezondheid en Milieu, Antonie van Leeuwenhoeklaan 9, Bilthoven, Utrecht 3721 MA, Netherlands COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. v3.11.0 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7629 /organism="Norovirus GI" /mol_type="genomic RNA" /isolate="RIVM-NOV-2016-0265_R01-06" /isolation_source="Human feces" /host="Homo sapiens" /db_xref="taxon:122928" /country="Netherlands" /collection_date="2016-08-16" /note="genotype: GI.7[P7]" gene <1..5379 /gene="ORF1" CDS <1..5379 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="UUL90911.1" /translation="DAIAAADVSKQNANTNNENIGSRLMAKLKERISSQRGEGTTKIK NTEMALDLIRRSQTPSPTRSDPPPKAQRDRPPRTVSEVKQVLGWDGPADENYGARAWC DLTAEEKKEILDNNERLFDAGGVTPSTVPSTFERCETSERVDGCHPVKWSESAGVDLG VDSLTTVTGPVWNMCPLPPIDSRNNGPASEPRIGDMIEFYEGHIFHYAIYLGQGKTIG VHSPQAAFSIARITIHPMAAWWRVCYEPTEQQRLSYDQLKELENEPWPYASITNNCYE FCCRVMSLDDTWLQRKLVTSGRFNHPTQEWSKETPDFHQDSKLEIVRDAILSAINGLV SQPFKNILSKIKPLNLLSLLSNCDWTFMGVVELVVLLAELFDIFWTPPDISNFIASLL PDFHLQGPEDLARDLVPLILGGIGLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEV FSIIKKYFFGGDQTEKTLKGIENAVIDMEVLSSTNVTQLVRDKKLAKTYMNILDNEEE KARKLSVRSADPHVVTTVNNLISRISMARSALAKAQAEMTNRARPVVIMMCGPPGIGK TKAAEHLANRLAGEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKITEDCNKL QAIADTAPLTLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYC TAPEIEQTRRAHPGDTNAIKNLFKPDFSHLKMEIAPQGGFDNQGNTPFGKGAMKSTTL NRLLIQAVALTMERQDEFQMQGAVYNFDEDRVTAFTSLARANGLGLLSMAALGKKLRS VNNMEGLRNALKGYKITECDIVWNNRTYTIKGDGSNVSVIEKQVAATLQQQAISSVTL ALSRLRAARALAYASCLQSAVTTILQMAGSAVVISRAVKRMFGTHTNQPALEGKPREH NCRVHRAEREGHGPIGHDGIIERYGLCETDQEEEEKIEMEVPTADKEGKNKGKNKKGR GRKNNYNAFSRRGLSDEEYEEYKKVREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG GIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLVTGTEIRKRKPIDWTPPKNDWSED TRQVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSPTVFITTTHVVPPSAKEIFGEKLS DIAIHRVGEFTQFRFSKKMRPDLSGMVLEEGCPEGTVCTIMVKRDSGELLPLAVRMGA VASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAAT KSGNTVVCAIQSGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLP PGTYEPAYLGGRDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEPSLLEAAVETVTNVLE QTMDTPVPWSYSDACMSLDKTTSSGFPHHKRKNDDWNGSAFVRELGEQAAHANNMYEL GKSVKPVYTAALKDELVKPEKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVI KLPIKVGMNAIEDGPLIYAEHAKYKYHFDADYTAWDSTQNREIMLESFNIMCKLTANP SLAAVVAQDLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWIYTLCALSEVTGL APDVLQAQSYFSFYGDDEIVSTDVEFDPIKLTQVLKEYGLKPTRPDKSEGPIIVKQQV DGLVFLRRTISKDAVGYQGRLDRNSIERQLWWTRGPNHDDPFETLIPHQQRKIQLISL LGEAALHGEKFYRKIANRVIQEVKEGGLELYIPGWQAMFRWMRFHDLSMWTGDRNLLP DYVNDDGV" mat_peptide <1..1194 /gene="ORF1" /product="p48" mat_peptide 1195..2283 /gene="ORF1" /product="NTPase" mat_peptide 2284..2883 /gene="ORF1" /product="p22" mat_peptide 2884..3303 /gene="ORF1" /product="VPg" mat_peptide 3304..3846 /gene="ORF1" /product="Pro" mat_peptide 3847..5376 /gene="ORF1" /product="RdRp" gene 5363..6982 /gene="ORF2" CDS 5363..6982 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="UUL90912.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEVNAAEPLPLEPVVGAATAVA TAGQVNLIDPWIMNNFVQAPEGEFTISPNNTPGDILFDLHLGPHLNPFLQHLSQMYNG WVGNMRVRVMLAGNAFTAGKIIICCVPPGFASQNISIGQATMFPHVIADVRVLEPIEI PLDDVRNVLFHTNENRPTMRLLCMLYTPLRAGGASSGTDPFVIAGRVLTCPAPDFNFL FLVPPSVEQKTRQLTVPNIPLNNMANSRVPAMINKMTVSADQNQVVQFQNGRCTLEGQ LLGTTPVSASQVARIRGKVFSTASGKGLNLTELDGTPYHAFESPAPLGFPDIGACDWH VSTFKVDQNLSGDPMSRLDIKQNAPFAPHLGSIEFTSDQDPTGDQLGTLAWVSPSTSG TRVDPWKIPSYGSTVTESTHLAPPIFPPGFGEAIVYFMSDFPIVSGNTAQVPCTLPQE FVSHFVEQQAPIRGEAALLHYVDPDTHRNLGEFKLYPDGFITCVPNTGGGPQNLPING VFIFSSWVSRYYQLKPVGTAGPARRLGVRRV" gene 6982..7629 /gene="ORF3" CDS 6982..7629 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="UUL90913.1" /translation="MAQAIIGAIAATAAGSAVGAGIQAGTEAALQYQRFQQDLTLQEN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLVGAGLSSADAARSIVGAPVTKIVDWNG VRIAAPTSTATTLRSGNFMNIPVTLKKEPQNLPLRSTGLSNPNYDSSTMISRTTQWVE SQNSIRNLSPFHNSALRTTWVTPPGSTSTSTFSTVSSAPRFFNTERLPLFANNRK" ORIGIN 1 gacgctattg ccgctgctga tgtcagcaaa caaaatgcta acaccaacaa cgaaaacatc 61 ggttctcgcc ttatggcgaa gctgaaagag cgtataagct ctcaacgtgg tgaaggaacc 121 acgaaaatca agaatactga aatggcactg gatctaatac gcaggtctca aacaccatcg 181 ccaacgcgct cggacccccc tcctaaggcg cagcgcgatc gccctccgag gactgtgtca 241 gaagttaagc aggttttagg ttgggatggc cctgctgatg agaattatgg ggcccgagca 301 tggtgtgact taacagctga agaaaagaag gaaatcctgg acaacaacga gcgcctcttt 361 gacgctggcg gtgtgactcc ttcgacagtg ccaagtacct ttgagagatg tgaaacatct 421 gagcgagtcg acggctgtca ccctgtcaaa tggagcgagt ctgcgggagt ggatttaggc 481 gtggattctc tgaccactgt cacaggccca gtgtggaata tgtgccccct tccaccgatt 541 gactcacgta acaacggccc tgcaagtgag ccacgcattg gagatatgat agaattttat 601 gaagggcaca tatttcatta tgccatttat cttggtcagg ggaagaccat aggagtccac 661 tcccctcagg cagccttctc catagctcgt ataaccatac accctatggc agcatggtgg 721 cgcgtctgct atgaaccaac agaacagcaa cgcctcagct atgaccaatt aaaagaactt 781 gagaatgaac cgtggcccta cgcatccata acgaataact gttatgaatt ctgctgccgt 841 gtcatgtccc tggacgacac ctggttacaa cgaaagttgg tgacatctgg caggtttaat 901 caccccaccc aggagtggtc caaggaaaca cctgattttc accaagattc aaaattggaa 961 atagtgaggg acgcaatact atccgccata aacggcttgg tctctcaacc ttttaagaat 1021 atcctctcaa aaattaagcc attgaatttg ttgtctttgc tatcaaattg tgactggact 1081 ttcatggggg ttgtcgagct agtggtgcta ttggctgagt tgttcgacat cttctggacc 1141 ccacctgata tctctaactt catagcatct ctcctgcctg actttcacct gcaagggcca 1201 gaggatctgg caagagacct ggtcccattg atattggggg gtattggcct ggccattggc 1261 tttactagag ataaaattac aaaagtcatg aagagtgccg ttgacggcct gcgctcagcc 1321 acgcagcttg gacaatatgg ccttgaggtg ttctcgatca taaagaagta tttctttggt 1381 ggagaccaaa ctgagaaaac cctcaagggc atagagaatg cagtcataga tatggaggtc 1441 ctgtcgagca ccaatgttac acaactggtg cgcgacaaga aattggccaa aacatacatg 1501 aatatcctgg acaatgagga ggaaaaggca aggaaacttt cagtgcgcag tgcagaccca 1561 catgttgtaa caacagtcaa caatctcatt tcgcgcatat ctatggcgcg atcagcactc 1621 gccaaggctc aggctgagat gactaatcgg gcacgacccg tggtcataat gatgtgtggg 1681 ccaccaggta taggaaaaac caaagctgct gaacacctgg ccaatcgcct agctggtgag 1741 ataagacctg ggggaaaagt gggcttagtg cctagggaat ccattgacca ttgggatggc 1801 taccatgggg aagaagtcct gttgtgggat gactatggca tgtccaagat aacagaggac 1861 tgcaataaat tacaagctat agctgacact gccccactca cactcaactg tgacaggata 1921 gagaacaagg gcatgcaatt tgtgtcagat gcaataataa taacaacaaa cgcccctggg 1981 ccagctcccg tcgactttgt taaccttggt ccagtatgtc gacgtgtaga ctttttggtg 2041 tactgcaccg cccccgaaat tgaacagacc aggagagccc accctgggga cactaatgct 2101 atcaagaatt tgttcaaacc agacttttcc catttaaaaa tggagatagc accacaaggg 2161 ggatttgata atcagggaaa cactcccttt gggaagggtg ctatgaaatc aaccacactt 2221 aataggctgc tcatacaggc agtcgctttg acaatggaaa gacaagatga gttccaaatg 2281 cagggggcag tgtataactt tgatgaggat cgggtcacag ctttcactag cctggcccgg 2341 gccaacggac tgggactttt gagcatggct gcactcggta aaaagttgcg gagtgtcaac 2401 aatatggagg gacttcgcaa cgccctcaaa ggatacaaga tcactgaatg tgacattgtg 2461 tggaacaaca ggacttacac cattaaagga gatggatcaa atgtgagtgt catagaaaag 2521 caggtagctg ccactcttca gcaacaggcc atcagttcag ttactctggc actttctagg 2581 ttacgcgccg cacgagcgtt ggcatacgca tcatgcctcc agagcgcagt aaccaccatc 2641 ttgcaaatgg ctgggtctgc agtggtgatc agcagggcag tcaaacgcat gtttgggacc 2701 cataccaacc agccagcact ggagggcaaa cccagggaac acaactgcag ggttcaccgt 2761 gctgaaaggg aaggtcatgg ccccattggt catgatggca tcatagaacg gtacggtctg 2821 tgtgagactg atcaagaaga agaagaaaag attgagatgg aagtgccgac tgcagacaag 2881 gaaggtaaga ataaaggcaa gaacaagaag gggcgaggta ggaagaacaa ctacaacgcc 2941 ttctctaggc gaggcctaag tgatgaggag tatgaagaat acaagaaggt cagagaagag 3001 aagggtggta actacagcat ccaagaatac ctcgaggacc gtcaacgata tgaagaagag 3061 ttggctgagg tccaagcggg tggagatggc gggatcggtg aaacagaggc agagatccgc 3121 catcgtgttt tctacaaatc caagagtggc atgcgaaagc aacgtcaaga agaacgccga 3181 cagcttggat tggttacagg cactgaaatc agaaaacgca agcccataga ttggacacca 3241 cccaagaatg actggtcaga agacaccaga caggtcaact atgatgagca catcagcttt 3301 gaagccccac cttctatttg gagtagagtg gtcaaatttg gcagtggatg gggtttttgg 3361 gtgagtccaa cagtttttat tacaaccaca cacgtcgtac caccaagtgc taaagaaatt 3421 tttggggaaa aactttcaga tatagcaata cacagagttg gggagttcac acaatttaga 3481 ttctctaaga aaatgagacc tgacctcagt ggtatggtcc ttgaggaagg ttgcccggag 3541 ggaacggtgt gcactataat ggtgaagaga gattcaggcg aattgctgcc tctggctgtg 3601 cgtatgggag ctgtcgcgtc catgaagata caaggtaagc tcatgcatgg acagtctggt 3661 atgttgctaa ccggtgcaaa tgcaaaggga atggacctgg gcaccatccc tggtgactgt 3721 ggagctccat acgtgcataa gaggggaaat gactgggtgg tgtgtggagt gcacgcagcc 3781 gcaaccaagt cgggcaacac cgtagtgtgt gcaatacagt caggagaagg tgaagctacc 3841 cttgaagggg gcgggcaaaa caaagggcat tatgcaggcc acccaatttt aaggtatggc 3901 aatggaccct ctctctccac aaaaaccaaa ttctggaaat caacccccca gccacttccg 3961 cctggaacct atgaaccagc ttacctaggt gggcgtgacc ctagggtaga cggtggtcca 4021 tcccttcaac aagtcctacg tgaccaactc aagccatttg ctgagccccg tggtagacta 4081 ccagaaccga gtttgcttga agcagctgtg gagactgtca caaatgtttt agaacaaacc 4141 atggacacac ctgtgccatg gagctacagt gatgcctgta tgtcacttga taagaccacc 4201 agctcgggct ttccacacca caaacgcaag aatgacgatt ggaacggaag tgcgtttgtg 4261 cgcgagcttg gagaacaggc ggcccatgcc aataacatgt atgagttggg caaatcagtc 4321 aaaccggttt ataccgcagc actcaaggac gaactggtga aacccgagaa agtgtacaca 4381 aaaataaaga agagactgct ttggggcgca gaccttggca cagttattcg agccgcccga 4441 gcctttggcc cattctgtga agccataaaa ccacatgtga taaaactgcc aatcaaagtt 4501 ggcatgaatg caattgagga cggccctctc atatatgctg aacatgcaaa gtataaatat 4561 cactttgatg cagactacac agcttgggac tcaactcaaa atagagaaat catgttagaa 4621 tccttcaaca tcatgtgcaa actcacggct aatccatcac tggctgccgt cgtggctcaa 4681 gacctgttat ccccatcaga aatggacgtg ggtgactacg tgatcagtgt caaggatggc 4741 cttccctcag ggttcccatg cacctcacaa gtcaatagca taaaccattg gatatacact 4801 ttgtgtgctc tgtcggaggt cacaggccta gcccctgacg ttctgcaggc ccaatcctac 4861 ttctccttct acggggatga tgaaattgtc tcgactgatg tggaatttga cccaataaag 4921 ctcacccaag tgcttaagga atatggcttg aagcccaccc ggcctgacaa atcagaggga 4981 cccatcatag tgaaacaaca ggtagatggg ctagtcttcc tgaggcgcac catatcgaaa 5041 gatgctgtcg gctaccaagg acgcctggac cgtaactcca ttgaaagaca attatggtgg 5101 actcggggcc caaaccatga tgatcccttt gagacattga taccccatca acaaagaaaa 5161 atccaattaa tttccctgct tggtgaagcc gcactccatg gagaaaagtt ctataggaag 5221 attgccaaca gagttataca ggaagttaag gagggggggc ttgagctcta tataccgggt 5281 tggcaggcca tgttccgctg gatgcgattc catgacttga gtatgtggac aggagatcgc 5341 aatctcttgc ccgattatgt aaatgatgat ggcgtctaag gacgccccct caaacatgga 5401 tggcactagt ggtgccggtc agctggtccc agaggttaat gcagctgaac ctttacccct 5461 tgaaccggta gtcggcgccg caactgcggt tgccactgct ggacaggtta atttaataga 5521 cccctggatt atgaataatt ttgttcaagc ccctgagggt gagtttacca tctcacctaa 5581 taacacccct ggagatattc tgtttgattt gcatctagga ccacacctta atccctttct 5641 acagcatttg tcccaaatgt ataatggttg ggtgggcaat atgagagtta gagttatgct 5701 tgcagggaat gcgttcactg ctggtaagat tataatttgt tgtgtcccac ctggctttgc 5761 atcccaaaat atatcaattg gtcaggctac tatgttccca cacgtcatag ctgatgtgag 5821 ggtgctggag cctatagaaa tccctcttga tgatgtgcgt aatgtcttgt tccatactaa 5881 tgagaaccgc cctaccatgc ggttactttg catgctatac acacccctcc gtgctggtgg 5941 tgcttcatcg ggcacggacc cctttgtcat tgcgggtcgt gtactaactt gccccgcccc 6001 tgattttaat tttctgttcc ttgtaccccc tagtgtagag cagaaaacca ggcagttgac 6061 tgtgcccaac atacccctga acaatatggc caattccaga gtgcccgcaa tgataaacaa 6121 gatgacagtt tctgctgatc aaaaccaggt ggtccaattc cagaatggtc gttgcacact 6181 tgaaggacag ctcttaggca caactccagt ttcagctagt caagtggccc gcatacgtgg 6241 caaagtcttt tccaccgcat ctgggaaagg actcaatctg actgaattgg atggaactcc 6301 ttaccacgca tttgagagcc cagcccccct tggtttccct gacatcggag cctgtgattg 6361 gcatgtgtca acctttaagg tggatcaaaa cctttcagga gatcctatgt ccaggttaga 6421 tataaaacaa aatgccccgt ttgcaccaca ccttggttcc attgaattca cctctgatca 6481 ggacccaact ggggatcaat tgggaacatt ggcctgggtt tccccttcca ctagtggaac 6541 tagggtagac ccctggaaaa ttccatcata tggttcaaca gtgacagaat ccactcatct 6601 ggcaccaccc atatttccac caggctttgg cgaggccata gtttacttta tgtcagattt 6661 tcccattgtc tcaggcaaca ccgcccaagt cccctgcact ctgccccaag aatttgtctc 6721 acactttgtg gagcaacagg caccgattcg aggtgaagct gccctacttc attatgtgga 6781 cccagacacc catcgtaatc tgggagagtt caaattgtac cctgatggat ttatcacctg 6841 tgtgccaaac acaggtggtg gtcctcaaaa tttacctata aatggagtct ttatcttttc 6901 ttcctgggtt tctaggtatt atcaattaaa gcctgtggga acagccggtc cggctaggag 6961 gcttggtgtc agaagagtat aatggcccaa gccattatag gagctattgc cgccaccgct 7021 gctggcagcg ccgtgggggc aggtatccag gctgggacag aagcagccct tcaataccag 7081 agatttcaac aagaccttac cctgcaggag aactcattta aacatgatga aagaatgcta 7141 ggtttgcaga ttgagggatc taacgctcta ctacaaaaga atctctctac tcgctataat 7201 cttttggttg gtgcaggcct ttcttcagct gatgctgcaa gatccatcgt tggggcccct 7261 gtgacaaaaa ttgtggactg gaacggagtg aggattgctg cccctacgtc cactgccacc 7321 acactccgat ctggcaactt tatgaatata ccagttacac tcaaaaagga gcctcaaaac 7381 ttaccattgc gctctacggg cttatctaat cctaattatg actcatctac aatgatttct 7441 aggacaactc agtgggtgga gtcacagaat tcaatcagga atttatcacc tttccataat 7501 tcagccctga ggaccacctg ggtgacccct cctggttcta cttctacctc cactttttct 7561 actgtttctt ctgcgccacg gttcttcaat accgagcgcc ttcctctgtt cgcaaacaat 7621 aggaaatag //