Typing tool
|
Complete norovirus genomes
MT372465 | GI.2 | ||
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GI.P2 |
ORF1: 5..5371 ORF2: 5355..6995 ORF3: 6995..7630LOCUS MT372465 7708 bp RNA linear VRL 28-APR-2020 DEFINITION Norovirus GI isolate Hu/US/2017/GI.2[P2]/Callao0618, complete genome. ACCESSION MT372465 VERSION MT372465.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7708) AUTHORS Randazzo,W., Olortegui,M.P., Kosek,M.N., Montmayeur,A.M., Tatusov,R.L., Chhabra,P., Browne,H., Barclay,L. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (22-APR-2020) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 11.1.2; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7708 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="Callao0618" /isolate="Hu/US/2017/GI.2[P2]/Callao0618" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="06-Sep-2017" /note="genotype: GI.2[P2]" gene 5..5371 /gene="ORF1" CDS 5..5371 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QJD23064.1" /translation="MMMASNDAVATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP IKIKSTEMALGLIGKTTPEAAGATGPPPKQQRDRPPRTQEEVQYGMGWSDKPVDQNVK SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVKGDDTPGEQVRWSARDGVNI GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF EFCCQVMNLEDTWLQRRLITSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL VSQPFKNFLGKLKPLNILNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNVLDNEE EKARKLSARNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY CSAPEVEQVRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTT INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTSMARDNGLGILSMAGLGKKLR GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGSNVNIKEERNILTQQQQSVCAAS VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE HKCRVHAAKAAGKGPIGHDDVVEKYGLCETEEDEEVVHAEIPTATIEGKNKGKNKKGR GRRNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDER EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKPHTIKLPI KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAT VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV IQSMSYFSFYGDDEIVSTDIEFDPVKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFEALVPHQQRKVQLISLLGEA SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN DDGV" mat_peptide 5..1201 /gene="ORF1" /product="p48" mat_peptide 1202..2290 /gene="ORF1" /product="NTPase" mat_peptide 2291..2887 /gene="ORF1" /product="p22" mat_peptide 2888..3301 /gene="ORF1" /product="VPg" mat_peptide 3302..3844 /gene="ORF1" /product="Pro" mat_peptide 3845..5368 /gene="ORF1" /product="RdRp" gene 5355..6995 /gene="ORF2" CDS 5355..6995 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QJD23065.1" /translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL FLVPPTIEQKTRAFTVPNIPLQALSNSRFPSPIQGMILSPDTSQVVQFQNGRCLIDGQ LLGTTPATSGQLFKVRGKINQGGRTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR ISKTPNSTSSGDPMHSVSVQTNVQGFVPHLGSIQFDEAFNHSTGDYIGTIEWISQPST PIGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFISAFPGPNSRSAPNDVPC LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYVTCVPNGVGAGPQ QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI" gene 6995..7630 /gene="ORF3" CDS 6995..7630 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QJD23066.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLTLQRN TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG TRVAAPRSNATTLRSGGFMAVPMPVQSKSKAPQSSGFSNPAYDMSTVSSRTSSWVQSQ NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR" ORIGIN 1 gtgaatgatg atggcgtcta acgacgctgt tgcaactaat gttgcaagca ataataatgc 61 taacaacact agtgctacat ctcgattttt atcgagattc aaaggtctag gaggtggcgc 121 aagcccccct agccctataa aaataaaaag tactgaaatg gccttggggt taattggcaa 181 gacaacccca gaggcagcag gggctactgg ccccccaccc aaacaacaga gagaccgacc 241 tcctaggacc caagaggagg ttcagtatgg tatggggtgg tctgataagc ccgttgacca 301 aaatgtcaag tcttgggaag agcttgacac tacggtcaag gaggaaatcc tggataatca 361 taaagaatgg tttgatgctg gcggtttggg cccttgcaca atgcctccaa catatgaacg 421 ggtcaagggt gatgacacac ctggcgaaca agtcaggtgg tccgcacgtg atggggtcaa 481 tattggggta gaacgcctca cgacagtgag tggacctgaa tggaacctct gccccttacc 541 ccccattgat ttgaggaaca tggaaccagc aagtgaaccc accatcggag acatgataga 601 attctatgaa ggtcatatct atcattattc tatatacatt ggacaaggca agacagttgg 661 tgtccattcc ccacaggcag cgttctcagt ggctagggtg actatccagc ccatagctgc 721 ttggtggagg gtttgctaca taccccaacc caagcacagg ctaagttatg accaacttaa 781 ggaattagaa aatgaaccat ggccctatgc ggctataacc aacaactgtt ttgaattttg 841 ctgccaagtc atgaaccttg aggacacatg gctacagagg cggttgatta catcgggcag 901 gttccatcac cccacccaat cgtggtcaca gcagacccct gaattccagc aagatagcaa 961 attagagttg gtcagagacg ctatactagc tgcggtgaat ggccttgtct cgcaaccttt 1021 taaaaacttc ttgggtaaac tcaaacccct caacatactc aacatcctgt ccaactgtga 1081 ttggaccttt atgggagtgg ttgaaatggt catactatta cttgaactct ttggtgtatt 1141 ttggaaccca cctgatgtgt ctaatttcat agcgtccctc ctccctgact ttcatctcca 1201 ggggcccgaa gatttagcac gagacctagt cccagtgatc cttggcggca taggactagc 1261 tattgggttc accagggaca aggtcacaaa agtcatgaaa agtgctgtag atggtcttcg 1321 agctgctacg cagcttgggc agtatgggtt agagatattc tcactactca aaaagtactt 1381 cttcgggggg gaccagacag aacgcactct caaaggcatt gaggcagcag tcatagatat 1441 ggaggtatta tcctccacat cagtaacaca actagtgagg gacaagcagg cagctaaagc 1501 ttacatgaac gtcttagaca atgaagaaga aaaggctagg aaactctctg ctaggaacgc 1561 tgacccacat gtgatctcct caacaaatgc cctgatatcg cgcatatcca tggcacggtc 1621 tgcattggct aaggcccaag ctgagatgac cagtcggatg agaccagttg tcatcatgat 1681 gtgtggtcca cctgggattg gcaagacgaa ggctgctgag catttagcaa agcgcctagc 1741 caatgagatc agacccggtg gcaaggtggg gctagtaccc cgcgaagctg tcgaccactg 1801 ggatggttat catggtgagg aagtcatgct gtgggatgat tatggcatga caaaaataca 1861 agatgactgc aacaaacttc aagctattgc tgattcggcc ccactcactc taaattgtga 1921 caggattgaa aataaaggga tgcaattcgt gtcagatgca atagtcatca ccaccaacgc 1981 cccaggcccc gcccctgtgg actttgtcaa ccttggtcca gtgtgcaggc gggtcgactt 2041 cctagtttat tgctctgctc ctgaagtgga gcaagtgagg agagtcagcc ctggtgatac 2101 atcagcactg aaagactgct ttaaaccaga cttctcccac ctaaaaatgg aattggcccc 2161 acaaggtggg ttcgacaatc aagggaacac accgtttggt agaggcacca tgaagccaac 2221 aactatcaat aggctcctca tacaagctgt ggccctcact atggagagac aagatgagtt 2281 ccagctgcag ggaaagatgt atgactttga tgatgacaga gtgtcagcat ttacctccat 2341 ggcacgtgac aatggcctgg gtattttgag catggcaggt cttggtaaga agctacgcgg 2401 tgtcacgaca atggagggct tgaagaacgc actgaaggga tacaaaatta gtgcatgcac 2461 aataaaatgg caagccaaag tgtactcatt agaatcagat ggcagtaatg tcaatattaa 2521 agaagagagg aacatcttga cccaacagca gcagtcagta tgtgctgcct ccgtcgcgct 2581 tactcgtctc cgggctgcgc gtgcggtggc ttatgcttca tgtatccaat cagccataac 2641 ttccatatta caaattgctg gctcagccct agtggtcaac agggcagtga agagaatgtt 2701 tggcactcgc actgccactt tgtccctaga aggccccccc agggaacaca aatgcagggt 2761 ccacgcggcc aaggccgcag gaaagggacc tattggccat gatgatgttg tggaaaagta 2821 cggactttgt gagactgagg aggatgaaga agtagtccac gctgaaatcc caactgccac 2881 catagaaggc aagaataaag gaaagaacaa gaaaggacgt ggccggagga acaactacaa 2941 cgccttctcc cgtaggggac tcaatgatga agagtatgaa gagtataaga agatacgtga 3001 ggagaaaggc ggcaattaca gtatacaaga gtacctagaa gacagacaaa ggtacgaaga 3061 agagctcgca gaagtccagg caggcggaga tggaggaatc ggggaaactg aaatggaaat 3121 tcgccacaga gtgttctata aatctaagag cagaaaacac caccaggaag aaaggcgcca 3181 actaggattg gtgacaggtt ccgacattcg caagagaaag ccaatcgact ggaccccacc 3241 caagtcagca tgggcagatg atgaacgtga ggtggactac aatgagaaga tcagctttga 3301 ggcgccccct actctatgga gtagagtgac aaagtttggg tccggatggg gcttctgggt 3361 cagttccaca gtcttcataa ccacaacgca cgttatacca actagtgcga aagaattctt 3421 tggtgagccc ttaaccagca tagctatcca cagggcaggc gagttcactc tcttcaggtt 3481 ctcaaagaaa atcaggcctg atctcacagg tatgatcctt gaggagggtt gccccgaggg 3541 tacggtgtgt tcggtactaa taaagagaga ctctggtgaa ctgttgccac tggccgtgag 3601 aatgggcgca atagcatcaa tgcgcataca gggccgcctt gtccacggac aatctggcat 3661 gttgctcact ggggccaatg ccaaaggcat ggatcttgga accataccag gagattgtgg 3721 tgccccttat gtctataaga gagccaatga ttgggtggtt tgtggcgtgc acgctgctgc 3781 caccaaatca ggtaatactg tagtgtgtgc cgtccaggcc agtgaagggg agactacact 3841 tgaaggtggc gataagggtc actatgctgg gcatgaaata attaagcatg gctgtggacc 3901 agccctgtca actaaaacaa agttctggaa atcatcccct gaaccactac cccctggggt 3961 ttatgaacct gcatatcttg gaggccgaga ccctagggtg actggtggcc cctcactcca 4021 acaagtgttg cgggaccagt tgaaaccatt tgctgaacca cgagggcgca tgccagagcc 4081 aggcctcttg gaagctgcag tcgagactgt gacttcatca ttagagcagg ttatggatac 4141 ccccgtccct tggagttaca gcgatgcgtg ccagtccctt gacaagacca ctagttctgg 4201 cttcccctac cacaggagaa agaatgatga ctggaatggt actaccttca tcagggagtt 4261 aggggagcag gcagcacatg ctaacaacat gtatgagcaa gctaaaagca tgaaacccat 4321 gtacacggca gcgcttaaag atgaattagt aaaaccagaa aaagtgtacc aaaaagtcaa 4381 aaagcgcttg ttgtggggag cagacttggg cacggtggtc cgtgctgcac gggctttcgg 4441 gcctttctgt gatgccataa agccccacac aattaaatta cctatcaaag ttgggatgaa 4501 ttcaattgag gatgggccat tgatttatgc tgaacattca aagtataaat atcattttga 4561 tgcagattat acggcttggg actcaactca aaataggcaa atcatgactg agtcgttttc 4621 aatcatgtgc cgacttacag catcacccga attagctacg gtggtggctc aagacctact 4681 tgcaccttca gaaatggatg ttggcgacta tgtcataaga gtcaaggagg gcctcccgtc 4741 tgggttccca tgtacatcac aagtcaatag tataaatcat tggctaataa ccctgtgtgc 4801 cctttctgaa gtgaccgggc tgtcaccaga tgttatccaa tccatgtcat acttttcctt 4861 ctatggtgat gatgagatag tatcaactga catagaattt gatccagtaa aactaacaca 4921 agttctcaga gagtatggac ttaagcccac ccgccctgac aagagcgagg gcccaataat 4981 cgtaaggaag agtgtggatg gtttggtctt cttacgtcgc accatttccc gtgacgctgc 5041 gggatttcaa gggcgattgg accgggcatc tattgaaaga cagatctact ggaccagggg 5101 gcctaatcac tcggaccctt ttgaggccct agtgccacac caacaaagga aggttcaatt 5161 aatatcattg ctaggtgaag cctcactaca tggtgaaaag ttttacagaa agatttcaag 5221 caaggtcatc caagagatta agacaggggg tcttgagatg tatgtgccag ggtggcaagc 5281 catgttccgt tggatgcggt ttcacgatct tggcttgtgg acaggagatc gcaatctcct 5341 acccgaattt gtaaatgatg atggcgtcta aggacgcccc ccaaagcgct gatggcgcaa 5401 gcggcgcagg tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacccg 5461 tggctgggcc tactacagcc gtagccactg ctgggcaagt taatatgatt gacccttgga 5521 ttgttaacaa ctttgtccag tcaccacaag gtgagtttac aatttcccct aacaataccc 5581 ccggtgatat tttgtttgat ttacaattag gcccacattt aaaccctttc ttgtcacatt 5641 tgtcccagat gtataatggc tgggttggaa atatgagagt tagaattctc cttgctggga 5701 atgcattctc agctggaaag atcatagttt gttgtgtccc ccctggcttt acttcttcct 5761 ctcttaccat agcccaggct acattgttcc cccatgtgat tgctgatgtg aggactcttg 5821 agccaataga aatgccactt gaggatgtgc gtaacgtcct ctatcacacc aatgataacc 5881 aaccaacaat gcgattggtg tgtatgctgt acacgccact ccgcactggt ggaggatctg 5941 gcagttctga ttctttcgta gttgctggta gggtgctcac ggcccctagc agcgacttta 6001 gcttcttatt tctcgtacca cccactatag aacagaaaac tcgggccttc actgtgccta 6061 acattccctt gcaagccttg tccaattcta ggtttccctc ccccatccaa gggatgattc 6121 tatcccctga cacatcccaa gtagttcaat tccagaatgg gcgctgcctc atagacggcc 6181 aactcctagg taccacacct gctacatcag gacagctatt caaagtaaga ggaaagataa 6241 accaaggagg ccgtacactc aatctcacag aagtggatgg taaaccattc atggcatttg 6301 actcccctgc acctgtgggg ttccctgact ttggaaaatg tgattggcat atgaggatca 6361 gtaaaactcc aaatagtaca agttcaggtg accctatgca tagtgtcagc gtgcaaacta 6421 acgtacaggg ttttgtgcct catttgggaa gtatacaatt tgatgaagca ttcaaccact 6481 ccacaggtga ttacattggt actattgaat ggatttccca gccatctaca cccattggaa 6541 cggacatcaa cttgtgggag attcccgact atgggtcatc cctttcccaa gcagctaatc 6601 tggcccctcc ggtattcccc cctggatttg gtgaggctct tgtgtacttt atttctgctt 6661 tcccaggtcc caatagccgt tcagctccaa atgatgtgcc ctgtcttctt ccccaagagt 6721 acataaccca ctttgttagc gagcaggccc caactatggg tgacgcagct ttgctgcatt 6781 acgtcgatcc tgacactaat aggaaccttg gggaattcaa actataccct ggaggttatg 6841 tcacctgtgt gccaaatggg gttggtgctg ggccacaaca gctccctctt aatggtgtct 6901 ttctttttgt ctcttgggta tctcgctttt atcaactcaa gcctgtggga acagccagta 6961 cggcaagagg taggcttggt gtgcgccgca tataatggcc caagccatta taggagcaat 7021 tgccgcgtca gctgctggct cagcactggg tgcaggcatc caggctggtg ccgaagctgc 7081 gctccagagt cagagatacc aacaggactt aaccctacaa aggaatacat ttgaacatga 7141 taaagacatg ctttcctacc aagttcaggc aagtaatgca ctcctagcta agaacctcaa 7201 cacccgctat tctatgcttg ttgcaggagg cctttccagt gctgatgctt caagggctgt 7261 tgctggggct ccagtgacac aattaattga ttggaacggt actcgggtag ctgcccccag 7321 atctaatgca acaaccctga ggtctggtgg ttttatggca gtccctatgc ctgttcagtc 7381 taaatccaag gcaccgcaat cttctgggtt ctctaacccc gcttatgaca tgtcaacagt 7441 ttcttctagg acttcttctt gggtacaatc acaaaattcc ttacgaagtg tgtcaccatt 7501 ccataggcaa gcccttcaga ccgtgtgggt caccccacct gggtctacct cttcttcttc 7561 tgtttcttcc acaccttatg gtgtttttaa tacagacaga atgccgctat tcgcaaatct 7621 gcggcgctaa tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaattg 7681 gtaactaatt tgattattga ttagtgtt //