Typing tool
|
Complete norovirus genomes
MZ223425 | GI.2 | ||
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GI.P2 |
ORF1: 1..5367 ORF2: 5351..6991 ORF3: 6991..7626LOCUS MZ223425 7688 bp RNA linear VRL 23-MAY-2021 DEFINITION Norovirus GI isolate Hu/US/2014/GI.2[P2]/CA-RGDS-1106 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MZ223425 VERSION MZ223425.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7688) AUTHORS Pan,C.-Y., Huynh,T., Padilla,T., Montmayeur,A.M., Chhabra,P., Barclay,L., Vinje,J., Wadford,D.A. and Morales,C. TITLE Direct Submission JOURNAL Submitted (18-MAY-2021) Viral and Rickettsial Disease Laboratory, California Department of Public Health, 850 Marina Bay Parkway, Richmond, CA 94804, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R10; SPades v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7688 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="CA-RGDS-1106" /isolate="Hu/US/2014/GI.2[P2]/CA-RGDS-1106" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="USA" /collection_date="18-Jun-2014" /note="Amplicon sequencing: first 35 nt does represent primer sequence; genotype: GI.2[P2]" gene 1..5367 /gene="ORF1" CDS 1..5367 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QVK80300.1" /translation="MMMASNDAVATNVASNNNANNTSATSRFLSRFKGLGGGASPPSP IKIKSTEMALGLIGRTTPESTGTAGPPPKQQRDRPPRTQEEVQYGMGWSDRPIDQNVK SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNI GVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTV GVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCF EFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGL VSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASL LPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLE IFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEE EKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIG KTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNK LQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVY CSAPEVEQIRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTT INRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLR GVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCAAS VALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPRE HKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGR GRKNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDG GIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPIDWTPPKSAWADDDR EVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSI AIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIA SMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKS GNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVY EPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMD TPVPWSYSDACQSLDKTTSSGFPYHRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSM KPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPI KVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIMTESFSIMCRLTASPELAS VVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLITLCALSEVTGLSPDV IQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLV FLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEA SLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVN DDGV" mat_peptide 1..1197 /gene="ORF1" /product="p48" mat_peptide 1198..2286 /gene="ORF1" /product="NTPase" mat_peptide 2287..2883 /gene="ORF1" /product="p22" mat_peptide 2884..3297 /gene="ORF1" /product="VPg" mat_peptide 3298..3840 /gene="ORF1" /product="Pro" mat_peptide 3841..5364 /gene="ORF1" /product="RdRp" gene 5351..6991 /gene="ORF2" CDS 5351..6991 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QVK80301.1" /translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI" gene 6991..7626 /gene="ORF3" CDS 6991..7626 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QVK80302.1" /translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDVSTVSSRTSSWVQSQ NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR" ORIGIN 1 atgatgatgg cgtctaacga cgctgttgca actaatgttg caagcaacaa caatgctaac 61 aacactagtg ctacatctcg gtttctatcg agatttaagg gcttaggagg tggcgcaagc 121 ccccctagcc ctataaaaat caaaagtaca gaaatggctc tggggttaat tggcagaacg 181 accccagaat caacggggac cgctggtcca ccgcccaaac aacagaggga ccgacctcct 241 agaactcagg aggaggtcca gtatggtatg gggtggtccg acaggcccat tgatcagaac 301 gtcaaatcat gggaagagct tgacaccaca gttaaggaag agatcctaga caaccacaaa 361 gaatggtttg acgctggtgg tttgggccct tgcacaatgc ctccaacata tgaacgggtc 421 agggatgaca gtccacctgg tgaacaggtt aaatggtccg cacgtgatgg agtcaacatt 481 ggagtggaac gcctcacaac agtgagtggg cctgagtgga atctttgccc cttacccccc 541 attgatttga ggaacatgga accagctagt gaacccacta ttggagatat gatagaattc 601 tacgaaggcc acatctatca ttactccata tacattgggc aaggcaaaac agtcggcgtc 661 cattctccac aggcggcatt ttcagtggct agagtgacca tccagcccat agccgcttgg 721 tggagagttt gttacatacc ccaacccaag catagactga gttacgacca actcaaggaa 781 ctagagaatg agccatggcc atacgcggcc ataaccaata attgttttga attctgctgt 841 caagtcatga accttgagga cacgtggttg caaaggcgac tggtcacgtc gggcagattc 901 caccacccca cccagtcgtg gtcacagcag acccctgagt tccaacaaga tagcaagtta 961 gagttggtta gggacgccat attggctgca gtgaatggtc ttgtttcgca gccctttaag 1021 aacttcttgg gtaaactcaa acccctcaat gtgcttaaca tcctgtctaa ctgtgattgg 1081 accttcatgg gggtggtgga aatggtcata ctattacttg aactctttgg tgtgttctgg 1141 aacccgcctg atgtatccaa ttttatagcg tcccttcttc ctgatttcca tcttcaggga 1201 cctgaagact tggcacgaga tctagtccca gtgattcttg gtggtatagg cttagccatt 1261 gggttcacca gagacaaagt tacaaaggtc atgaagagtg ctgtggatgg tcttcgagct 1321 gccacacaac tgggacagta tggattagaa atattctcac tgctcaagaa gtacttcttt 1381 gggggggacc agactgagcg caccctcaaa ggcattgagg cagcagtcat agatatggag 1441 gtactgtcct ccacttcagt aacacagcta gtgagggaca aacaggcagc aaaggcctat 1501 atgaacatct tggacaatga agaagagaag gccaggaagc tctctgctaa aaacgctgac 1561 ccacatgtga tatcctcaac aaatgcccta atatcgcgca tatccatggc acgatctgca 1621 ttggccaagg cccaggctga gatgaccagt cgaatgcgac cagttgtcat catgatgtgt 1681 ggcccacctg ggattggtaa gaccaaggct gctgagcacc tagctaagcg tctagccaat 1741 gagatcagac caggtggtaa ggtggggttg gttccccgtg aagctgtcga ccactgggac 1801 ggttatcatg gtgaggaagt gatgctatgg gatgactatg gcatgacaaa aatacaagac 1861 gactgtaata aactccaggc cattgctgat tcggcccccc tcacattaaa ttgtgatagg 1921 attgaaaata aaggaatgca gttcgtttca gatgcaatag tcatcaccac caacgcccca 1981 ggccccgccc ctgtggactt tgtcaacctt ggaccagtgt gtagacgggt cgactttttg 2041 gtgtactgct ctgccccaga ggtggagcag atacggagag tcagccctgg cgacacatca 2101 gcactgaaag actgcttcaa gccagatttc tcacatttaa aaatggagct ggctccacaa 2161 ggtgggtttg ataatcaagg gaacacaccg tttggcaggg gcaccatgaa gccaacaacc 2221 attaatagac tcctcataca agccgtggcc cttaccatgg aaaggcagga tgagttccag 2281 ttgcagggga agatgtatga ctttgatgat gacagggtgt cagcgttcac caccatggca 2341 cgtgacaatg gcctgggcat cttgagcatg gcgggtctgg gtaagaagtt acgcggtgtc 2401 acaacgatgg agggcttgaa gaatgccctg aaggggtaca aaattagtgc gtgtacaata 2461 aaatggcagg ctaaagtgta ctcactagag tcagatggca acagtgtcaa cattaaagag 2521 gagaggaaca tcttaactca acaacaacag tcagtgtgtg ctgcctctgt cgcgctcact 2581 cgcctccggg ctgcgcgtgc ggtggcatac gcgtcatgca tccaatcggc tataacttct 2641 atactacaaa ttgctggctc agccctagtg gtcaacagag cagtgaagag aatgtttggc 2701 acgcgtactg ccaccctgtc ccttgagggc ccccccagag aacacaaatg cagggtccac 2761 atggccaagg ccgcaggaaa ggggcctatt ggccatgatg atgtggtaga aaagtatggg 2821 ctttgtgaaa ctgaggagga cgaagaagtg gcccacactg aaatcccttc tgccaccatg 2881 gagggcaaga ataaagggaa gaacaagaaa ggacgtggtc ggaagaacaa ctacaacgcc 2941 ttctcccgca ggggactcaa tgatgaagag tacgaagagt acaagaagat acgcgaggag 3001 aaaggtggca attatagcat acaggagtac ctagaggata ggcaaaggta tgaagaagaa 3061 ctagcagagg ttcaagcagg tggagatgga ggaatcgggg aaactgaaat ggaaatccgc 3121 cacagagtgt tctacaaatc taagagtaga aagcatcacc aggaagagcg acgccagcta 3181 gggctggtga caggttccga catccggaag agaaaaccaa ttgactggac cccacccaag 3241 tcagcatggg cagatgatga tcgtgaggtg gattataatg agaagatcag ttttgaggcg 3301 ccccccactt tatggagcag agtgacaaag tttgggtctg gatggggttt ctgggtcagc 3361 tctacagtct tcataaccac aacgcacgtc ataccaacca gtgcgaagga attctttggt 3421 gaacccctaa ccagcatagc catccacagg gctggtgagt tcactctatt caggttctca 3481 aagaaaatta ggcctgacct cacaggtatg atccttgagg agggttgccc cgagggcaca 3541 gtgtgttcag tactaataaa aagggactct ggtgaactac taccattggc tgtaagaatg 3601 ggcgcaatag catcaatgcg tatacagggc cgccttgtcc atgggcagtc cggcatgttg 3661 ctcaccgggg ctaatgctaa gggcatggac cttggaacca tcccaggaga ctgtggggct 3721 ccttatgtct ataagagagc caacgactgg gtggtctgtg gtgtacacgc tgctgccacc 3781 aaatcaggca acaccgttgt gtgcgccgtt caggccagtg aaggagaaac cacgcttgaa 3841 ggcggtgaca aaggtcacta tgctggacat gaaataatta agcatggttg tggaccagcc 3901 ctgtcaacca aaaccaaatt ctggaaatca tcccccgaac cactaccccc tggggtctat 3961 gaacctgcct acctcggggg ccgggaccct agagtaactg gcggtccctc actccaacag 4021 gtgttgcggg accaattaaa gccatttgct gagccacgag gacgcatgcc agagccaggt 4081 ctcttggagg ccgcagttga gactgtgact tcatcattag agcaggttat ggacactccc 4141 gttccttgga gctatagtga tgcgtgccaa tcccttgata agaccactag ttctggtttt 4201 ccctaccaca gaaggaagaa tgacgactgg aatggcacca cctttatcag ggagttaggg 4261 gagcaggcag cacacgctaa taacatgtat gaacaggcta aaagtatgaa acccatgtac 4321 acggcagcgc ttaaagatga actagtcaaa ccagagaagg tataccaaaa agtgaagaag 4381 cgcttgttat ggggggcaga cttgggcacg gtagttcggg ccgcgcgggc ttttggtcca 4441 ttctgtgatg ctataaagtc ccacacaatc aaattgccca ttaaagttgg aatgaattca 4501 attgaggatg ggccactgat ctatgcagaa cattcaaagt ataagtacca ttttgatgca 4561 gattacacag cttgggattc aactcaaaat agacaaatca tgacagagtc attctcaatc 4621 atgtgtcggc taactgcatc acctgaacta gcttcagtgg tggctcaaga tttgcttgca 4681 ccctcagaga tggatgttgg cgactatgtc ataagagtga aggaaggcct cccatctggt 4741 tttccgtgta catcacaggt taatagtata aaccattggt taataactct gtgtgccctt 4801 tctgaagtaa ctggtctgtc gccagatgtc atccagtcca tgtcatattt ctctttctat 4861 ggtgatgatg aaatagtgtc aactgacata gaatttgacc cagcaaaact gacacaagtc 4921 ctcagagagt atggacttaa acccacccgc cccgacaaaa gcgagggccc aataattgtg 4981 aggaagagtg tggatggttt ggtctttttg cgtcgcacta tctcccgcga cgccgcagga 5041 ttccaggggc gactggaccg ggcatccatt gaaagacaaa tctactggac tagaggaccc 5101 aaccattcag accctttcga gaccctggtg ccacaccaac aaaggaaggt ccaactaata 5161 tcattattgg gtgaggcctc actgcatggt gaaaagtttt acaggaagat ttcaagtaaa 5221 gtcatccagg aaattaaaac agggggcctt gaaatgtatg tgccaggatg gcaagccatg 5281 ttccgttgga tgcggttcca tgaccttggt ttgtggacag gagatcgcaa tctcctgccc 5341 gaatttgtaa atgatgatgg cgtctaagga cgcccctcaa agcgctgatg gcgcaagcgg 5401 cgcaggtcaa ctggtgccgg aggttaatac agctgacccc ttacccatgg aacctgtggc 5461 tgggccaaca acagccgtag ccactgctgg gcaagttaat atgattgatc cctggattgt 5521 taataatttt gtccagtcac ctcaaggtga gttcacaatc tctcctaaca atacccccgg 5581 tgatattttg tttgatttac aattaggtcc acatctaaac cctttcttgt cacatttgtc 5641 ccaaatgtat aatggctggg ttgggaacat gagagtcaga attctccttg ctgggaatgc 5701 attctcagct ggaaagatta tagtttgttg tgtcccccct ggctttacat cttcttctct 5761 caccatagct caggctacat tgtttcccca tgtaattgct gatgtgagaa cccttgagcc 5821 aatagaaatg cccctcgagg atgtacgcaa tgtcctctat cacaccaatg ataatcaacc 5881 aacaatgcgg ctggtgtgta tgctatacac gccgctccgc actggtgggg ggtctggtag 5941 ttctgattcc tttgtagttg ctggcagggt cctcacagcc cctagtagcg acttcagttt 6001 cttgttcctt gtcccgccta ccatagagca gaagactcgg gctttcactg tgcctaatat 6061 ccccttgcaa accttgtcca attctaggtt tccttccctc atccagggga tgattctgtc 6121 ccccgatgca tctcaagtgg tccaattcca aaatgggcgt tgcctcatag atggccaact 6181 cttaggcact acacccgcta catcaggaca gctgttcaga gtgagaggaa agataaatca 6241 gggagcccgc acactcaacc tcacagaggt ggatggtaaa ccattcatgg catttgattc 6301 ccctgcacct gtggggttcc ccgattttgg aaaatgtgat tggcatatga gaatcagcaa 6361 aaccccaaac aacacaagtt caggtgaccc catgcgcagt gtcagcgtgc aaaccaatgt 6421 gcagggtttt gtgccacacc tgggaagtat acaatttgat gaagtgttta atcatcccac 6481 aggtgactac attggcacca ttgaatggat ttcccagcca tctacacccc ctggaacaga 6541 tattaatctg tgggagatcc ccgattatgg atcatccctt tcccaagcag ctaatctggc 6601 ccccccagta ttcccccctg gatttggtga ggcccttgta tactttgttt ctgctttccc 6661 gggccccaat aaccgctcag ccccgaatga tgtaccctgt cttctccctc aagagtatat 6721 aacccacttt gtcagtgaac aagccccaac gatgggtgac gcagctttac tgcattatgt 6781 cgaccctgat accaacagga accttgggga gttcaagcta taccctggag gttacctcac 6841 ctgtgtacca aacggggtag gtgccgggcc tcaacagctc cctctcaatg gtgtttttct 6901 ctttgtttct tgggtgtctc gtttttacca gcttaagcct gtgggaacag ccagtacggc 6961 aagaggtagg cttggagtac gccgtatata atggcccaag ccattatagg agcaattgcc 7021 gcgtcagctg caggctcagc attgggtgcg ggcatccagg ctggtgccga ggctgcgctt 7081 cagagtcaaa gataccaaca agacttagcc ctgcaaagga atacttttga acatgataag 7141 gatatgcttt cctaccaggt ccaggcaagt aatgcacttt tggcaaagaa tctcaatacc 7201 cgctattcta tgcttgttgc agggggtctt tctagtgctg atgcttctcg ggctgttgct 7261 ggggcccctg tgacacaatt gattgattgg aacggcactc gggttgccgc ccccaggtca 7321 agtgcaacaa ctctgaggtc tggtggtttc atggcagtcc ccatgcctgt tcaacccaaa 7381 tctaaggccc tgcaatcctc tgggttttct aatcctgctt atgacgtgtc cacagtttct 7441 tctaggactt cttcttgggt gcagtcacag aattcactac gaagtgtatc accctttcat 7501 aggcaggccc ttcaaactgt atgggttact ccacctgggt ctacttcctc ttcttctgtt 7561 tcctcaacac cttatggtgt ttttaatacg gataggatgc cgctattcgc aaatttgcgg 7621 cgttaatgtt gtaatataat gcagcagtgg gcactatatt caatttggtt taattagtga 7681 ataatttg //