Typing tool
|
Complete norovirus genomes
MG495078 | GII.27 | ||
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GII.P27 |
ORF1: 1..4869 ORF2: 4850..6481 ORF3: 6481..7237LOCUS MG495078 7237 bp ss-RNA linear VRL 16-JAN-2018 DEFINITION Norovirus GII strain Hu/PE/2012/GII.PNA1-GII.NA1/Loreto1041 nonstructural polyprotein gene, partial cds; VP1 gene, complete cds; and VP2 gene, partial cds. ACCESSION MG495078 VERSION MG495078.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7237) AUTHORS Chhabra,P., Olortegui,M.P., Kosek,M., Castro,C.J., Marine,R., Ng,T. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (13-NOV-2017) 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. 8 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7237 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/PE/2012/GII.PNA1-GII.NA1/Loreto1041" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="Peru" /collection_date="18-Oct-2012" /note="genotype: GII.PNA1-GII.NA1" CDS <1..4869 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AUD54968.1" /translation="PNGEDIVIKYTKKEEKISGVPTVSTVDISPLHDTAYSVPPLDQR EKVDAKEPLTGSILEMWDGEIYHYGLYVERGMVLGVHKPPSALSLARIELTPLSLYWR TVYTPPYLVAPDTLKKLHGESFPYTAFDNNCYMFCCWVLDLNDSWLNRKYVSRTTGFY RPYQEWNKKPLPTMDEGKLKKVANVLLCGLSGLFTRPIKDLIGKLRPLNILNIISNCD WTFPGVVEALILLAELFGIFWTPPDISAFVASLLGDYELQGPEDIATEIVPVVLGGIG MVLGFTKERIGRLLSSAASSLRACKEIGNYGIEVVKLIMKWFFPTKNEVNEMEMVRAI EDAVLDFEAIENNHMTTLLKDKNSLATFLRALDMEEEKARKLSTKSASPDIVGTINSL LARIAAARSLVHRAKEEMSSRMRPVVIMISGRPGIGKTHLARDLAKKMAATLTGDQRV GLVPRNGVDHWDAYKGERIVLWDDYGMSNPVQDALRLQELADTCPLTLNCDRIENKGK VFDSDTIIITTNLQNPAPLDYVNFEACSRRVDFLVYADSPTVDKAKRDFPGQPDMWKD AFKSDFSHIKLQLAPQGGFDRNGNTPHGKGVMKTLTTHSLIARATGLLHERLDEFDLQ GPELPLYNFDHNKVAAFRKLAADNKYGFMETIKAGNKLKEVKTLDQFKEAVKDIRIKP CRIIYNSTAYDLESSGSGRVTVKRVGDHKVQAHNELHSALNNLRKARIRYYVKCFQEM IYSLLQIAGAAFVTSRMTQRMNINKLWAKPERHVETPVEPPTPPIEDWTINPIDTVQE GKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERQGKYSIEEYLQDRDRYYEELA IAKATEENFCEEEEVKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKGKL WADDDRSVNYNERIDFEAPPSLWSRIVNFGSGWGFWVSSNLFITSTHVIPPGITEAFG VPMNQIQIHRSGEFCKMRFPKAIRPDVSGMILEEGAPEGTVTTILIKRTTGELMPLAA RMGTHATMKIQGRMIGGQMGMLLTGSNAKNMDLGTVPGDCGCPYVYKRGNDWVVIGVH TAAARGGNTVICATQGPDGEATLEGGDNHGTYCGAPILGPGSAPKLSTKTKFWRSSNE PLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTAPRGKPPRPAILEAAKETICN VLEQTIDPPQKWSYTQACASLDKTTSSGHPHHKKKNDNWNGESFTGVLADQASKANLM FEQRKHMQPVYTAALKDELVKTSKIYDNIKKRLLWGSDLGTMIRCARSFGGLMDEMKA NCVRLPVRVGMNMNEDGPIIFEKHSKYKYHYDADYSRWDSTQQRHILGVALEIMVRFS AEPELAQIVAEDLLSPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAMSEI SGLSPDVVQSNSCFSFYGDDEIVSTDIKLDPQKLTDKLREYGLIPTRPDKTEGPLMIK ESLEGLTFLRRDICRDPAGWYGKLDQSSIMRQMYWTKGPNHEDPNETMIPHSQRPIQL MSLLGEAALHGPAFYKKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRN LAPEGVNEDGVE" CDS 4850..6481 /note="ORF2; major capsid protein" /codon_start=1 /product="VP1" /protein_id="AUD54969.1" /translation="MKMASNDAAPSNDGAAGLVPEINNETMALEPVAGGAIAAPLTGQ TNFIDPWIRNNYVQAPNGEFTVSPRNSPGEILLNLELGPELNPFLAHLSRMYNGYAGG IDVQVIMAGNAFTAGKIIFAAVPPHFPIDNISPPQITMFPHIIIDVRTLEPVNIPLPD VRNSFFHYSQNNEPRMRLLAMLYTPLRSNGSADDVFTVSCRVLTKPSADFEFNYLVPP TVESRTKPFTIPILTIGEMTNSRFPVAIDMLHTSPTDNFIVQPQNGRCTLDGELQGTT QLVTSNICAFRGSISGHENNGDQHQWHFSITNPNGTPFDPTEDVPAPLGTPDFKGQLY GVISQRNREGSPGNGNQKANRSHEGVISTVAPRFTPKLGSVMIGTWTTDDIQDQPSRF TPVGLNDDDNYKQWELPNYSGALTLNMGLAPSVFPTYPGEQLLFFRSYIPMKGGYGSP YIDCLIPQEWISHFYQESAPSQTDVALIRYVNPDTGRVLFEAKLHRQGYITVAKTGDS PINVPANGYFRFDSWVSQFYSLAPMGTGNGRRRIQ" CDS 6481..>7237 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AUD54970.1" /translation="MAGAFIAGLAGDMLTNTVGSLVNAGANVINQKVDFENNKYLQNA SFAHDKEMLNAQVEATKKLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG TRYWAPNATTTTSMSGGFTSQVMHRPTPNLKTNQAPKSIPSSGSSVRSNSTQLTSLSS HSSGSSRTSGSTAISSLPSSSRTRDWVNQQNLNLEPHLPGSLKTAFVTPPSSTASSSG TVSTVPKGVLDSWTSAFNTRRQPLFAHLRRRGES" ORIGIN 1 cccaatggag aggacattgt catcaagtat accaaaaagg aggagaagat cagcggagta 61 cccaccgtct caactgtgga catttccccc ctgcatgaca ccgcatatag tgtcccccct 121 ctagaccaga gagagaaggt ggacgcaaag gaacccttaa caggttcgat acttgagatg 181 tgggacggtg aaatctacca ctatggcctt tatgtggaga ggggtatggt tctaggcgtg 241 cacaaaccac catccgcttt gagcttggcg cgtatcgaac taactcctct ctccctctac 301 tggaggactg tttacacacc accctaccta gtcgctccag acaccctcaa gaagctccat 361 ggtgagtctt tcccctacac ggcctttgac aataattgct atatgttttg ctgctgggta 421 ctagacttga atgactcatg gcttaacagg aagtatgtgt caagaaccac gggtttctac 481 agaccctacc aagaatggaa taagaagcct ttgccaacca tggatgaggg caaactcaag 541 aaagtggcca acgtgttgtt atgtggcctc tccggtctgt tcaccaggcc catcaaggat 601 ctcataggca aattgagacc gctaaacata ctcaacatca tatctaactg tgattggacc 661 ttccccggtg ttgttgaagc cctcatcctg cttgcagagc tctttggcat cttctggacc 721 cctccagaca tatcagcttt tgtcgcctcc ttgctgggtg actatgagtt gcaaggccct 781 gaggacatcg caaccgagat cgtgcctgtc gtcctcggtg gtattggcat ggttcttggt 841 ttcactaagg agaggattgg ccggctattg agctcagccg catcatcgct acgagcatgt 901 aaagagattg gcaactatgg gatagaggtg gttaaactaa taatgaaatg gttcttcccc 961 accaaaaatg aagtcaatga gatggagatg gtgagggcaa tagaggatgc agtgcttgat 1021 tttgaggcaa tagagaacaa ccacatgaca accctgctca aagacaagaa cagcttggcc 1081 actttcctta gagcgctgga tatggaagaa gagaaggcgc gaaaactgtc aaccaaatcc 1141 gcgtccccag acatagttgg taccataaac tccctcctag ccagaattgc tgccgccagg 1201 tccctagtcc acagggccaa agaagaaatg tcatctagga tgcgtcctgt tgtcatcatg 1261 atatctggac gacctgggat agggaagact cacttggcac gtgatctggc caagaagatg 1321 gcggcgactc tcacaggtga ccagagagta gggctcgtcc caagaaacgg tgttgaccac 1381 tgggatgcgt acaaaggaga gaggattgtt ctttgggacg attatggcat gagtaaccct 1441 gtacaggatg ctcttcgcct tcaggagctt gcggacacct gccctctgac actcaactgt 1501 gacagaatag aaaacaaggg aaaagtgttt gacagtgaca ccataatcat cacaaccaac 1561 ttgcaaaatc cggccccact tgattatgtg aactttgagg catgttcccg ccgagtcgac 1621 ttcctcgtct atgcggattc cccaacagtc gacaaagcaa agagggactt ccctggccaa 1681 ccagacatgt ggaaggatgc cttcaaatca gatttctcac atataaagtt acaattggca 1741 ccacaggggg gattcgacag gaacgggaac accccgcacg gtaagggggt catgaaaact 1801 ctcaccacac actccctaat agccagagcc accgggctgc ttcatgaaag actggatgaa 1861 tttgacctgc agggcccaga attaccactg tacaattttg accacaacaa ggtggccgct 1921 ttcaggaagc ttgcagctga caacaaatat ggtttcatgg agaccataaa ggcaggcaac 1981 aagttgaagg aagttaagac ccttgaccag ttcaaagagg ctgtgaagga catacgcata 2041 aaaccttgca gaattatcta caattccacg gcctatgatc tagaatcaag tggatctggg 2101 agagtcactg tgaagagagt gggggaccat aaagtccaag cccacaatga gctccattct 2161 gcccttaaca acctacgcaa ggccaggatt aggtactatg ttaaatgctt ccaagagatg 2221 atctattcgc tcctccagat tgctggagcg gcttttgtca cctcgaggat gacacagagg 2281 atgaacatca acaagctgtg ggccaagcct gagaggcacg tggaaactcc cgtagaaccc 2341 ccaaccccac cgattgagga ctggactata aatccaattg acacagtcca ggaaggcaag 2401 aagggtaaaa acaagagtgg caggggcaag aaacacactg cattctccag caagggtctc 2461 agtgatgagg agtatgatga atacaagaga atcagagaag agagacaagg gaaatactcc 2521 atagaagaat acctccagga cagggaccga tattatgaag aattggccat agccaaagcc 2581 actgaagaaa atttctgtga agaggaagag gttaaaataa ggcagagaat cttcaggcca 2641 accagaaaac aacgcaaaga ggagagagcc tcattgggtc tggtcacagg cagtgaaatc 2701 cggaagagga acccagatga cttcaaaccg aaaggaaaac tgtgggctga cgatgaccgc 2761 agcgtcaact acaatgagag aatagacttt gaggcccctc ccagcctgtg gtccagaata 2821 gtcaactttg gttcgggctg gggcttttgg gtttcttcca acctgttcat cacctccaca 2881 catgtcatcc caccgggcat aacggaggcc tttggagtgc caatgaacca aatccaaatc 2941 cacagaagtg gggagttttg caaaatgaga ttccctaaag ccatcaggcc tgatgtgtct 3001 ggaatgatcc tcgaggaggg agcacctgaa gggacagtaa caaccatact gattaagaga 3061 acaactggag agctcatgcc attggcagcc cgcatgggta cccacgccac catgaaaatc 3121 cagggaagga tgatcggagg ccagatgggg atgctcctca caggatctaa tgctaagaac 3181 atggacctcg gcactgtccc cggtgactgt ggctgcccat atgtctacaa aagaggcaat 3241 gactgggtgg tcataggggt gcacaccgct gctgccagag gcggcaacac ggtaatatgt 3301 gccacccagg gtccagatgg tgaagccaca ctcgaggggg gagacaacca cgggacatac 3361 tgtggggcac caatcctggg tccagggagc gctccaaaac tcagcactaa aaccaaattc 3421 tggaggtcct ccaatgaacc actccccccc ggcacgtatg aacctgccta ccttggtgga 3481 aaagatccaa gagtcaaagg tggaccttca ctacaacaag tcatgaggga acaactcaag 3541 cctttcaccg ctcctcgggg gaaaccgccg agaccagcaa tcctggaagc cgccaaggaa 3601 accatctgca acgtgcttga gcagaccatt gacccacccc agaagtggtc atacacacaa 3661 gcatgtgcct ctctggacaa gacaacatca agtggacacc cccaccacaa aaagaaaaat 3721 gacaactgga acggtgaatc ctttactggc gttctggccg atcaagcatc aaaagcaaat 3781 ctcatgtttg aacaaagaaa acacatgcaa cctgtgtaca cagccgcgct caaggatgaa 3841 cttgttaaga ccagtaaaat ctatgacaac atcaaaaaga ggctcttgtg ggggtctgat 3901 cttggcacaa tgatccgctg tgcaaggtca tttggagggc tcatggatga aatgaaggcc 3961 aactgtgtga gacttcccgt tagggttgga atgaacatga atgaagatgg acccattatc 4021 tttgagaaac attcaaaata caaatatcat tatgatgctg actactccag atgggattca 4081 acccaacaaa ggcacatctt gggtgtcgca ttggaaatca tggttaggtt ctcagccgaa 4141 cctgagttgg cacaaatagt ggctgaggat cttttgtcgc ccagtgtggt ggatgttggc 4201 gacttcaaga tcacaataaa tgaaggtcta ccctcgggtg tcccctgcac atcccaatgg 4261 aattcaattg ctcactggct attaacactg tgtgccatgt cagaaatatc agggctatcc 4321 cctgacgtgg tgcaatcaaa ttcttgtttc tccttctatg gggatgacga gatagtcagc 4381 acagatataa aattggaccc acaaaaatta acagataagt tgagagagta tgggctaatt 4441 ccaacccgac ctgacaaaac tgaaggacca ctcatgatta aagagagttt ggagggtttg 4501 acatttctaa ggagagacat atgtagggac ccggctggct ggtatggtaa gctcgaccag 4561 tcatcaatca tgaggcaaat gtactggacc aaaggaccca accatgagga ccccaatgaa 4621 acaatgatcc cacactccca gagaccaata caactgatgt cccttctcgg tgaggctgcc 4681 cttcatgggc ccgcattcta caaaaagatt agcaaattag tcatcaccga gctcaaagaa 4741 ggtgggatgg atttttatgt gcccaggcaa gaaccaatgt tcaggtggat gagattctct 4801 gatttgagca cgtgggaggg cgatcgcaat cttgctcccg aaggtgtgaa tgaagatggc 4861 gtcgaatgac gccgctccat ctaatgatgg cgcagccggt ctcgtaccag agatcaacaa 4921 cgagacaatg gctttggaac cagttgcagg aggagcgatc gccgcccccc taactggaca 4981 aacaaatttc attgatccct ggattagaaa taattatgta caagcaccca atggtgaatt 5041 cactgtgtcc ccaaggaatt cccctggtga aattttgctc aatttagaat taggccctga 5101 acttaatcca ttcttggccc atttatctag aatgtataat ggatatgctg gtggcattga 5161 tgtccaagtc atcatggcgg gcaacgcctt caccgctgga aagatcatct tcgcagcagt 5221 gccacctcat tttcctattg ataacatcag ccccccacag ataaccatgt ttccccatat 5281 tataatagat gtgagaaccc ttgaacctgt gaacattccc ctgcctgatg tcagaaatag 5341 cttcttccat tacagccaga acaacgagcc ccgcatgaga ttgttggcca tgttgtatac 5401 ccctctcaga tcaaatggct ctgcagacga tgtcttcaca gtatcctgca gggtcctgac 5461 caagccttct gcagattttg aatttaatta tttggttccc ccaactgttg agtccagaac 5521 taaacccttc accataccaa tactcacaat tggagaaatg acaaattcaa gattccctgt 5581 ggccattgac atgctgcaca ccagccccac tgacaatttt attgttcagc cacaaaatgg 5641 caggtgcacc ctggatggtg agctgcaagg caccactcag ttggtcactt caaacatatg 5701 tgccttcagg gggtccatct cagggcacga gaacaatgga gatcaacatc agtggcactt 5761 cagtatcacc aaccccaatg gcactccatt tgacccaact gaagatgtgc ccgccccact 5821 tgggacccca gatttcaaag gtcaactcta cggggtcatc tcccaacgga atagagaagg 5881 aagccctggt aatggcaacc aaaaggccaa taggtcccat gagggagtga tttcaacagt 5941 tgcaccaaga ttcacaccaa aattagggtc ggtcatgatt ggcacttgga ccactgatga 6001 catacaagac caaccatcta gattcacccc agttgggctg aatgatgatg acaattacaa 6061 gcaatgggaa ttgccaaatt attctggggc tctcaccctc aatatggggt tggcaccttc 6121 tgtcttcccc acctaccctg gtgaacaact tcttttcttc cgctcctaca taccaatgaa 6181 gggagggtac ggcagtcctt acattgattg tcttataccc caagagtgga tttcccactt 6241 ttaccaggaa tcagcccctt cacaaacaga tgtggcttta atcaggtatg tgaaccccga 6301 cacaggacgc gtcctgttcg aggccaaatt gcacagacaa ggatacatca ccgtcgccaa 6361 gactggtgac agccccatca atgtgcccgc aaatggttac ttcaggtttg attcttgggt 6421 tagtcaattt tactctcttg cccccatggg aactgggaac gggcgcagaa ggattcagta 6481 atggctggag cttttatagc aggattggct ggtgacatgc tcacaaacac tgtagggtct 6541 ttagttaatg caggagctaa tgttatcaat cagaaagttg attttgagaa taataaatat 6601 ttgcaaaatg catcatttgc tcatgataaa gaaatgttga atgcacaagt tgaggcaaca 6661 aagaaactgc aggctgatat gattgccatt aagcaagggg tcttgaccgc tggcggcttt 6721 tcccccactg atgcagcccg cggggctatt aatgccccca tgacaaaagt tttggattgg 6781 aacggaacaa ggtactgggc acctaatgcc accaccacaa catcaatgtc aggtggtttc 6841 acaagccagg tcatgcacag gcccacacca aatcttaaga caaaccaggc ccccaaatcc 6901 ataccaagta gtgggtcttc ggtaagatcc aactcaaccc aactcaccag tctgagctcg 6961 cactcatccg gatcatctcg gaccagcggg tctacagcta tcagttccct accgtcttcc 7021 agcaggacta gggattgggt taaccagcaa aaccttaatt tggaaccaca tttgcctggg 7081 tctcttaaaa cagcttttgt cactccacca tctagtacag cctctagctc gggcacagtc 7141 tcaaccgtgc ctaagggtgt tttggactcc tggacatccg cgtttaacac acgcagacag 7201 ccgctattcg cacaccttcg tagaaggggg gagtcaa //