Typing tool
|
Complete norovirus genomes
MH130046 | GI.7 | ||
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GI.PNA2 |
ORF1: 95..5404 ORF2: 5388..7028 ORF3: 7028..7678LOCUS MH130046 7734 bp RNA linear VRL 08-APR-2018 DEFINITION Norovirus GI strain Hu/BD/2011/GI.Pg-GI.7/Dhaka1882, complete genome. ACCESSION MH130046 VERSION MH130046.1 KEYWORDS . SOURCE Norovirus GI ORGANISM Norovirus GI Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7734) AUTHORS Nelson,M.I., Mahfuz,M., Chhabra,P., Haque,R., Seidman,J.C., Hossain,I., McGrath,M., Ahmed,A.Shamsir., Knobler,S., Vinje,J. and Ahmed,T. TITLE Genetic diversity of noroviruses circulating in a pediatric cohort in Bangladesh JOURNAL Unpublished REFERENCE 2 (bases 1 to 7734) AUTHORS Nelson,M.I., Mahfuz,M., Chhabra,P., Haque,R., Seidman,J.C., Hossain,I., McGrath,M., Ahmed,A.Shamsir., Knobler,S., Vinje,J. and Ahmed,T. TITLE Direct Submission JOURNAL Submitted (27-MAR-2018) 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..7734 /organism="Norovirus GI" /mol_type="genomic RNA" /strain="Hu/BD/2011/GI.Pg-GI.7/Dhaka1882" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122928" /country="Bangladesh" /collection_date="06-Jul-2011" /note="genotype: GI.Pg-GI.7" gene 95..5404 /gene="ORF1" CDS 95..5404 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AVT56082.1" /translation="MARIRGRIGPQRGETTTKIKDANMALDLLRRSQTPSPSRQDSPP KSQRDRPPRTVSEVKKVMGWDAEPEHQESTAKAWCDLSKEEKEEIMRNNERLFDAGGV TPSTLPSTFERAELSNTSTEQQTVSWSASDGVNIGVNDLTTVRGPFWNMCPLPPLDAR NNGPAKEPLIGDMIEFYEGHIFHYAIYMGQGKTIGVHSPQAAFSIPRITIHPLVAWWR VCYTPTSQQRLTYDQLKELENEPWPYASITNNCYEFCCRVMALDDTWLQRRLVSAGKF NHPTQEWSQDTPDFHQDSKLEMVRDAVLSAINGLVSQPFKNILSKIKPLNVLNLLSNC DWTFMGVVELIVLLAELFDIFWTPPDISSFIASLLPEFHLQGPEDLARDLVPLVLGGI GLAIGFTRDKITKVMKSAVDGLRSATQLGQYGLEIFSIIKKYFFGGDQTEKTLRGIED AVIDMEVLSSTNVTQLVKDKKLARAYMNVLDNEEEKARKLSVRSADPHIVTSVNNLIS RISMARSALAKAQAEMTSRPRPVVIMMCGPPGIGKTKAAEHLAGRLAAEIRPGGKVGL VPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAPLSLNCDRIENKGMQF SSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQMRRTHPGDASAIKDLY KRDYTHLKMELAPQGGFDNQGNTPFGKGVMKPTTLNRLLIQATALAMERQDEFQLQGA IYNFDEDRVAAFTNLARANGLGLISMATLGKRLRTVKTMEGLRNALVGYKIEECDIIW NTRAYSIKSDGNTVTIKEKQAPTSPQHQAICTATLALSRLRAARALAYASCLQSAVLS ILQVAGSAVVVSRAVKRMFGTRTDQPVLEGKHKEHSCRVHRAEAAGHGPIGHDGVIER YGLCESEQEEEEDQTMELPTANKEGKNKGKTKKGRGRKSNFNAFSRRGLSDEEYEEYK KIREEKSGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAEIRHRVFYKSKSGMRK QRQEERRQLGLVSGSEIRKRKPIDWTPPKNDWSEDTRTVNYDEHISFEAPPSIWSRVV KFGSGWGFWVSSTVFITTTHVIPPGAKEIFGESLSNVAIHRVGEFTQFRFSKKMRPDL TGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQGKLMHGQSGMLLTGAN AKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAIQGGEGEATLEGGG QNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLPPGTYEPAYLGGRDPRVEGGPSLQ QVLRDQLKPFAEPRGRLPEAGLLEAAVETVTNVLEQVMDTPVAWSFNDACMSLDKTTS SGFPHHKKKNDDWNGSAFVRELGDQAAHANNMYELGKPMKPVYTAALKDELVKPDKVY NKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGMNAIEDGPLIYAEHSK YKFHYDADYTAWDSTQNREIMMESFNIMCKLTANPSLAAVVAQDLLSPSEMDVGDYVI SVKDGLPSGFPCTSQVNSMNHWILTLCALSEVTGLSPDVIQSQSYFSFYGDDEIVSTD IEFDPNKLTQVLKEYGLKPTRPDKTDGPIIVRQQVDGLVFLRRTISKDAIGYQGRLDR NSIERQLWWTRGPNHDDPFETLVPHSQRKVQLVSLLGEAALHGEKFYRKIASRVIQEV KEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV" mat_peptide 95..1219 /gene="ORF1" /product="p48" mat_peptide 1220..2308 /gene="ORF1" /product="NTPase" mat_peptide 2309..2908 /gene="ORF1" /product="p22" mat_peptide 2909..3328 /gene="ORF1" /product="VPg" mat_peptide 3329..3871 /gene="ORF1" /product="Pro" mat_peptide 3872..5401 /gene="ORF1" /product="RdRp" gene 5388..7028 /gene="ORF2" CDS 5388..7028 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="AVT56083.1" /translation="MMMASKDAPSNMDGTSGAGQLVPEANTADPIPLEPVVGAATAAA TAGQVNMIDPWIMNNFVQSPEGEFTISPNNTPGDILFDLQLGPHLNPFLQHLSQMYNG WVGNMRVRILLAGNAFSAGKIIICCVPPGFTAQNISIAQATMFPHVIADVRVLEPIEI PLDDVRNVLFHTNENRPTMRLLCMLYTPLRAGGASAGTDPFVIAGRVLTCPSPDFNFL FLVPPSVEQKTRQLTVPNIPLNNLSNSRVPAMINKMAISPDANQVVQFQNGRCTTDGQ LLGTTPISASQVARIRGKVFSTSSGKGLNLSELDGSPYHAFESPAPVGFPDLGHCDWH VSSFKADQNSRDDPISRLDIKQGASFAPHLGSIEYTTSQNPDGDQLGTLTWISSPSED TPGHGTINLWKIPSYGSTVTESVHLAPPIYPPGFGETLVYFMSNFPIGHTSSSMAQVP CTLPQEFVAHFVNEQAPVRGDAALLHYVDPDTHRNLGEFKLYPEGYITCVPNTGGGGP QSLPTNGVFIFSSWVSRYYQLKPVGTAGPARRLGVRRV" gene 7028..7678 /gene="ORF3" CDS 7028..7678 /gene="ORF3" /note="minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="AVT56084.1" /translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQYQRYQQDLTLQQN SFKHDERMLGLQIEGSNALLQKNLSTRYNLLLNSGMSSADAARTIVGAPASKVVDWNG VRIAAPTSTATTLRSGNFMNIPVFQKTKQQSSSVLSSGYSNPNYDSSTLVSRTTQWVE SQNSSRSLPPFHPSALRTTWVTPPGSTSTSTYSSVSSAPRFFNTERLPLFANNGRK" ORIGIN 1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc 61 taacaccaac aatgaaaaca ttggatcccg ccttatggcg aggatccgtg ggcgtatagg 121 cccacaacgt ggtgaaacaa ccacaaagat caaggatgcc aacatggcgc tcgatttgtt 181 gcgccggtca caaacaccct ctccgtcccg acaggacagc ccccccaaga gtcaaagaga 241 ccgacctcca cgaactgtct cagaggtaaa gaaggtgatg gggtgggatg ctgaaccgga 301 acaccaagaa agtacggcta aagcgtggtg tgacctatcg aaagaagaaa aggaggaaat 361 aatgcgcaac aatgaaaggc ttttcgatgc tggaggggtc accccatcca ccctacctag 421 cacgtttgaa agagctgaat tgagcaacac ctcaactgaa cagcaaaccg tgtcttggtc 481 agccagtgat ggggttaaca ttggtgtaaa tgacttgacc accgtccgtg ggccattctg 541 gaacatgtgc cccctaccgc cactggatgc ccgcaacaat ggccctgcca aagagcctct 601 cattggggac atgatagagt tctatgaagg tcacatattc cattatgcca tatatatggg 661 ccagggcaaa accattggag tgcactcgcc gcaggccgcc ttctctatac ctagaataac 721 aatccatccc ttggtggctt ggtggcgtgt gtgttacact cccacaagcc agcaacgcct 781 cacatatgac cagctcaaag aattggaaaa cgagccatgg ccttatgcct ccatcaccaa 841 taattgctat gagttttgtt gcagagtgat ggcacttgat gatacctggc tccagaggag 901 actggttagt gctgggaaat ttaaccaccc cacacaagag tggtcacaag acaccccaga 961 ctttcaccaa gattccaagc ttgagatggt aagagacgct gtattgtcag ccatcaacgg 1021 cctcgtgtca cagcccttca aaaacatctt atcaaaaatt aaaccactta acgtgcttaa 1081 tctcttatca aattgtgatt ggacttttat gggggttgtg gagctgatcg tactcttggc 1141 tgagttattt gatatctttt ggactccgcc agatatttca agcttcatag cctcattgct 1201 acctgagttc catctgcaag gcccggaaga cctggctagg gacttggtcc cccttgtgct 1261 aggtggcatt ggcttagcga ttggcttcac gagagataag ataacaaaag ttatgaaaag 1321 tgctgttgac ggcctacgat cagcaacaca gcttggacaa tatggactgg aaatattctc 1381 aattataaag aaatacttct ttggggggga tcaaacagaa aagaccctaa gaggtattga 1441 ggatgcagtt atagacatgg aggtgttatc cagcactaat gtaactcaat tggtcaagga 1501 caagaaacta gctagagcat acatgaatgt gctggacaac gaggaggaga aggcccgaaa 1561 actctcagtc cgcagtgctg acccgcacat agtgacttct gttaacaact tgatatcacg 1621 catttcaatg gcaaggtcag cgctagctaa ggcccaagct gagatgactt ctcgcccccg 1681 accagtggtt ataatgatgt gtggaccccc tggcattggg aagacaaagg ccgccgagca 1741 tctagcaggc cgcctagctg ccgagattag gcctggggga aaggttggcc ttgtacctag 1801 agaatccata gaccactggg atggatacca tggcgaggat gtcctgctct gggatgacta 1861 tggtatgtca aagataacag aagattgcaa caaattgcag gctatagctg acaccgcccc 1921 gttgtcactc aactgtgata ggatagaaaa caagggtatg cagttctcat ctgatgcaat 1981 cattattacc accaatgccc ctggcccggc cccagttgac tttgttaatt tgggtcccgt 2041 gtgtaggcga gtggactttt tagtctattg ctctgcccct gagattgaac agatgcgaag 2101 aacccaccca ggtgatgcca gcgccatcaa ggacttgtac aagagggatt acacccacct 2161 aaaaatggaa ctagccccac agggcggctt tgacaatcag ggcaatacac catttgggaa 2221 aggtgttatg aagcccacga ccctcaacag actgttaatc caggctacag cactagccat 2281 ggagcggcag gatgagtttc agctccaagg ggccatttac aactttgatg aggacagagt 2341 agcagccttc actaacctag ctcgtgccaa tggcttgggg ctcataagca tggccacact 2401 aggtaaaagg ttaaggactg ttaagaccat ggaagggcta cgcaatgcac tggtgggtta 2461 caaaatagag gagtgtgaca taatttggaa taccagagca tattcaatca agagtgacgg 2521 gaacactgtc acgatcaagg agaaacaggc cccaacctca ccccaacacc aagctatctg 2581 tacggccacc ctcgcccttt ccaggctgcg ggctgctagg gcccttgcat atgcctcctg 2641 cttacaaagt gcagtgctgt caatactcca agtggcaggt tccgctgtgg tggtaagcag 2701 ggctgtgaaa cgcatgtttg gcacacgcac tgaccaacct gtactggaag gcaagcacaa 2761 ggagcatagt tgcagggtgc atcgagcaga agctgctgga cacggtccta ttggccatga 2821 tggagtcatc gagcgctatg gcctatgtga aagtgaacag gaagaagagg aagatcagac 2881 tatggaattg cccactgcta ataaggaagg caagaataag ggtaaaacta aaaagggccg 2941 cggccgtaag tctaacttca atgccttctc aaggcgcggc cttagtgatg aagagtatga 3001 ggagtataag aaaatcaggg aagaaaagag tggcaactac agcatacagg aatatcttga 3061 agaccgccaa cgctatgagg aggagctcgc tgaggtccag gcaggtggag atggtggaat 3121 cggcgaaact gaagcggaga tccgtcaccg agttttctac aagtcaaagt ctggcatgag 3181 aaagcagcgc caagaggaac gacgccagtt aggccttgtg agcgggtccg agatccggaa 3241 acgcaagcct atagactgga ctccccccaa aaatgattgg tcagaggaca ccagaacagt 3301 taattatgat gaacacatta gttttgaagc cccaccctca atctggagta gggtagtaaa 3361 atttggcagt ggctggggct tctgggtgag ctcaacagtg ttcatcacca caacacatgt 3421 cataccacct ggcgctaaag agatctttgg tgaaagcctc agcaatgtgg ccattcacag 3481 ggttggtgaa ttcactcaat ttcgattctc caaaaagatg agacccgacc tcaccggtat 3541 ggttctagaa gaaggttgcc cagaaggcac ggtgtgtact ataatgataa agagggattc 3601 tggtgagttg ctgccactag ctgtccgcat gggagcagtg gcttcaatga agatccaagg 3661 gaagctcatg catggacaat caggaatgct gctcactggc gccaatgcca agggcatgga 3721 tttaggaact atacctgggg actgtggggc accatacgtc cacaaaaggg ggaatgactg 3781 ggtagtctgt ggtgttcatg cggccgccac gaaatcaggt aatactgtgg tgtgtgctat 3841 tcagggtggt gagggtgaag ccacattgga gggtggtggc caaaataagg gtcattatgc 3901 agggcaccca atactgaggt atgggaatgg cccttcattg tcaactaaga caaagttctg 3961 gaagtcaacc ccccaaccat tgcctccagg cacctatgaa ccagcttatc ttggtggtag 4021 ggaccccagg gtcgaagggg gaccgtccct acagcaagtg ctaagagacc aactaaaacc 4081 atttgctgaa ccccgtggca gattgccgga ggcaggcttg ttagaagctg cggttgaaac 4141 agtcaccaat gtgcttgaac aagttatgga cacaccagtg gcatggagct tcaatgatgc 4201 ctgtatgtca ttagataaaa caaccagttc aggctttccc catcacaaga aaaagaatga 4261 tgattggaat gggagtgcat ttgtgagaga acttggagac caggcggccc atgccaacaa 4321 catgtatgag cttggtaagc ccatgaaacc tgtatacacg gcagccctca aggatgaact 4381 cgtcaagcca gataaagtgt acaacaagat taagaaaagg ctactttggg gggcagatct 4441 tggcactgtc atccgcgctg caagagcctt tgggccattc tgcgaagcca taaaacctca 4501 tgtgatcaag ctgcccatca aagtgggcat gaatgccata gaggatggcc ctctgatcta 4561 cgcagaacat tccaagtaca aatttcatta tgatgctgat tacacggcat gggattcaac 4621 acaaaacagg gaaatcatga tggagtcctt caacattatg tgcaaattga cagccaatcc 4681 ctctctggct gcagtggtgg cgcaagatct tctttctccc tctgagatgg atgttggtga 4741 ctatgtaatc agtgtcaagg atggcctacc gtctggtttc ccatgtacct cacaagtaaa 4801 tagcatgaat cattggatct tgaccctgtg tgctctatca gaggtgactg gactctcccc 4861 cgatgtgata cagtcacaat cctacttctc tttctatggt gatgatgaga tagtgtccac 4921 agacattgag tttgacccta ataaattaac ccaagtgcta aaagaatatg gcttgaaacc 4981 cacaagaccc gacaaaactg atggccctat cattgttaga caacaggtgg atggcttggt 5041 ctttctccgg cgcaccatat caaaagatgc cattgggtat caggggcggc tcgaccgcaa 5101 ctctattgag agacagttgt ggtggactcg cggacccaat catgatgatc cattcgaaac 5161 tctggttcca cattcgcaga gaaaagtcca gttggtgtct ttgttaggtg aagctgctct 5221 ccatggtgaa aagttttata ggaaaatagc cagcagagtt attcaagaag tcaaggaagg 5281 ggggcttgag atctacatac ccgggtggca ggccatgttc cgctggatgc ggttccatga 5341 tttgagtttg tggacaggag atcgcgatct cttgcccgat tatgtaaatg atgatggcgt 5401 ctaaggacgc cccttcaaac atggacggca ctagtggtgc tggtcagctg gtaccagagg 5461 caaatacagc tgatcctatt cctttagaac ctgtagtggg ggctgcaact gcagccgcta 5521 cggcaggtca agttaatatg attgacccct ggattatgaa taattttgta cagtcaccag 5581 agggcgagtt cacaatttcc ccaaacaaca cgcctggtga cattttattt gatttacaat 5641 tgggccccca tttgaatcca ttcctgcagc atctatcaca aatgtacaat ggctgggttg 5701 gcaacatgag ggttagaatt ttgctagcag ggaatgcgtt ttctgctggc aagataataa 5761 tctgttgtgt gccacctggc tttaccgccc agaatatctc tattgctcaa gccacaatgt 5821 tcccacatgt cattgctgat gttcgagttt tagagcccat tgagattccc cttgatgatg 5881 ttcggaatgt gctcttccac acaaatgaga atagacccac aatgcgctta ttgtgcatgc 5941 tctatacccc attgcgggcc gggggcgcgt ctgcgggcac ggatccgttc gtgattgcag 6001 ggcgcgtctt aacgtgccct tctccagact ttaatttctt gtttctagtc ccccccagtg 6061 ttgaacagaa aactaggcaa ttaactgtcc ccaacatccc attaaacaat ctatcaaatt 6121 ctagagtgcc cgccatgatc aataagatgg ctatttcccc agatgctaat caggttgtcc 6181 aatttcaaaa tggcaggtgc actacagatg gtcagctgtt gggcacaacc ccaatctctg 6241 cgagtcaagt ggcccgcatc cgcggcaaag tcttttctac ttcatcaggc aaaggattga 6301 atctgtctga gctggatggc agtccatacc atgcctttga aagccctgcc ccggttggtt 6361 tccctgatct tgggcattgt gattggcatg tctcttcctt caaggcagat caaaactcca 6421 gagatgatcc catttcacgc ctagatataa aacaaggggc ttcctttgcc ccacacctgg 6481 gttctattga atacaccact tcgcaaaacc cagatggtga tcagttaggc accctaacct 6541 ggatctcatc cccatcagaa gatactcctg gtcatggtac aatcaaccta tggaagattc 6601 cttcctatgg ttccacagtc actgagtcag tccatcttgc acccccaata taccctccag 6661 ggtttgggga gacacttgtt tattttatgt ctaactttcc aattgggcac actagttcca 6721 gtatggcaca agtcccatgc accctccctc aggaatttgt ggcacacttt gttaatgaac 6781 aggcccctgt tcgaggggat gcagcattgc ttcactatgt ggaccctgac acacacagaa 6841 atcttggtga gttcaaatta taccctgaag gttacataac ctgtgtgcca aacacgggtg 6901 gtggtggccc ccaaagtctc ccaaccaatg gagtatttat cttctcatct tgggtatcca 6961 gatattatca acttaagcct gtgggaacgg ctggaccagc caggaggctt ggagttagaa 7021 gggtataatg gcccaagcaa tctttggagc aatagctgcc actgccgcag gcagtgcggt 7081 gggagcagga attcaagcag ggactgaggc tgcattgcaa taccaaaggt atcaacaaga 7141 tttgaccctc caacaaaatt catttaaaca tgatgaaaga atgctaggcc tgcaaattga 7201 ggggtctaat gccctattgc aaaagaatct gtcaactagg tataatcttt tacttaattc 7261 aggtatgtcg tcagctgatg ctgcccgcac cattgtcggt gctcccgcct caaaggttgt 7321 ggactggaat ggtgttagga ttgcagcccc aacatcgacc gctaccacac tgcggtcagg 7381 caactttatg aacatacctg tctttcaaaa gactaaacag cagtcatctt ctgtgctgtc 7441 ttctggatat tctaacccta attatgattc ctctactctt gtgtctagaa ctactcaatg 7501 ggttgaatca cagaattcat ctagaagctt gcctcccttt catccttcag ctttaaggac 7561 cacgtgggtt acaccacctg gttcaacctc aacttctact tattcatctg tgtcttcagc 7621 gccccggttt ttcaacaccg agcgccttcc tttattcgca aataatggta ggaagtgaat 7681 ttttgtaata taatgtgggc atcatattca ttattggcaa ttttaattgg tttt //