Typing tool
|
Complete norovirus genomes
MT010298 | GIX.1 | ||
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GII.P15 |
ORF1: 1..4884 ORF2: 4865..6532 ORF3: 6532..7263LOCUS MT010298 7263 bp RNA linear VRL 15-JUL-2020 DEFINITION Norovirus GIX isolate SCD1055_2 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MT010298 VERSION MT010298.1 KEYWORDS . SOURCE Norovirus GIX ORGANISM Norovirus GIX Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7263) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Whole Genome Analysis for Co-Infected Different Genotypes of Human Norovirus JOURNAL Unpublished REFERENCE 2 (bases 1 to 7263) AUTHORS Zhang,Z., Wang,D., Liu,D., Zhang,Z. and Wu,Q. TITLE Direct Submission JOURNAL Submitted (28-JAN-2020) School of Agriculture & Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd. Minhang Dist, Shanghai 200240, China COMMENT ##Assembly-Data-START## Assembly Method :: CLC genome workbench v. 12 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7263 /organism="Norovirus GIX" /mol_type="genomic RNA" /isolate="SCD1055_2" /isolation_source="anal swab" /host="Homo sapiens" /db_xref="taxon:2594528" /country="China: Shanghai" /collection_date="18-Feb-2018" /note="genotype: GIX.1[GII.P15]" gene <1..4884 /gene="ORF1" CDS <1..4884 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHR97557.1" /translation="MRVPSPPPNGEDAVRFVKETETIKGLPDLSTVENESEHSPYTVP PLSEREHRPATEPLPGTILEMWDGEFYHYSIYVDNGKALGVHKPPAAISLATIDLTPI SLYWRPVYTPPYLVHPETLKGLAGEKFPYTAFSNNCYNFCCWVLDLNDSWLNRRSITR TTGFFKPYQSWNRKPLPTVDDGKIKKVANAVLCALGSLFSKPIKDLLGKLKPLNLLNL LASCDWTFAGVVETVILAAELFNVFWTPPDVSNFIASIIGDFEMQGPEDLAVELVPVI MGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEME TLRAIEDAVLDMEAIGNNHLTTLLKDKDSLSAYMKTLDMEEEKARRLSTKSSSPDIVG TINAILARIAAARSLLHKAKEEMFSRARPVVVMVSGRPGIGKTYLARQLAKSIANSMS GDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNTIKDALTLQELADTCPVTLNCDRI ENKGKMFDSDVIIITTNLVNPAPLDYVNFEACCRRIDFLVYAEAPDIEKVKKDFPGQP DMWRDHFKADSSHIKLSLAPQGGFDKNGNTPHGKGTMKTLTLHSLTARVMGLVCERKD EFQLQGDELQVYNFDTNKVSAFRKLAADNKYSFVETMKVGAVLKNVKTLEDLKSALKG VKFKECEIIYKGAKYRVASDGCGSVSVSKIKDVVSQTANEVHTALLRLRQARARYYIS CFQDLIYTLIQVAGASFVVHRISKRFSWDRWIKPSDSPQEEEQPSSEVATGRWEIEPK DTDPEGKKGKNKKGRGRKHTAFSSKGLSDEEYDEFKRIREEKNGKYSIEEYLQDRDRF YEEVAVARATEEDFCEEEVAKIRQRIFRPTKKQRKEERGILGLVTGSEIRKRRPDDFQ PKGNLWADDTRSVDYNEKLEFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGL KELFGVDIKQVQIHKSGEFCRFRFPRPIRPDVTGLILEEGAPEGTVCSILVKRPTGEM IPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTNPGDCGCPYIFKRGNDIV VAGVHTAAARGGNTVICATQGADGEAVLEGGEDKGTYCGAPILGLGKAPKLSTKTKFW RSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMREQLKPFTEPRGKPPKPNVLDEAK KTVMNVLEQTINPAKPWSYSQACASLDKTTSSGSPHHLRKNDHWNGESFTGPLADQAS KANLMYEQAKHMSPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMVRCARAFGGLM DSMKESCVMLPCRVGMNMNEDGPIIFDKHAKYKYHYDADYSRWDSTQQRSILSAAMEV MVKFSAEPELAQVVAEDLLAPSQLDVGDFVVSVQEGLPSGVPCTSQWNSIAHWIITLS AMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPAKLTLKLREYGLVPTRPDKTEG PLVITEDLHGLTFLRRHITRDPAGWFGKLDQDSILRQLYWTRGPNHENPYECMVPHSQ RATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTW EGDRNLAPDGVNEDGVE" mat_peptide <1..789 /gene="ORF1" /product="p48" mat_peptide 790..1887 /gene="ORF1" /product="NTPase" mat_peptide 1888..2409 /gene="ORF1" /product="p22" mat_peptide 2410..2808 /gene="ORF1" /product="VPg" mat_peptide 2809..3351 /gene="ORF1" /product="Pro" mat_peptide 3352..4881 /gene="ORF1" /product="RdRp" gene 4865..6532 /gene="ORF2" CDS 4865..6532 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHR97558.1" /translation="MRMASSDAPVSGTDGAAGLVPESQQEVLPLEPVAGVQLAAPVAG QSNIIDPWIRMNFVQAPAGEFTVSPRNAPGEVLIDLELGPELNPYLNHLARMYNGYVG GMEVEVVLAGNAFTAGKILFAAVPPSFPTHGISAAQATMLPHVIVDVRQLEPVRLPLP DVRNVMFHFCQENKEPRMRIVAILYTPLRANGAGDDVFTVSCRVLTRPSPDFDFIFLV PPSVESKLKQFTLPNLQPNEMTNSRFPTGITQLYTSPNTNLVVQFQNGRCLLDGTLLG TTPVRAADICSFRGVTSTEVDATDSPRVAGSHRIMVQLKEPDGEEFSPTGPNPAPVGT PDFQAAIFGTLSQRNTGGAGQNSNRAHFAYFYTRNPTFAPGIGTVVFSFDTTDFQNRQ PTKFSPSGVFDDDSSEPFNQFSLPYYNGSLGAVDAGKLAPPVAPNYPGEQILYFRGNI PFKGGYGEGEIDSLLPQEWITHFYAEQAPTQGDAALLRYYNPDTGRVLFECKLHREGF ITINYTGSNALAVPVNGVFRFEGWVNKFYTLTPMGNGNGRRGRRREL" gene 6532..7263 /gene="ORF3" CDS 6532..7263 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHR97559.1" /translation="MAGAFFAGLASDVLGSGLSSLIGAGANAINQKVEYDYNRHLQSA SFQHDKDMLNSQVEATKHLQREMMAIKEGMLLKGGFSPTDAARGAVNAPMTQILDWNG TRYWAPGAMKTTAYSGRFVSQSTHRPIPNVVHKSDGPIHQTGSTTGSISSLSTSSTRV PSSTSSSSSASRTRDWVSEQQRLSPFMRGSLHTAYVTPPSSSASSVSSVSTVPHHVLD SWTPSFNTKHLPLFAHVRKRGQSQV" ORIGIN 1 atgcgtgtac cctctccccc cccaaacggt gaggacgcag tccgcttcgt gaaggaaacg 61 gagaccatca agggactgcc agatttgtcc accgtggaga acgaatctga acactccccg 121 tacacagtcc ccccgttgag tgagagggag cacagaccag caacagagcc attgcccggc 181 actatacttg aaatgtggga tggtgagttc tatcactact ccatatacgt ggacaatggc 241 aaggcccttg gtgttcacaa accaccagca gcaattagcc tagcaacgat agatttgaca 301 cctatatcgt tgtactggag accggtttac acaccgccgt accttgtcca cccagagacg 361 ctcaagggac tggctggcga aaagtttccc tacacggctt tcagcaacaa ctgctacaac 421 ttctgttgct gggttctgga cctcaatgat tcatggttaa accggagatc cataactaga 481 acaactggat tcttcaaacc ctaccaatcc tggaatagga aaccccttcc aactgtggat 541 gatggcaaga tcaagaaggt tgcgaatgca gttctgtgcg ccctaggatc acttttctcc 601 aagcccatta aggacctcct tggtaaatta aaacccctca atctcctgaa cttgcttgca 661 tcatgtgatt ggacctttgc tggcgtggtg gagacagtca ttcttgcagc agagctcttc 721 aatgtctttt ggactccacc tgatgtctcc aacttcattg cttccataat tggcgacttc 781 gagatgcaag gaccagagga tcttgctgtg gagcttgtcc ctgttatcat gggaggcatt 841 ggtatggtgt tgggattcac agctgagaag atagggcgta tgttatcatc tgcagcatcc 901 actctcaggg cttgtaagga ccttggcaat tacgccttag acatcctgaa actagtcatg 961 aagtggtttt tccctaaaaa ggaggaaaag gccgagatgg aaaccctgag ggccattgag 1021 gacgctgtcc ttgacatgga ggcaattgga aacaaccatc tcacaacact gctcaaagac 1081 aaagatagct tgagcgccta catgaagacc ttagacatgg aggaggagaa ggctaggagg 1141 ctctccacta aatcatcatc acccgacatt gttggcacca tcaacgcgat cctcgcacgc 1201 attgctgccg caagatcact cctacacaaa gccaaagagg aaatgttcag tcgagcgagg 1261 cctgttgtcg ttatggtttc tggaaggccc ggcatcggga agacatatct ggctagacag 1321 cttgccaaat cgattgcaaa cagcatgagt ggcgatcaga gagtgggact cgtcccccgc 1381 aatggggttg accactggga tgcttatagg ggtgaaagag ttgtcctatg ggatgactat 1441 ggcatgggaa atacaatcaa agatgcccta accctacaag agttggctga cacctgccca 1501 gttaccctca actgtgacag gattgaaaac aaggggaaga tgtttgacag tgatgtcatc 1561 ataataacaa ccaatcttgt caaccccgct cccctcgatt atgttaattt tgaggcttgc 1621 tgtaggcgaa ttgacttcct tgtttatgcc gaggcaccgg acattgagaa agtcaaaaag 1681 gatttccctg gacaacctga catgtggcgt gatcatttca aagctgactc gtcacacata 1741 aagttatcac tagccccaca gggtggtttt gacaagaacg gaaacacccc tcacgggaag 1801 ggcaccatga aaactctcac gctacactca ctcactgcac gtgtgatggg tttagtgtgt 1861 gagaggaagg atgaattcca actgcagggt gatgaactac aggtttataa ctttgacaca 1921 aacaaggtct ctgcatttag gaaactagca gctgacaaca agtacagttt tgtggagaca 1981 atgaaagtcg gtgcagtcct caagaacgta aaaactctgg aagatctgaa atctgccctc 2041 aagggagtca aattcaaaga gtgtgaaata atctacaagg gggccaagta cagagtcgcc 2101 tcggatggtt gtggcagtgt ctcagtttcc aagatcaagg atgttgtgtc gcagacagcc 2161 aatgaagtgc acacagcgct cctgagattg aggcaagccc gggccaggta ttacatcagc 2221 tgcttccaag acctcatata caccctgata caggttgctg gagcctcatt tgtggtgcat 2281 aggatctcaa agagattctc atgggatcgc tggatcaagc ccagtgatag ccctcaggag 2341 gaagaacaac ccagcagtga ggtggccaca gggagatggg aaattgagcc aaaagacaca 2401 gaccctgaag gcaaaaaggg taaaaataag aaaggaaggg gaaggaaaca cacggctttc 2461 tctagcaagg gtcttagtga tgaagagtat gatgagttca aaagaattag agaggaaaag 2521 aacggcaaat actccataga agaatacctc caggaccgtg acagatttta cgaggaagtg 2581 gcagttgcaa gggcaacgga agaggacttc tgtgaggaag aagtggcaaa gatcagacag 2641 agaatcttca ggcccacaaa gaagcagagg aaggaggagc ggggcattct agggctggtc 2701 actggttcag aaattaggaa gagaagacca gatgactttc agcccaaagg caacttgtgg 2761 gctgacgaca ccaggagcgt ggactacaac gaaaagctgg agtttgaggc ccctccaagc 2821 gtgtggtcac gtatcgtacc cctcggcact ggctggggtt tctgggtctc ctccaacctt 2881 ctcataacaa caacacacgt cctgccaaaa ggattgaagg agctgttcgg ggttgacatc 2941 aaacaagtcc agatacataa gtcaggtgag ttctgcaggt tcaggtttcc aagaccaatc 3001 agaccagatg tcacaggcct catccttgaa gaaggggccc ctgaaggcac ggtgtgttcc 3061 atccttgtca aaagaccgac tggagagatg ataccacttg cagtgaggat gggtacccac 3121 gcctccatga aaatccaggg tagaacggtt ggtggtcaaa tgggcatgtt gcttacagga 3181 gcaaatgcca aaaatatgga tttgggcacg aaccctggtg attgtggatg cccgtacatc 3241 tttaagaggg gcaatgacat tgtggtagct ggggttcaca ctgcggctgc gcggggtggc 3301 aacactgtga tctgtgccac gcaaggagct gacggagagg ccgtccttga aggaggagag 3361 gacaaaggga cgtactgtgg tgccccaata cttggacttg ggaaggcccc caaactcagt 3421 accaagacaa aattctggcg gtcctcccct gatgcgcttc ccccgggaac gtatgagcca 3481 gcatacctag gtggaaagga cccaagggtt gagaagggcc cgtcactcca gcaggtcatg 3541 agagaacaac ttaaaccttt caccgaaccc agaggaaaac ccccaaaacc caacgttctt 3601 gatgaggcaa agaaaactgt gatgaacgtg ttggagcaga ctataaaccc tgccaaaccc 3661 tggtcatact cccaagcatg tgcttcgctt gacaagacaa cttcaagtgg tagcccgcac 3721 cacctgagaa agaatgatca ttggaatggt gaatctttta ccggtccttt ggccgatcaa 3781 gcttcaaaag caaacctaat gtatgaacag gcaaaacaca tgagccccgt ttacactgca 3841 gccctcaaag atgagctggt taagactgat aagatttaca agaaaataaa gaagaggctg 3901 ctgtggggtt ctgacctggg taccatggtc aggtgtgcca gggcttttgg tgggttgatg 3961 gatagcatga aagagagttg tgtgatgtta ccctgcagag ttggcatgaa catgaatgaa 4021 gatgggccaa tcatttttga caaacatgca aagtacaaat atcactatga tgcagattac 4081 tccagatggg actccacaca acaaaggagc atcttatctg ctgccatgga ggttatggtg 4141 aagttctcag ctgaaccaga gctggcacaa gtggtcgctg aagacttgct cgccccaagc 4201 caactcgacg tgggcgattt tgtggtgtca gtccaagaag gtctcccctc aggtgttccg 4261 tgcacttccc aatggaactc catagcacat tggatcatta cccttagtgc aatggcagaa 4321 gtttctggtc tctccccaga tgtgatccaa gctcactcat gcttctcttt ctatggtgat 4381 gatgagatag ttagcacaga catcaacttg gacccagcaa aactaacctt aaaactcagg 4441 gaatatggat tggtccccac cagaccagac aaaactgaag gcccattagt catcacagag 4501 gacctccatg ggttgacctt tctacgcaga cacatcacac gagatcctgc tgggtggttt 4561 ggaaaattag accaggattc aatcttaagg cagctctatt ggactagagg acctaaccat 4621 gagaacccct acgaatgcat ggtcccacac tcacagcgcg caacccagtt aatggcgctg 4681 ttgggtgagg catcattgca cggtccccag ttctacaaga aagtcagcaa gatggttatc 4741 aatgaaatta agagtggtgg tctggaattt tacgtgccca gacaggaggc catgttcagg 4801 tggatgagat tctctgacct cagcacgtgg gagggcgatc gcaatctggc tcccgacggt 4861 gtgaatgagg atggcgtcga gtgacgcgcc cgtttctggc accgatggtg cggcaggact 4921 cgtcccagag agtcaacaag aagtcttgcc tttagagccc gtcgcgggag ttcagctggc 4981 tgctcccgta gcagggcaaa gtaatataat tgacccctgg attagaatga attttgtgca 5041 agccccggcc ggtgagttca ctgtttcccc tcggaacgca ccgggtgagg tgcttattga 5101 tttggaatta ggaccagaat taaatcccta tctcaatcac cttgcaagaa tgtacaatgg 5161 gtatgtggga ggaatggagg tggaagttgt ccttgccggg aatgcgttca cggcgggtaa 5221 gatcttattc gcagctgtgc cccccagctt cccaacccat ggcatttctg cagcacaggc 5281 tactatgttg ccacatgtga tcgtggatgt caggcagctg gagcctgtcc ggctccctct 5341 tcctgatgtc aggaatgtga tgttccattt ctgtcaagaa aataaggagc cgcgcatgag 5401 aattgtggca atattgtaca cccctctccg tgccaacggt gcgggtgatg atgttttcac 5461 tgtctcatgt cgtgtgctaa caaggccctc accagatttt gattttattt tcttggtccc 5521 cccctctgta gagagtaagc tgaaacagtt tacccttcca aacctgcagc caaatgaaat 5581 gaccaattca agattcccca ctggtatcac acaactctac accagtccaa ataccaattt 5641 ggttgtccag ttccaaaatg gcaggtgtct gcttgatggc acacttctcg gcaccacccc 5701 tgttagagct gctgacatct gcagtttcag aggagtcact tcaactgaag ttgatgcaac 5761 tgacagtccc agagtagcag ggtcgcatag gattatggtg cagctcaagg agccagatgg 5821 agaggagttt tcacctacag gtcccaaccc tgcccctgtt ggcactccgg actttcaagc 5881 agccatattt ggcaccctta gtcaaagaaa cactggtggg gctgggcaga attccaacag 5941 agcccacttt gcatactttt acactagaaa ccccacattt gcaccaggca tagggacagt 6001 tgtgttttct tttgatacta ctgactttca gaatcgccaa cctactaaat tctctccttc 6061 tggtgtgttt gatgatgatt cttctgaacc ttttaatcaa ttttctctac catattataa 6121 tggatcactc ggtgcagtgg atgctgggaa actagctccg cctgtagcac ccaactaccc 6181 aggtgagcag attctttatt ttagagggaa cattcccttc aaaggtgggt atggagaggg 6241 tgaaattgat agcttgcttc cccaggaatg gatcacccac ttttatgcag agcaggctcc 6301 tacacaaggt gacgcagccc tgctgcgtta ctacaaccct gacactggta gagttctctt 6361 tgagtgcaaa ctccaccgcg agggattcat tacaatcaat tacacaggat ccaatgctct 6421 tgctgtacca gtcaatggag tcttcaggtt tgagggctgg gttaataaat tctacacact 6481 gacccccatg ggaaatggca acggccgcag gggtagaaga agggaattat aatggctgga 6541 gctttcttcg caggtcttgc ttctgatgtt ctcggcagcg gtttgtcttc acttatcggt 6601 gccggtgcca atgccataaa tcaaaaggtt gaatatgatt acaataggca cttgcagtca 6661 gcttctttcc aacatgataa ggatatgctc aactcacagg tggaagccac aaagcactta 6721 caaagggaga tgatggccat caaggaaggc atgctgctca agggtgggtt ctcccccact 6781 gatgcagcaa gaggagctgt caacgcccct atgacacaaa tcttggattg gaatggcacc 6841 agatattggg ccccgggtgc gatgaaaacc acggcttact caggccgttt tgttagtcaa 6901 tccactcata ggcctattcc caatgttgtg cacaagagtg atggacccat acaccaaact 6961 gggtcaacca cagggtccat ttcttctctc tccacatcat ccacccgtgt tccatcatcc 7021 acatcctcat ctagtagtgc ttctagaaca agggactggg tgtctgaaca gcaaagactc 7081 agccctttca tgagaggctc ccttcacact gcatatgtga ctcctccctc aagctctgcc 7141 tcttcagtaa gctctgtttc tacagtccca caccatgttt tagattcatg gaccccttct 7201 tttaacacta aacatttacc tttgtttgct catgttagga aaagggggca atctcaagtt 7261 taa //