Typing tool
|
Complete norovirus genomes
KY421039 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5004 ORF2: 4985..6607 ORF3: 6607..7413LOCUS KY421039 7519 bp RNA linear VRL 02-DEC-2017 DEFINITION Norovirus GII strain Hu/GII.Pe_GII.4/Sydney Variant 2015 nonstructrual polyprotein gene, partial cds; and VP1 and VP2 genes, complete cds. ACCESSION KY421039 VERSION KY421039.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7519) AUTHORS Yang,Z. and Kulka,M. TITLE Direct Submission JOURNAL Submitted (03-JAN-2017) Molecular Virology Team/Division of Molecular Biology/OARSA/CFSAN, Food and Drug Administration, 8301 Muirkirk Road, Laurel, MD 20708, USA COMMENT ##Assembly-Data-START## Assembly Method :: CLC Genomics Workbench v. 9.5.2 Coverage :: 1285 x Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7519 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.Pe_GII.4/Sydney Variant 2015" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="May-2015" /note="genotype: GII.Pe_PII.4" CDS <1..5004 /note="ORF1" /codon_start=1 /product="nonstructrual polyprotein" /protein_id="ATY34966.1" /translation="AVTIKRALGARPKQPPPKETPPRPPRPPTPELVKKIPPPPPNGE DELVVSYSAKDGVSGLPELTTVRQPEEANTAFSVPPLNQRESRDAKEPLTGTIIEMWD GEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDTLRRLH GESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSK LKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFG VFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAA STLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTL LKDKDSLATYMRTLDFEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEEL SSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGER VVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAP LDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGG FDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFR QLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYSGSTYTLEADGKG SVKIDKVQSATVQTNNELAGALHHLRCARIRYYVKCAQEALYSIIQIAGAAFVTTRIA KRMNIQNLWSKPQVEDTEEITNKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKK HTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEE EAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEK LNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGE FCRLRLPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGR TVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICA TQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLG GKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTVINVLEQTIDPPQKWS FAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTG ALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNM NEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDL LSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSL FSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTV TRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPVQLMSLLGEAALHGPA FYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 4985..6607 /note="ORF2; major capsid protein" /codon_start=1 /product="VP1" /protein_id="ATY34967.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLERLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSAEFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYITVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" CDS 6607..7413 /note="ORF3; minor structural protein; minor capsid protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="ATY34968.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARATTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS NSSTATTVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGVFNTRRQPLFAHIRKRGESRA" 3'UTR 7414..7519 ORIGIN 1 gctgtcacta ttaagcgggc cctcggggcg cggcctaagc agccgccccc gaaggagaca 61 ccacccagac ccccgcgacc acccacacca gaattggtca aaaagatccc tcctccccca 121 cccaacgggg aggatgaact agtggtctct tacagcgcca aagatggcgt ttccggactg 181 cctgagctca ccactgtcag acaaccggaa gaagccaaca cggcgttcag tgtcccccca 241 ctcaaccaaa gggagagcag agacgccaag gagccactaa ctggaacaat tattgaaatg 301 tgggatggag aaatttacca ttacggcctg tacgtggaac gaggtcttat acttggtgtg 361 cacaagccac cggcagccat cagccttgcc aaggtcgagc taacaccgct ctctttgttc 421 tggagacctg tatacacccc ccagtatctc atctctccag acactcttag gagattacat 481 ggagagtcat tcccctacac tgcatttgac aacaattgct acgccttttg ttgctgggtg 541 ttagacctaa acgactcatg gctaagcagg agaatgattc agagaacaac aggtttcttc 601 aggccgtacc aggattggaa caggaaaccc ctccccacta tggatgattc taaattaaag 661 aaggtagcca acatattctt gtgcactttg tcttcactat tcaccagacc cattaaggac 721 ataataggga agttgaaacc tcttaacatc cttaacattc tggccacatg tgactggacc 781 ttcgcaggca tagtggaatc tttaatactc ttagcagaac tctttggagt tttctggaca 841 cccccagatg tgtctgcgat gatcgccccc ttgctaggtg attatgaact acaaggacct 901 gaggaccttg cagtggaact ggtcccaata gtgatggggg ggataggttt ggtgctagga 961 tttaccaaag agaaaattgg aaagatgtta tcatccgctg catccacttt aagagcttgt 1021 aaggaccttg gtgcatacgg actggaaatc ttaaaattgg tcatgaagtg gttcttccca 1081 aagaaagagg aagcaaatga actggctatg gtgagatcca tcgaggatgc agtgctagac 1141 ctcgaggcaa ttgaaaacaa ccacatgacc accctactca aagacaaaga cagcttggca 1201 acctacatga gaacccttga ctttgaggag gagaaagcca ggaaactctc aaccaaatct 1261 gcttcacctg atattgtggg cacaatcaac tctcttctgg caagaatcgc tgctgcacgc 1321 tccctagtgc atcgggcgaa agaagagctc tctagcaggc cgagacctgt cgttgtgatg 1381 atatcgggaa gaccagggat agggaagact caccttgcca gggagctggc caagaagatc 1441 gcggcctccc tcacagggga ccagcgtgtg ggtcttatcc cacgcaatgg tgtcgatcac 1501 tgggacgcat acaagggcga aagagttgtc ctatgggacg actatggaat gagcaacccc 1561 atccatgatg ccctcaggtt gcaggagctt gctgacactt gccctctcac gctaaattgt 1621 gacagaattg agaacaaagg gaaagtcttt gacagtgatg ccataattat caccaccaat 1681 ctggccaacc cagcaccact ggattatgtc aattttgaag cgtgctcgag acgtattgac 1741 ttcctcgtgt acgcagaagc ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa 1801 cctgacatgt ggaagaacgc tttcagtcct gacttctcac acataaaact gtcattggct 1861 ccacagggtg gttttgacaa gaacggcaac accccgcatg gaaaaggggt catgaagacc 1921 ctcaccactg gctccctcat cgcccgagca tcagggttgc tccacgagag gctagatgaa 1981 tatgaactgc aaggcccagc cctcaccact ttcaactttg accgcaacaa gatacttgct 2041 tttaggcagc ttgctgctga aaacaagtat ggactgatgg acacaatgag agttggaaaa 2101 cagctcaagg atgtcaagac catgtcagac ctcaaacaag cactcaagaa catcgcgatc 2161 aagaagtgcc agatagtgta cagtggtagc acctacacac ttgaggccga tggcaagggt 2221 agtgtgaaga ttgacaaagt gcaaagtgcc actgtgcaga ccaacaatga actagccggt 2281 gccctacacc acctaaggtg cgctagaatc agatactatg ttaagtgcgc ccaggaggca 2341 ctgtattcca tcatccaaat cgctggggct gcattcgtca ccacgcgcat cgctaagcgc 2401 atgaatatac agaatctttg gtccaagcca caggtggaag acacagaaga gataaccaac 2461 aaagatggtt gcctaaaacc caaggatgac gaagagtttg tcgtctcatc tgatgacatc 2521 aaaactgagg gcaagaaagg gaagaacaag tccggccgtg gcaagaagca cacagccttt 2581 tcaagcaaag ggctcagtga tgaggagtac gatgagtaca agagaatcag agaagaaagg 2641 aatggtaagt actccataga agagtacctt caggacagag acaggtacta cgaggaggtg 2701 gccattgcca gggcaaccga agaggacttc tgtgaagaag aagaggccaa aatccggcag 2761 agaattttca gaccaacaag aaaacaacgc aaagaggaga gggcctccct cggcttggtc 2821 acaggctctg aaatcaggaa gagaaaccca gaagacttca aacccaaggg aaagctgtgg 2881 gctgatgatg acagaagtgt tgactacaat gagaaactca actttgaggc cccaccaagc 2941 atttggtcgc ggatagtcaa ctttggttca ggctggggct tctgggtctc ccccagtctg 3001 tttataacat caacccatgt cataccccaa ggtgcaaaag agttcttcgg agtccctatc 3061 aagcagatcc agatacacaa atcaggtgaa ttctgccggt tgagactccc aaagccaatc 3121 agaactgatg tgacgggcat gattctagaa gaaggtgcgc ccgaggggac cgtggccaca 3181 ctgctcatca agagaccaac tggagagctc atgcctctgg cagccagaat ggggacccat 3241 gcaaccatga aaatccaggg gcgcacagtt ggagggcaaa tgggtatgct cctgacagga 3301 tccaacgcca agagtatgga cctaggcaca acaccaggcg actgcggctg cccctacatc 3361 tacaagaggg ggaatgacta cgtggtcata ggagtccata cggccgctgc ccgtggagga 3421 aacactgtca tatgtgccac ccaggggagt gagggagaag ccacacttga aggaggtgac 3481 agtaaaggga catactgtgg cgcaccaatc ttgggcccag ggagcgctcc gaagctcagt 3541 accaagacta agttttggag atcatccaca acaccactcc cacctggcac ctacgaacca 3601 gcctacctcg gtggcaaaga ccccagagtc aaaggtggcc cttcattgca acaagttatg 3661 agggaccagc taaagccatt cacagaaccc agaggcaaac caccaagacc aaatgtgttg 3721 gaagctgcca agaaaaccgt catcaatgtc cttgagcaaa caattgatcc accccaaaaa 3781 tggtcatttg cgcaagcttg cgcatccctt gacaaaacca cctccagcgg ccacccacac 3841 cacatgcgga aaaacgattg ttggaatggg gagtccttca caggaaaatt ggctgatcaa 3901 gcatccaagg ccaacctaat gtttgaagag ggaaagaaca tgactccagt ctacacaggt 3961 gcacttaaag atgagttggt aaagaccgac aaagtttatg gtaagatcaa gaagaggctt 4021 ctgtggggtt cagatctggc gaccatgata cggtgcgccc gagcttttgg aggccttatg 4081 gatgaactca aggcgcactg tgtcacactt cctgtcagag ttggtatgaa catgaatgag 4141 gatggcccca tcatctttga gaagcactcc agatatagat atcactatga tgctgattat 4201 tcccggtggg actcaacaca acaaagggat gtgctagcag cagcactaga aatcatggtc 4261 aagttctctc cagaaccaca cctggcccag gtagttgcag aagacctcct ttcccctagc 4321 gtaatggatg taggtgactt tcaaatatca ataagtgagg gtcttccctc tggggtgcct 4381 tgcacctccc agtggaactc catcgcccac tggctcctca ctctttgtgc actctctgaa 4441 gtcacggacc tgtcccctga catcattcag gccaactccc ttttctcctt ctatggtgat 4501 gatgagattg tgagtacaga cataaagctg gacccagaga agctgacagc aaaactcaag 4561 gagtacgggc tgaaaccaac ccgccccgat aaaactgaag gaccccttgt tatctctgaa 4621 gacctggatg gcctgacatt cctccggaga actgtgaccc gtgacccagc tggctggttt 4681 ggaaaattgg aacaaagttc aattctcaga caaatgtact ggaccagggg tcccaaccat 4741 gaagatccat ttgagacaat gataccacac tcccaaagac ccgtacaatt gatgtccttg 4801 ctgggcgagg ctgcactcca cggcccggca ttttatagca agattagcaa attagtcatt 4861 gcagagttga aggaaggtgg catggatttt tacgtgccca gacaagagcc aatgttcaga 4921 tggatgagat tctcagatct gagcacgtgg gagggcgatc gcaatctggc tcccagtttt 4981 gtgaatgaag atggcgtcga gtgacgccaa cccatctgat gggtccgcag ccaacctcgt 5041 cccagaggtc aacaatgagg ttatggctct ggagcccgtt gttggtgccg ccattgcggc 5101 acctgtagcg ggccaacaaa atgtaattga cccctggatt agaaacaatt ttgtacaagc 5161 ccctggtgga gagtttacag tatcccctag aaacgctcca ggtgaaatac tatggagcgc 5221 gcccttggga cctgatctaa atccctacct atctcatttg gccagaatgt acaatggtta 5281 tgcaggtggt tttgaagtgc aggtaattct cgcggggaac gcgttcaccg ccgggaaggt 5341 catatttgca gcagtcccac caaattttcc aactgaaggc ttgagcccca gccaggtcac 5401 tatgttcccc catatagtag tggatgttag gcaactagaa cctgtgttga ttcccttacc 5461 cgatgttagg aacaatttct atcattacaa tcaatcaaat gaccccacca ttaagttgat 5521 agcaatgttg tacactccac tcagagctaa caatgctggg gatgatgtct tcacagtctc 5581 ttgccgagtc ctcacgagac catcccccga ttttgatttc atatttctag tgccacccac 5641 agttgagtca agaactaaac cattctctgt cccagtttta actgttgagg agatgaccaa 5701 ttcaagattc ccaattcctt tggaaaggct gttcacgggt cccagcagtg cctttgttgt 5761 ccaaccacaa aacggcaggt gcacgactga tggcgtgctc ctaggcacca cccaactgtc 5821 tcctgtcaac atctgcacct tcagaggaga tgtcacccac atcacaggta gtcataacta 5881 cacaatgaat ttggcttctc aaaattggaa caattatgac ccaacagaag aaataccagc 5941 ccctctagga actccagact ttgtggggaa gattcaaggc gtgctcaccc aaaccacaag 6001 gacagatggc tcaacacgcg gccacaaagc cacagtgtac actgggagcg ccgaatttgc 6061 tccaaaactg ggtagagttc aatttgaaac tgacacaaac catgattttg aagctaacca 6121 aaacacaaag ttcaccccag tcggtgtcat ccaagatggt agcaccaccc accgaaatga 6181 accccaacag tgggtgctcc caagttactc aggcagaaat actcataatg tgcatctggc 6241 ccccgctgta gctcccacct ttccgggtga gcaacttctc ttcttcagat ccaccatgcc 6301 cggatgcagt gggtacccca acatggattt ggactgtctg ctcccccagg aatgggtgca 6361 gtacttctac caagaggcag ccccagcaca atctgatgtg gctctgctga gatttgtgaa 6421 tccagacaca ggcagggttt tgtttgagtg taagcttcat aaatcaggct atattacagt 6481 ggcccacact ggccaacatg acttggttat tccccccaat ggttatttta gatttgattc 6541 ctgggtcaac cagttctaca cgcttgcccc catgggaaat ggaacggggc gtagacgtgc 6601 agtataatgg ctggagcttt ctttgctgga ttggcatctg atgtccttgg ctctggactt 6661 ggttccctta tcaatgctgg ggctggggcc atcaaccaaa aggttgagtt cgaaaacaat 6721 agaaaattgc aacaagcatc cttccaattt agcagcaatc tacaacaggc ttcctttcaa 6781 catgacaaag agatgctcca ggcacaaatt gaggccacca aaaagttaca acaggaaatg 6841 atgaaagtta agcaggcaat gctcctagag ggtgggttct ctgagacgga tgcagcccgc 6901 ggggcaatca acgcccccat gacaaaagct ttggattgga gcgggacaag gtactgggct 6961 cccgatgcta gggctacaac atacaatgca ggccgcttct ccacccctca accatcgggg 7021 gcactgccag gaagagctaa tcttagggat gctgcccctg ctcggggttc ctccagtaaa 7081 tcttctaact cttctactgc tactactgtg tattcaaatc aaactacttc aacgagactt 7141 ggttctacag ctggttctgg taccagtgtc tcgagcctcc cgtcaactgc aaggactagg 7201 agctgggttg aggatcaaag taggaatttg tcacctttca tgaggggggc acacaacata 7261 tcgtttgtca ccccaccatc tagcagatcc tctagccaag gcacagtctc aaccgtgcct 7321 aaagaggttt tggactcctg gactggcgtt ttcaacacgc gcaggcagcc actcttcgct 7381 cacattcgta agcgagggga gtcacgggcg taatgtgaaa agacaaaatt gattatcttt 7441 ctttttcttt agtgtctttt aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaatctctt 7501 ttaaaaaaaa aaaacaaag //