Typing tool
|
Complete norovirus genomes
MK588004 | GII.14 | ||
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GII.P7 |
ORF1: 1..5085 ORF2: 5066..6676 ORF3: 6676..7470LOCUS MK588004 7506 bp RNA linear VRL 10-APR-2019 DEFINITION Norovirus GII isolate Hu/USA/2017/GII.P7-GII.14/RGDS-1012 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK588004 VERSION MK588004.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7506) AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F.F., Marine,R.L. and Wadford,D.A. TITLE Norovirus GII.P7-GII.14 genome from an elementary school outbreak, California, 2017 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7506) AUTHORS Pan,C.-Y., Huynh,T., Castro,C.J., Ng,T.F.F., Marine,R.L. and Wadford,D.A. TITLE Direct Submission JOURNAL Submitted (01-MAR-2019) 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..7506 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/USA/2017/GII.P7-GII.14/RGDS-1012" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA:CA" /collection_date="Dec-2017" /note="genotype: GII.P7-GII.14" gene <1..5085 /gene="ORF1" CDS <1..5085 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QBT58249.1" /translation="ASNDATAALGSQKSVNDSENATPSNKEEVGTFSNIKVGFKKMLG AVPKGTKTPSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVQN EHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAI SLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELND TWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLG KLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPE DLAVELVPVVMGGVGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFF PKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLS TKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARH LAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADT CPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIE KVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTAR VAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKSVKT LEDLKAALRDVKFNECEIIYKNSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSALLRL RQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEKEVV QGGWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIE EYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDI RKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLIT TTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSV LVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPY IYKRGNDIIVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAP KLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPP RPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESF TGPLADQASKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIR CARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQR SILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNS IAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLV PTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENP HESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRW MRFSDLSTWEGDRNLAPEGVNEDGVE" mat_peptide <1..993 /gene="ORF1" /product="p48" mat_peptide 994..2091 /gene="ORF1" /product="NTPase" mat_peptide 2092..2610 /gene="ORF1" /product="p22" mat_peptide 2611..3009 /gene="ORF1" /product="VPg" mat_peptide 3010..3552 /gene="ORF1" /product="Pro" mat_peptide 3553..5082 /gene="ORF1" /product="RdRp" gene 5066..6676 /gene="ORF2" CDS 5066..6676 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBT58250.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASLAAPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPTFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLKVSEMTNSRFPVVLDQMYTSRNENIVVQPQNGRCTTDGELLGTT ILQSVSICNFKGTMQAKLNEEPRYQLQLTNLDGSPIDPTDDMPAPLGTPDFQAMLYGV ASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSSDFDLHDPTKFTPIGVNVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP QEWIEHFYQEAAPSQSEIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6676..7470 /gene="ORF3" CDS 6676..7470 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBT58251.1" /translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTQILDWNG SRYWAPNSMKTTGYSGTFASQGIRSSPHLSNQTPSAVKSIKSLPSISSSSSVYSFPST APSQSTQSTTLSAGTGSSRPSTVSTKTSTLSRTSDWVRGQNEMFGPFMSGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI" ORIGIN 1 gcgtctaacg acgctaccgc tgcccttggc agtcaaaaat ctgtcaatga cagtgaaaat 61 gccacccctt ctaacaaaga agaggttggt acattctcca acattaaagt tggattcaag 121 aaaatgctgg gtgccgtacc caaaggtacc aaaacaccca gcagcgatca gcattgcccc 181 acagttaaga tcggacctaa aacattaaca atcccccctg aacccccaaa tggtgaggac 241 accgtacaat ttgatgcaaa gtcagaaact ataattgggc taccggactt gacaacggtg 301 caaaacgaac acgaaaacac tccatacact gtccccccat taagtgagag ggagcacaga 361 ccggccactg aaccacttcc tggcacaata ttggagatgt gggatggtga gttttaccat 421 tactccgtgt acgtcagcga tggcaaagct ctgggggtcc acaaaccacc ggcggctata 481 agtctcgcga cgatagagct cacccctata tcactctact ggagacctgt ttacaccccc 541 aactacttgg tctctccaga cacactaaag ggcctcgctg gtgagaagtt cccctacacg 601 gccttcagca acaactgtta caatttctgt tgttgggtgc ttgagctcaa cgacacgtgg 661 cttaacagaa gatgcatctc cagaaccacc ggcttcttta aaccatacca gtcttggaat 721 agaaaacctc tcccaactgt tgatgatgga aagattaaga aggtggccaa cgcgatcctc 781 tgtgcactcg gctcgctgtt ctcaaaacca atcaaagacc tactaggcaa actcaagcca 841 ttgaatctac tacacttgct cgcgtcttgt gattggacgt ttgcgggtat agtggagaca 901 gtcatcttaa tggcggagct tttcaatgtc ttctggactc cgccagatgt ctctaatttc 961 atagcctcct tgataggtga ctttgaattg caagggcctg aagatttggc tgtggagctc 1021 gttcccgtgg ttatgggtgg cgtagggatg gttctcggct tcaccgctga gaagataggc 1081 cgcatgctgt cgtctgctgc atcaacactg cgggcgtgca aagacctagg gaactatgcc 1141 cttgacatac tcaaattggt tatgaaatgg ttcttcccga agaaggagga gaaggctgag 1201 atggagacct tgagggcgat tgaagacgct gtccttgata tggaagctat agggaacaac 1261 cacctcacaa ccctcctcaa ggacaaagac agcctcacag ctttcatgaa aacactggat 1321 ctagaggagg agaaggcgag gaaactgtcc actaaatcat cttcaccgga catagtcggc 1381 accattaacg ccatactagc taggatagct gctgctagat ccctactaca taaggccaaa 1441 gaggagatgt tcagcaggat cagaccagta gtcgtcatga tctcaggcag acctggcatt 1501 ggaaaaaccc acatggcgag acacttggct aagagcatcg ccaacaccat gagtggcgat 1561 cagagagtcg gactcgtccc acgcaatggt gtcgatcact gggacgccta caggggagag 1621 agagtggtct tgtgggacga ctacggtatg gggagccctg ttaaagacgc cctgacactg 1681 caagagttgg ccgacacgtg tccagtcacc ttaaattgtg ataggatcga gaataagggg 1741 aagatgtttg atagtgatgt catcataatt acgaccaacc tagtcaaccc cgcgcccctc 1801 gactatgtga acttcgaggc gtgttccagg agagttgact tcctggtcta tgcagagtca 1861 ccagaaattg aaaaggtcaa gagagatttc cctggccagc ctgacatgtg gaaagatcat 1921 ttcaagccag acttttccca cattaagctg acactagccc cccagggtgg gtttgacaaa 1981 aatggcaaca ccccacacgg caagggcacc atgcggtctc tgacccaggg gtccctaact 2041 gcgagagttg caggccttgt ccatgagagg agggacgagt tccagctcca aggaaatgac 2101 ctccaaacat acaattttga caccaacaga gtctccgcat ttagaaaatt ggccgcggac 2161 aacaagtatg ggatcatgga gacgatgaga gttggcgcag cactcaagag tgtgaagacc 2221 ttggaggatc ttaaagccgc attgagggat gtaaaattca atgagtgtga aataatttac 2281 aagaactcta agtaccgagt ctcttccaat ggtaaaggct cagtctctgt tgacaaagtt 2341 gaagacaatg cttcccagac tgtgaacgag gtacattcag cactcctcag actcaggcag 2401 gcgagggcca gatactacat cagctgcttc caagacctcg tctacactct catacaggtt 2461 gccggggcat catttgttgt cagtaggatc tccaggaggt tctgctggga aaggtgggtc 2521 aaaccgaccg aaacccagga ggtgaatgag cctgaaaagg aagtggtcca aggtggatgg 2581 gaaattgagc ccaaggacac agaaccagaa ggcaagaagg gcaagaacaa gaaaggaaga 2641 ggcaagaaac acacagcctt ctctagcaaa ggtctgagtg atgaagagta tgacgagttc 2701 aagaggatca gggaagaaag gaacggcaag tactccattg aggaatacct gcaggaccga 2761 gaccgctact atgaagaagt agcagtcgct cgggcgacag aggaggactt ctgtgaagag 2821 gaagaggcca agataagaca aaggattttc cgcccgacaa ggaagcagag gaaggaggaa 2881 aggggcgtgc ttggcttggt caccggctca gacatcagaa agaggagacc agacgatttc 2941 caaccaaaag gcaacctgtg ggcagatgac accagaagtg tggactacaa tgaaaggctt 3001 gattttgaag cacccccgag tgtctggtca agaatagtcc cattaggcac tggttggggg 3061 ttttgggttt catccaacct tctgatcaca acgacacacg tcctgcctaa agggatcaag 3121 gaactttttg gagttgaaat caaacagatc caaattcaca aatctggaga gttttgcagg 3181 tttagattcc caagacctat caggccagat gttacaggac tcgtgctgga ggaaggcgcc 3241 ccagagggca ctgtctgttc tgtactcgtg aaaagaccca caggtgaaat gatccccctt 3301 gcagtgagga tgggcacaca cgcatccatg aaaatacagg gcaggactgt tggtggccag 3361 atgggaatgc ttctcacagg agcaaacgca aagaacatgg accttggcac cggccctggt 3421 gactgcggtt gcccctacat ctacaagcgt ggcaacgaca ttattgttgc tggcgtccac 3481 accgcagcag cccggggagg caacactgta atatgtgcca cccaagggca agatggggaa 3541 gcagtccttg agggaaatga ggaccttggt acatactgtg gtgccccaat tctgggccct 3601 ggcaaggcgc ctaaactcag cacgaagacc aagttttggc gctcatcacc agatgccctg 3661 ccacctggta catatgaacc tgcttaccta ggaggcaaag accctagagt ggaaaaaggc 3721 ccctccctgc agcaagtcat gagagaccag ttgaggccct tcacagaacc cagaggcaaa 3781 ccacctagac cagcaatctt agaggaagcc aaaaagacag tgatgaatgt tctagagcaa 3841 accattgacc ccgccaagcc atggtcctat tcgcaggcat gtgcctcatt ggacaaaact 3901 acctctagtg gtagtcccca tcacgttaag aaaaatgacc actggaatgg ggagtccttc 3961 actggtcccc ttgcagatca ggcttctaaa gccaacctca tgtatgagca ggccaaacat 4021 atgcagcccg tatatacggc cgcgcttaaa gatgagcttg ttaagactga caagatctac 4081 aagaagataa agaaaaggct tctatggggg tcagaccttg gcacgatgat caggtgcgcc 4141 agggcttttg gtggtctcat ggacagtatg aaggcaagct gtatagccct tccttgcagg 4201 gtaggaatga acatgaatga agatggcccc atcatatttg ataaacactc taagtacagg 4261 taccactatg atgctgacta ttctaggtgg gactcaaccc aacaaaggag catcctctct 4321 gccgccatgg aagtgatggt gcggttttct gctgaaccag aattggcaca agtggttgca 4381 gaggacctct tggcacctag ccaacttgat gttggcgact ttgtcatctc agtccaggaa 4441 ggcctaccat caggagtccc atgcacatca caatggaatt caatagcaca ctggatactc 4501 actttgagtg cgatggcaga agtgtcaggt ctctcaccag atgttgtcca agctcactct 4561 tgcttttcat tttatgggga cgatgagatc gtcagcactg atatcaacct tgaccccatg 4621 aagttaacac aaaaactcag ggagtatggt ctggttccca cccggcctga caaaactgaa 4681 ggtcccctcg tcataactga agacctcact ggcctgacgt tccttcgtag gtcgattgct 4741 cgggacccag ctggctggtt tggaaaacta gaccaagatt caatcctcag gcaactatac 4801 tggacaaggg ggcctaacca tgagaacccg cacgagagca tggttccaca ttcccagcgg 4861 gccacacaac tcatggccct tcttggtgag gcctcgttgc atggtcctca attttacaag 4921 aaagttagca aaatggtcat caatgaaatt aagagtggtg gtctggagtt ttacgtgccc 4981 agacaagagg ccatgttcag gtggatgagg ttctctgacc tcagcacgtg ggagggcgat 5041 cgcaatcttg ctcccgaagg tgtgaatgaa gatggcgtcg aatgacgcaa ctccatctga 5101 tgatggtgca gccggcctcg taccagagat caacaatgag gttatggctc ttgaacccgt 5161 cgctggggcc tcccttgcag cccccgtagt cggtcaacag aatataattg atccctggat 5221 tagaaacaat tttgtacaag cccctgctgg cgaatttaca gtctccccta gaaattcccc 5281 tggagaactc ttacttgatc tggaattggg tcctgaactt aatccctatc ttgcacattt 5341 ggccaggatg tacaatgggc atgcaggagg aatggaagtg caaatagtac tggctgggaa 5401 tgcgttcaca gctggtaaga tcctgtttgc cgccatccca cccaccttcc cctacgaaaa 5461 cttgtcaccc gcccaattga ctatgtgccc ccatgtgata gtggatgtga gacaattaga 5521 accagtgctc ttgccaatgc cagatataag aaatgttttc tatcattata atcagaataa 5581 tagtcccaaa cttaggctta tagctatgct ttatactcct ctgagggcta acaattcagg 5641 tgatgacgtg ttcacggtgt cttgccgcgt tttaacacgc ccttctccag atttccagtt 5701 cactttcctg gtcccaccca cagttgagtc taaaactaag aacttcaccc tccccgttct 5761 caaagtctca gagatgacaa actcaaggtt ccccgttgtt ttggatcaaa tgtacacgag 5821 caggaatgaa aacatcgttg tccaacccca aaacggcaga tgcacaactg acggtgagct 5881 gcttggcact accatcttac agtctgtgtc tatttgcaat ttcaaaggaa caatgcaggc 5941 aaagctgaat gaagaaccac gataccaatt gcaactcacc aacttggatg ggtcacctat 6001 agatccaaca gatgatatgc ctgcccctct tggcacacca gacttccagg ccatgttata 6061 tggcgttgca agccaacgct cttccaggga caacgccacc agagcacatg atgcacaaat 6121 tgacactgcg ggtgacacgt tcgccccaaa aattggccag gttcgattta aatcaagctc 6181 cagtgatttc gacctacatg accctacaaa attcacgcct attggtgtca atgtggatga 6241 ccagcaccct ttcagacagt ggtccctgcc aaactacggt ggtcaccttg ccctgaacaa 6301 tcatttagcc ccagctgtga caccgctctt ccctggcgaa caaatcttgt tctttaggtc 6361 atacattcca agcgccgggg gccacacgga cggtgctatg gactgtttgc tgccccaaga 6421 gtggatagag cacttctacc aggaggcggc tccttcccaa tctgaaatcg cactggtgag 6481 gttcatcaac cctgacacag gaagagtgct ctttgaagca aaattgcaca aacaaggttt 6541 cctcacaatt gcagcatctg gagaccaccc tattgtgatg cccactaatg gttatttcag 6601 gtttgaagct tgggtcaacc ctttctacac tctcgccccc gtgggaactg ggtctgggcg 6661 caggagaatt caataatggc tggagctttc cttgcaggct tggcaggtga cgttgttact 6721 tccagcttgg gctcacttgt gggtgctgga gccaacgcca tcaatcagaa ggtggagtat 6781 gacttcaaca ggcaactcca ggaggcatct tttagacatg acaaggatat gctcaaagcc 6841 caggttgcag caacagcagg ccttcaacag gccatgatag acatcaagcg ggaggcattg 6901 accgcaggcg gcttttcccc cgctgatgct gcaagaggtg cagttaaagc gcctatgacg 6961 cagatccttg actggaatgg ttctagatat tgggctccta actccatgaa aacaactggc 7021 tattcaggca catttgcttc ccaaggcatt agaagttccc ctcatctgtc taatcaaacc 7081 ccaagtgctg ttaagtccat taaatcttta ccatctatat ctagttcttc tagtgtgtat 7141 agctttcctt ctactgcccc ctcacaatca acacaatcaa caacgctgtc tgcagggaca 7201 gggtcctcca ggcccagcac tgtgtccaca aagacctcca cattgtcaag gacaagtgac 7261 tgggtcaggg gtcaaaatga gatgtttggc ccgttcatga gtggtgcact ccaaactgct 7321 tatgtcacac caccatcgag cagggcctca tcacaaggga cggtctcgac cgtacccaag 7381 gctgttttgg actcctggac tcccatgttt aacacccaca ggcagcctct cttcgcccac 7441 ttgcgtaggc gaggggagtc acagatttag tgaaaaggat gattagggtt tcttccttcc 7501 cctttt //