Typing tool
|
Complete norovirus genomes
MW305722 | GII.14 | ||
---|---|---|---|
GII.P7 |
ORF1: 1..5063 ORF2: 5044..6654 ORF3: 6654..7448LOCUS MW305722 7494 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate CMH-ST093-16 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305722 VERSION MW305722.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7494) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7494) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7494 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="CMH-ST093-16" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Thailand" /collection_date="21-Mar-2016" /note="genotype: GII.14[GII.P7]" gene <1..5063 /gene="ORF1" CDS <1..5063 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59502.1" /translation="LGSQKSVNDSNNATPSNKEEVGTFSNIKVGFKKMLGAVPKGTKA PSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETVIGLPDLTTVQNEHENTPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELT PISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCI SRTTGFFKPYQSWNRKPLPTIDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER KDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKTLEDLEVAL RDVKFNECEIIYKNSRYRVSSNGKGSVSVDKVEDNASQTVNEVHSALLRLRQARARYY VSCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEREVAQGRWEIEP KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG IKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSVLVKRPTGE MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI VVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKF WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAILEEA KKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQA SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL SAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE GPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHS QRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLST WEGDRNLAPEGVNEDGVE" mat_peptide <1..971 /gene="ORF1" /product="p48" mat_peptide 972..2069 /gene="ORF1" /product="NTPase" mat_peptide 2070..2588 /gene="ORF1" /product="p22" mat_peptide 2589..2987 /gene="ORF1" /product="VPg" mat_peptide 2988..3530 /gene="ORF1" /product="Pro" mat_peptide 3531..5060 /gene="ORF1" /product="RdRp" gene 5044..6654 /gene="ORF2" CDS 5044..6654 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59503.1" /translation="MKMASNDATPSDDGAAGLVPEINNEVMALEPVAGASIAAPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGELLLDLELGPELNPYLAHLARMYNGHAGG MEVQIVLAGNAFTAGKILFAAIPPSFPYENLSPAQLTMCPHVIVDVRQLEPVLLPMPD IRNVFYHYNQNNSPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFQFTFLVPP TVESKTKNFTLPVLRVSEMTNSRFPVVLDQMYTSRNENIIVQPQNGRCTTDGELLGTT ILQSVSICNFKGTMQAKLNEEPRYQLQLTNLDGSPIDPTDDVPAPLGTPDFQAMLYGV ASQRSSRDNATRAHDAQIDTAGDTFAPKIGQVRFKSSSNDFDLHDPTKFTPIGVNVDD QHPFRQWSLPNYGGHLALNNHLAPAVTPLFPGEQILFFRSYIPSAGGHTDGAMDCLLP QEWIEHFYQEAAPSQSDIALVRFINPDTGRVLFEAKLHKQGFLTIAASGDHPIVMPTN GYFRFEAWVNPFYTLAPVGTGSGRRRIQ" gene 6654..7448 /gene="ORF3" CDS 6654..7448 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59504.1" /translation="MAGAFLAGLAGDVVTSSLGSLVGAGANAINQKVEYDFNRQLQEA SFRHDKDMLKAQVAATAGLQQAMIDIKREALTAGGFSPADAARGAVKAPMTQILDWNG SRYWAPNSMKTTGYSGTFASQGIRSSPHLSNQTPNVVKSTKPLPSISSSSSVYSSPST APSQSTQSTTLSAGTGSSRPNTVSTKTSTLSRTSDWVRDQNEMLGPFMSGALQTAYVT PPSSRASSQGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI" ORIGIN 1 cccttggcag tcaaaaatct gtcaatgaca gtaataatgc caccccttct aacaaagaag 61 aggttggtac attctccaac attaaagttg gattcaagaa aatgctgggt gccgtgccca 121 aaggtaccaa ggcacccagc agtgatcagc attgccccac agttaagatc gggcctaaaa 181 cattgacaat cccccccgaa cccccaaatg gtgaagacac cgtacagttt gatgcaaaat 241 cagaaactgt aattgggcta ccggacttga caacggtgca aaatgaacac gaaaatactc 301 catacactgt ccccccattg agtgagaggg agcacagacc ggccactgaa ccacttcctg 361 gcacaatact ggagatgtgg gatggtgagt tttaccatta ctccgtgtac gtcagcgatg 421 gcaaagctct gggggtccac aaaccaccgg cggctataag tctcgcgacg atagaactca 481 cccccatatc actctactgg agacccgtct acacccccaa ctacttggtc tccccagaca 541 cattaaaggg cctcgctggt gagaagttcc cctacacggc cttcagcaac aactgttaca 601 acttctgctg ttgggtgctt gagctcaatg acacgtggct taacagaaga tgcatctcca 661 gaactaccgg cttctttaaa ccataccagt cttggaatag gaaacctctc ccaactattg 721 atgatggaaa gatcaaaaag gtggccaacg cgatcctctg tgcactcggc tcgctgtttt 781 caaaaccaat aaaggatcta ttaggtaaac tcaagccact gaatctacta cacttgctcg 841 cgtcctgtga ttggacgttt gcgggtatag tggagacagt catcttaatg gcggagcttt 901 ttaatgtctt ctggaccccg ccagatgtct ctaattttat agcctccctg ataggtgatt 961 ttgaattgca aggccctgaa gacttggctg tggagctcgt tcccgtggtt atgggtggca 1021 tagggatggt tctcggcttc accgctgaaa agataggccg catgctgtcg tccgctgcat 1081 caacattacg ggcgtgcaaa gacctaggga actatgccct tgacatactc aaattggtca 1141 tgaaatggtt cttcccaaag aaggaagaga aagctgagat ggagaccttg agggcgattg 1201 aagatgctgt ccttgatatg gaagctatag ggaataacca cctcacaacc cttctcaagg 1261 acaaagacag cctcacggct ttcatgaaga ccctggatct agaagaggag aaagcgagga 1321 aactgtccac taaatcatct tcaccggaca tagtcggcac cattaacgcc atactagcta 1381 ggatagctgc tgctagatcc ctactacata aggccaaaga ggagatgttc agcaggatca 1441 gaccagtagt cgtcatgatc tcaggcagac ctggcattgg gaaaacccac atggcaaggc 1501 acctggctaa gagcatcgcc aacaccatga gtggcgatca gagggtcgga ctcgtcccac 1561 gcaatggtgt cgatcactgg gatgcctaca ggggagagag agtggtcttg tgggatgact 1621 acggtatggg gagccctgtc aaagacgccc tgacactgca agaattggcc gacacatgtc 1681 cagtcacttt aaattgtgat aggattgaga ataaagggaa gatgtttgat agtgatgtta 1741 tcataatcac gaccaaccta gtcaaccccg cgcccctcga ctatgtgaac ttcgaggcgt 1801 gttccaggag agttgacttc ctggtctatg cagagtcacc agagattgaa aaggtcaaga 1861 gagatttccc tggccagcct gacatgtgga aagatcattt taagccagac ttttcccaca 1921 ttaagttgac tctagcccct caaggtggat ttgataaaaa tggcaacacc ccacacggca 1981 agggcactat gcggtcccta acccaggggt ccctaaccgc gagggttgca ggccttgttc 2041 atgagaggaa ggacgagttc cagctccaag gaaatgacct tcaaacatac aattttgaca 2101 ccaacagagt ctccgcgttt agaaaattgg ccgcagacaa caagtatggg atcatggaga 2161 cgatgagagt tggcacagcg ctcaagagtg tgaagacctt agaagatctt gaagttgcat 2221 tgagggatgt aaaattcaat gagtgtgaaa taatttacaa gaattctagg taccgagtct 2281 cttccaacgg taaaggctca gtttctgttg acaaagttga agacaatgct tcccaaactg 2341 tgaacgaggt gcactcagca ctcctcagac tcaggcaggc gagggccaga tactacgtta 2401 gctgcttcca agacctcgtc tacactctca tacaggttgc cggggcatca ttcgttgtca 2461 gtaggatatc cagaaggttc tgctgggaaa ggtgggtcaa accgaccgag acacaggagg 2521 tgaatgagcc cgaaagggaa gtggcccaag gcagatggga aattgaaccc aaggacacag 2581 aaccagaagg caagaagggt aagaacaaga aaggaagggg caagaaacac acagccttct 2641 ctagcaaagg tctgagtgat gaagagtatg acgagttcaa gaggatcagg gaagaaagaa 2701 atggaaagta ctccattgag gaatacctgc aggaccgaga ccgctattat gaagaagtag 2761 cagtcgctcg ggcgacagag gaggacttct gtgaagagga agaggccaag ataagacaga 2821 gaatcttccg cccgacaagg aaacagagga aggaggaaag gggcgtgctt ggcttggtca 2881 ctggctcaga catcagaaag agaagaccag acgattttca accaaaaggc aatctatggg 2941 cagatgacac cagaagtgtg gattacaatg agaggcttga ttttgaagca cccccgagtg 3001 tctggtcaag aatagtccca ttaggcactg gttgggggtt ttgggtttca tccaaccttc 3061 tgatcacaac aacacacgtc ctgcctaaag ggattaagga gctctttgga gttgaaatca 3121 aacaaatcca aatccataag tctggagagt tttgcaggtt tagattccca agacctatca 3181 ggccagatgt cacagggctc gtgctggagg agggcgcccc agagggcact gtctgttctg 3241 tactcgtgaa aagacccaca ggtgaaatga tcccccttgc agtgaggatg ggcacacacg 3301 catccatgaa aatacagggc aggactgttg gtggccagat gggaatgctc ctcacaggag 3361 caaacgcaaa gaacatggac cttggcaccg gccccggtga ctgcggttgc ccctacatct 3421 acaagcgtgg caacgacatt gttgttgcgg gcgtccacac tgcagcagcc cggggaggca 3481 acactgtaat atgtgctacc caagggcaag atggggaagc agtccttgag ggaaatgagg 3541 accttggcac ctactgtggc gccccaattt tgggccctgg caaggcgcct aaactcagta 3601 cgaagaccaa gttttggcgc tcatcaccag atgccctgcc acctggcaca tatgaacctg 3661 cttacctagg aggcaaagac cctagagtgg aaaaaggtcc atccctgcag caagtcatga 3721 gagaccagtt gaggcccttc acagaaccca gaggcaaacc gcctagacct gcaattttag 3781 aggaagccaa aaagacagtg atgaatgttc tagagcaaac cattgacccc gccaagccat 3841 ggtcctattc gcaggcatgt gcctcattgg acaaaaccac ctctagtggt agtccccacc 3901 acgttaagaa aaatgaccac tggaatgggg agtccttcac tggtcccctt gcagaccagg 3961 cttctaaagc caacctcatg tatgagcagg ctaaacatgt gcagcccgtg tatacggctg 4021 cgcttaaaga tgagcttgtt aagactgaca agatctacaa gaagataaag aaaaggctcc 4081 tatgggggtc agaccttggc acaatgatca ggtgcgccag ggcttttggc ggtcttatgg 4141 acagcatgaa ggcaagttgc atagctcttc cttgcagggt aggaatgaac atgaatgaag 4201 atggccccat catatttgac aaacactcta agtacaggta ccactatgat gctgactatt 4261 ctaggtggga ctcaacccaa caaaggagca tcctctctgc cgccatggaa gtgatggtgc 4321 ggttttctgc tgaaccagaa ttggcacaag tggttgcaga ggaccttttg gcacctagcc 4381 agcttgatgt cggcgacttt gtcatctcag tccaggaagg cctgccatca ggagtcccat 4441 gcacatcaca atggaattca atagcacact ggatactcac tttgagtgca atggcagaag 4501 tgtcaggcct ttcaccagat gttatccaag ctcactcttg tttttcattt tatggggacg 4561 acgagatcgt cagcactgat atcaacctcg acccaatgaa gttaacacaa aaactcaggg 4621 agtatggcct ggttcccacc cggcctgaca aaactgaagg tcccctcgtc ataactgaag 4681 acctcaccgg cctgacgttc cttcgtaggt cgattgcacg ggacccagct ggctggtttg 4741 gaaaactaga ccaggattca atcctcaggc aactgtactg gacaaggggg cctaaccatg 4801 agaacccgta cgagagcatg gttcctcatt cccagcgggc cacacaactc atggcccttc 4861 ttggcgaggc ctcgctgcac ggtcctcagt tttacaagaa agtcagcaaa atggtcatca 4921 atgaaattaa gagtggtggt ctggagtttt acgtgcccag acaagaggcc atgttcagat 4981 ggatgagatt ctctgacctc agcacgtggg agggcgatcg caatcttgct cccgaaggtg 5041 tgaatgaaga tggcgtcgaa tgacgctact ccatctgatg atggtgcagc cggcctcgta 5101 ccagagatca acaatgaggt tatggctctt gaacccgtcg ctggggcctc cattgcagcc 5161 cccgtagtcg gtcaacagaa tataattgat ccctggatta gaaacaattt tgtacaagcc 5221 cctgctggtg aatttacagt ttcccctaga aactctcctg gagaacttct acttgatttg 5281 gaattgggtc ctgaactcaa cccctatctt gcacatttgg ctaggatgta caatgggcac 5341 gcaggaggaa tggaagtgca gatagtactg gctgggaatg cgttcacagc tggtaagatc 5401 ctatttgccg ccatcccacc tagcttccct tatgaaaatt tgtcacccgc ccaattgact 5461 atgtgccccc atgtgatagt ggatgtgaga caattagaac cagtgctttt gccaatgcca 5521 gatataagaa atgttttcta tcattataac cagaataaca gtcccaaact caggcttgta 5581 gctatgcttt atactcctct gagggctaac aattcaggtg atgatgtgtt cacggtgtct 5641 tgccgcgttt taacgcgccc ttctccagat ttccagttca ctttcctggt cccacctaca 5701 gttgagtcta aaactaagaa cttcaccctc cccgttctca gagtttcaga gatgacaaac 5761 tcaaggttcc ccgttgtctt ggaccaaatg tacacaagca ggaatgaaaa catcattgtc 5821 caaccccaaa acggcagatg cacaactgat ggtgagctgc ttggtaccac tatcttacaa 5881 tctgtgtcta tttgcaactt caaaggaaca atgcaggcaa agctgaatga agaaccacga 5941 taccaattgc aactcaccaa cttggatggt tcacccatag atccaacaga tgatgtgcct 6001 gcccctcttg gcacaccaga cttccaggcc atgttatatg gcgttgcaag ccaacgctct 6061 tccagagaca atgccaccag ggcacatgat gcacagattg acactgcggg tgacacattc 6121 gccccgaaaa ttggccaggt tcgatttaaa tcaagctcca atgattttga tctacatgac 6181 cctacaaaat tcacacctat tggtgtcaat gtggatgacc agcacccttt tagacagtgg 6241 tccctgccaa actacggtgg tcaccttgcc ctgaacaacc atttggcccc agctgtgaca 6301 ccgctcttcc ctggcgagca aatcttgttc tttaggtcat acattccaag cgccggaggc 6361 cacacagacg gtgctatgga ctgtttgctg ccccaagagt ggatagagca cttctaccag 6421 gaggcggctc cttcccaatc tgacatcgca ctggtgaggt tcatcaaccc tgacacagga 6481 agagtgctct ttgaagctaa attgcacaaa caaggtttcc tcacaattgc agcatctgga 6541 gaccatccta ttgtgatgcc cactaatggt tactttaggt ttgaagcttg ggtcaaccct 6601 ttctatactc tcgcccccgt gggaactggg tctgggcgca ggaggattca ataatggctg 6661 gagctttcct tgcaggcttg gcaggtgacg ttgtgacttc cagcttgggc tcacttgtgg 6721 gtgctggagc caacgccatc aaccaaaaag tggagtatga cttcaacagg caactccagg 6781 aggcatcttt tagacatgat aaggatatgc tcaaagccca ggttgcagca acagcaggcc 6841 ttcaacaggc catgatagac atcaagcggg aggcattgac cgcaggcggc ttttcccccg 6901 ctgatgctgc aagaggtgca gttaaagcac ctatgacgca gatccttgat tggaatggtt 6961 ccagatactg ggctcctaac tccatgaaga caactggcta ttcaggcaca tttgcttccc 7021 aaggcattag aagttcccct catctgtcta atcaaacccc aaatgttgtt aaatctacta 7081 aacctttacc atctatatct agttcttcta gtgtgtatag ttctccttcc actgccccct 7141 cacaatcaac acaatcaaca acgctgtctg cagggacagg gtcttccaga cctaacactg 7201 tgtccacaaa gacttccaca ttgtcgagga caagtgattg ggtcagagat caaaatgaga 7261 tgcttggccc gttcatgagt ggtgcactcc aaactgctta tgtcacacca ccatcgagca 7321 gggcctcatc acaagggacg gtctcgaccg tacccaaggc tgttttggac tcctggactc 7381 ccatgtttaa cacccacagg cagcctctct tcgcccactt gcgtaggcga ggggagtcac 7441 agatttagtg aaaaggatga ttagggtttc ttcctttccc ctttttattc tttt //