Typing tool
|
Complete norovirus genomes
MW305603 | GII.7 | ||
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GII.P7 |
ORF1: 1..5063 ORF2: 5044..6666 ORF3: 6666..7439LOCUS MW305603 7509 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg4238 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305603 VERSION MW305603.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7509) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7509) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7509 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg4238" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2004" /note="genotype: GII.7[GII.P7]" gene <1..5063 /gene="ORF1" CDS <1..5063 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59145.1" /translation="FGSQNSVNDSNDATPSNKEEAGAFSNIKVGFKKMLGAVPKGTKA PSSGQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTTVQNEHENTPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPPAAISLATIELT PISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLNRRCI SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFVASLIGDFELQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGVMETMRVGAALKNVKTLEDLKVAL RDVKFNECEIIYKNSKYRVSSNGKGSVSVDKVEDNASQTVNEVQSALLRLRQARARYY ISCFQDLVYTLIQVAGASFVVNRISRRFCWERWVKPTETQEVNESEKEVVQDRWEIEP KDTGPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG VKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGE MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI VVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPGKAPKLSTKTKF WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRGKPPRPAVLEEA KKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNGESFTGPLADQA SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAME VMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTL SAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTE 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..6666 /gene="ORF2" CDS 5044..6666 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59146.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV AGDSSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ" gene 6666..7439 /gene="ORF3" CDS 6666..7439 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59147.1" /translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG TRYWAPGAMRTTGYSGTFTHLPPMQSAPYVNNQNRQLLKVDPSLPSSSGSSVSSVKTQ STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMNGALQTTYVTPPSSRAS SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI" ORIGIN 1 cctttggcag tcaaaactct gtcaatgaca gtaatgacgc caccccttct aacaaagaag 61 aggctggtgc attctccaac atcaaagttg gattcaagaa aatgctgggt gccgtaccca 121 agggtaccaa agcacccagc agtggtcaac attgccccac agttaagatc gggcctaaaa 181 cattaacaat cccccctgag cccccaaatg gtgaagacac cgtacagttt gatgcaaagt 241 cagaaactat aattgggcta ccggacttga caacggtgca aaacgaacac gaaaacaccc 301 catacactgt ccctccatta agtgagaggg agcacagacc ggccactgaa ccacttcctg 361 gcacaatatt ggagatgtgg gatggtgagt tttaccatta ctccgtgtac gtcagcgacg 421 gtaaagctct gggggtccac aaaccaccgg cggctataag cctcgcgacg atagagctca 481 cccccatatc actttattgg aggcccgttt atacccccaa ttatttggtc tccccggaca 541 cattaaaggg cctcgctggt gagaagttcc cctacacggc cttcagtaac aactgttata 601 acttctgctg ctgggtgctt gagctcaacg acacgtggct taacagaaga tgcatttcca 661 gaaccaccgg attcttcaaa ccataccagt cttggaacag gaaacctctc ccaaccgttg 721 atgatggaaa gatcaaaaag gtggccaacg cgatcctctg tgcactcggc tcgctgtttt 781 caaaaccaat caaagatctg ttaggcaaac tcaagccatt gaatctacta cacttgcttg 841 cgtcttgtga ttggacgttt gcgggtatag tggagacagt catcttaatg gcggaacttt 901 ttaatgtctt ctggaccccg ccagatgtct ctaattttgt agcctccctg ataggtgatt 961 ttgaattgca agggcctgag gacctggctg tggagctcgt tcccgtggtt atgggtggta 1021 taggaatggt tctcggtttt accgctgaga agataggccg catgctgtcg tccgctgcat 1081 caacattgcg ggcgtgcaaa gacctaggga actatgccct tgacatactc aaattggtca 1141 tgaagtggtt cttcccaaag aaggaagaga aagctgagat ggaaaccttg agggcgattg 1201 aagatgccgt cctagatatg gaagctatag ggaataacca cctcacaacc cttctcaagg 1261 acaaagacag cctcacggct tttatgaaga ccctggacct agaagaggag aaggccagga 1321 aactgtccac taaatcatct tcaccggaca tagtcggcac catcaatgcc atactagcta 1381 ggatagctgc tgctagatcc cttctacata aggccaaaga agagatgttc agcaggatca 1441 gaccagtggt cgttatgatc tcaggcagac ctggcattgg aaaaacccac atggcgagac 1501 atttggctaa gagcatcgcc aacaccatga gtggcgacca gagagtcggg ctcgttccgc 1561 gcaacggtgt cgaccactgg gacgcctaca ggggagagag ggtggtcctg tgggacgact 1621 atggtatggg gagccctgtt aaagacgccc taacactaca agagctggcc gacacatgtc 1681 cagtcacttt aaattgtgat aggattgaga ataaggggaa gatgtttgac agtgatgtca 1741 tcataatcac gaccaaccta gtcaaccccg cgcccctcga ctatgtgaac ttcgaggcgt 1801 gttctaggag agttgacttc ctggtctatg cagagtcacc agaaattgaa aaggtcaaga 1861 gagacttccc tggccagcct gacatgtgga aagaccattt taagccagac ttttcccaca 1921 tcaagctgac tctagccccc cagggtgggt ttgacaaaaa tggcaacacc ccacacggca 1981 agggcaccat gcggtcccta acccaggggt ccctgactgc gagagttgca ggccttgtcc 2041 atgagaggag agatgagttc cagctccaag gaaatgacct ccaaacatac aactttgaca 2101 ccaacagagt ctccgcattc aggaaattgg ctgcagataa caagtatggg gtcatggaga 2161 cgatgagagt gggtgcggca ctcaagaatg tgaagacctt ggaagatctc aaagttgcat 2221 tgagggatgt gaaattcaat gagtgtgaaa taatttataa gaactctaag tatcgagtct 2281 cttccaacgg taaaggctca gtttctgttg acaaagttga ggacaatgca tcccagactg 2341 taaacgaggt acaatcagca cttctcaggc tcaggcaagc gagggccagg tattacatca 2401 gctgcttcca agacctcgtc tacactctca tacaggttgc cggagcatca ttcgttgtca 2461 acaggatctc cagaaggttc tgctgggaaa ggtgggtcaa accaaccgag acccaggagg 2521 tgaatgagtc cgaaaaggaa gtggttcaag atagatggga aattgagccc aaggatacag 2581 gaccagaagg caagaagggt aagaacaaga aaggaagggg taagaaacac acagctttct 2641 ctagcaaagg cctgagtgat gaagagtatg acgagttcaa gagaatcagg gaagaaagga 2701 acggaaagta ctccattgag gaatacctgc aagaccgaga ccgctattat gaagaagtgg 2761 cagttgcccg ggcgacagag gaggacttct gtgaagagga agaggccaaa ataagacaaa 2821 ggattttccg cccgacaaag aaacagagga aggaggaaag gggtgtgctt ggcttagtca 2881 ccggttcaga catcagaaag aggagaccag acgattttca accaaaaggc aacctatggg 2941 cagatgacac cagaagtgtg gactacaatg agaggcttga ttttgaagcg cccccaagtg 3001 tttggtcaag aatagtccca ttaggcactg gttggggatt ctgggtttca tccaaccttc 3061 tgatcacaac aacacacgtc ctgcctaaag gggttaagga actctttgga gttgaaatca 3121 agcaaattca agttcataag tctggagagt tttgcaggtt taggttccca agacctatca 3181 ggccagatgt cacaggactc gtgctggagg aaggcgcccc agagggcact gtttgttcta 3241 tactcataaa aaggcccaca ggtgagatga ttcccttggc agtgaggatg ggcacacatg 3301 catccatgaa aatacagggc aggaccgttg gtggccagat ggggatgctt ctcacaggag 3361 caaacgcgaa gaacatggat ctcggcaccg gtcctggtga ctgcggttgt ccctacatct 3421 acaaacgtgg caatgacatt gttgtcgcgg gtgtccatac cgcagcagcc cggggaggca 3481 acactgtcat atgcgccacc caagggcaag atggggaagc agtccttgag ggaaatgagg 3541 accttggtac ctactgtggc gccccaattc tgggccctgg caaggcgcct aaactcagca 3601 cgaagaccaa gttttggcgc tcatcaccag atgccttgcc acctggcaca tatgagcctg 3661 cttacctagg aggcaaagac cccagagtgg aaaaagggcc ctccctgcag caagtcatga 3721 gagaccagtt gagacccttc acagaaccca ggggcaaacc acctagacct gcagtcttag 3781 aagaagccaa aaagacagtg atgaatgttc tagaacaaac cattgacccc gccaagccat 3841 ggtcctattc gcaggcatgt gcctcactgg acaaaaccac ctctagtggt agtccccatc 3901 acgttaagaa aaatgaccac tggaatgggg agtccttcac tggtcccctt gcagatcagg 3961 catctaaagc caacctcatg tatgagcagg ctaagcatgt gcagcccgtg tacacggccg 4021 cgcttaaaga tgagcttgtt aagactgaca agatctacaa aaagataaag aagaggctcc 4081 tatgggggtc ggaccttggc acaatgatca ggtgcgccag ggcttttggt ggtctcatgg 4141 acagcatgaa ggctagttgt atagctcttc catgcagggt gggaatgaac atgaatgaag 4201 atggccccat catatttgac aaacattcta agtacaggta ccactatgat gctgactatt 4261 ctaggtggga ctcaacccaa caaaggagca ttctttctgc cgccatggaa gtgatggtgc 4321 ggttttctgc tgaaccagaa ttggcacaag tggttgcgga agaccttttg gcacctagcc 4381 agcttgatgt tggcgatttt gtcatctcag tccaggaggg tctgccatca ggagtcccat 4441 gtacatcaca atggaattca atagcacact ggatcctaac tttgagtgca atggcagaag 4501 tgtcaggtct ctcaccagat gttgtccaag ctcactcttg tttttcattt tatggggacg 4561 atgagatcgt cagtactgat atcaaccttg accccatgaa gttgacacag aaactcaggg 4621 agtacggtct ggtccccacc cggcctgata aaactgaagg tcccctcgtc ataactgaag 4681 acctcaccgg cctgacgttc cttcgcaggt cgattgctcg ggacccagct ggttggtttg 4741 gaaaattgga ccaagattca atcctcaggc aactgtactg gacaaggggg cctaaccatg 4801 agaacccgta cgagagcatg gttcctcatt ctcagcgggc cacacagctc atggcccttc 4861 ttggtgaggc ctcactgcat ggtccccagt tttacaagaa agttagcaag atggtcatca 4921 atgagattaa gagtggtggt ctggagtttt atgtgcccag acaagaggcc atgttcaggt 4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatctagct cccgaaggtg 5041 tgaatgaaga tggcgtcgaa tgacgcagct ccatctaatg atggtgcagc aggcctcgta 5101 ccagagatca acaatgaggt catgcccctt gagcccgtgg ctggtgcatc gctggcgaca 5161 ccagttgtcg gacaacaaaa tataattgat ccctggataa gaaataattt tgtacaagct 5221 cctgcaggtg agtttacagt ctcccctaga aattctcctg gtgaaatttt gcttgatttg 5281 gagttgggac cagaattgaa cccctacctt gctcatctgg cccgtatgta caatgggcac 5341 gctggtggta tggaagtgca aattgtgttg gctgggaatg cgttcacagc tggcaagatc 5401 atatttgctg ccatccctcc agggttccca tatgaaaatt tgtcaccttc acaaattaca 5461 atgtgccctc atgttataat tgatgttaga caattagaac cagtcctact acctatgcca 5521 gatatcagaa ataacttctt ccattacaat cagggcaatg atccaaaatt gagattggta 5581 gctatgctct acaccccttt aagggctaat aattctggtg atgatgtgtt cacagtttct 5641 tgtagggtcc tcactaaacc gtcacctgat tttgaattca catttctagt tccccccacg 5701 gttgaatcca agaccaagca gtttacattg cccatcctca agatatcaga gatgaccaac 5761 tcaagattcc cagtgccagt ggaaatgatg tacacagcca ggaatgagaa ccaagttgtc 5821 cagccacaga atggtagggt cacacttgat ggcgaactat taggcaccac acccttattg 5881 gctgtcaaca tctgcaaatt caagggagag gttatagcta agaatggaga tgtgagatcc 5941 tataggatgg acatggaaat caccaacact gatggcaccc caattgaccc cacagaagac 6001 acacctggtc ccattggttc acctgatttt caaggtatac tttttggcgt tgccagccaa 6061 cgcaacaaga atgagcaaaa ccccgccacg agagcccatg aagccaacat taacactggt 6121 ggggaccaat acgcccccaa attggcccaa gtgaaattct tctcagagtc ccaggatttc 6181 gaggtgcacc agcccacagt tttcacccca gttggtgtgg caggcgactc ttcccaccct 6241 ttcagacagt gggtcctgcc tcgatacggt ggacatctca ccaataacac ccacttggct 6301 ccagcagtgg cccctctatt cccaggtgag cagattctat tctttagatc acaaatacct 6361 agctcaggcg gccatgaatt gggttacatg gactgccttg tcccacaaga atgggtccaa 6421 cacttctatc aagaagctgc cacagctcag tctgaggtgg cactcataag gtttatcaac 6481 ccagacactg gcagagtcct ctttgaggcc aaactgcaca agcaaggctt tataactgtg 6541 gctcacactg gtgataaccc aattgtcatg ccaccaaatg ggtactttag atttgaagcc 6601 tgggttaatc agttttactc actcgccccc gtgggaactg ggaatgggcg caggaggatc 6661 caataatggc tagtgctttc tttgcaaatt tggcaggagg cgttgcctcc aatggaatta 6721 gttcactcat aaatgctggg gctaatgcta ttaatcaaaa ggttgagttt gattataata 6781 aacaactcca aaatgcatcc ttctcccatg ataaggaaat gctccaagcc caaattgaag 6841 ccactaaacg tctgcaacaa gagatgattg acataaaaca aggggtgttg acagccgcgg 6901 gattctctcc tacggatgcc gcgaggggtt ctgtcggcgc gccaatgaca aaattagttg 6961 attggagtgg cactagatat tgggcacctg gcgccatgag gacaacaggt tattcaggga 7021 cttttactca cttaccccct atgcagtctg ctccatatgt taataatcaa aacagacaac 7081 ttcttaaagt agatccttct cttccctctt cgagtggttc ttctgtttct tctgtcaaaa 7141 cacaatcaac taccctctcg ggcacttcaa gggtgggctc ctcatctcag tcaaccctgt 7201 cgaccaggcc gagcacaagg acatctgatt gggtgcgtag ccaaaatgaa aggttgagcc 7261 ccttcatgaa tggagcgttg caaacaacgt atgtaacgcc accatccagt agggcatcaa 7321 gtgtcagcac agtctcgacc gtgccgaaag aggttttgga ctcctggacg cctatgttta 7381 acactcacag gcagccactc ttcgcccact tgcgtaggcg aggggagtca cagatttagt 7441 gaaaagattg gttgggaaag tttgattagt ttgttcttct tttctactat ccctttaatt 7501 ctttctttt //