Typing tool
|
Complete norovirus genomes
MW305619 | GII.6 | ||
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GII.P7 |
ORF1: 1..5063 ORF2: 5044..6687 ORF3: 6687..7463LOCUS MW305619 7515 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate Arg12540 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305619 VERSION MW305619.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7515) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7515) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7515 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Arg12540" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Argentina" /collection_date="2014" /note="genotype: GII.6[GII.P7]" gene <1..5063 /gene="ORF1" CDS <1..5063 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ59193.1" /translation="FGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKKMLGAVPKGTKA PSSDQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTTVQNEHENTPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL HLLASCDWTFAGIVETVILMAELFGIFWTPPDVSSFIASLIGDFELQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKSIANT MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPG QPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER RDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKTLEDLKVAL RDVKFNECEIIYRNSKYRVSSNGKGSVSVNKVEDQTSQAANEVGAALLRLRQARARYY VSCFQDLVYTLMQVAGASFVVNRISKRFCWERWVKPTETQETSESEKEVAQGRWEIEP KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR YYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDF QPKGNLWADDTRIVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG INELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILVKRPTGE MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA 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..6687 /gene="ORF2" CDS 5044..6687 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59194.1" /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ LVPTQICSFRGTLISQTSRSADSTDSAPRARNHPLHVQLKNLDGTPYDPTDEVPAVLG AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ" gene 6687..7463 /gene="ORF3" CDS 6687..7463 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59195.1" /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTRILDWNG TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPRSEPPKIKVSSDSASVYSSAPTAPSQST HSTALTAGSSSSRTTSSSAVASTLSRTSDWVKGQNERLSPFMDGALQTTFVTPPSSKA SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI" ORIGIN 1 cctttggcag ccaaaactct gtcaatgaca gtatcaacac cgccccttct aataaagaag 61 aggttggtgc attctccaac atcaaagttg gttttaagaa aatgctgggt gccgttccca 121 aggggaccaa agcacccagt agtgatcagc actgcccctc agttaagatc gggaccaaga 181 cattaacagt tccccctgag cccccaaatg gtgaagacac cgtgcagttt gatgcgaagt 241 cggaaactgt gcgcgggtta ccagacttga caacggtgca gaatgaacac gaaaacacac 301 catacactgt ccctccattg agtgaaaggg aacacagacc agctactgaa ccgcttcctg 361 gcacaatact ggagatgtgg gatggtgaat tctaccatta ctctgtgtac gtcagcggtg 421 gcaaagccct aggggttcac aagccccctg cagcgataag cctcgcgacg atagagctca 481 cacccatatc tctttattgg aggcccgttt acactcccaa ctatctggtc tgcccagaca 541 cgttgaaggg ccttgctggt gagaagttcc cctacacggc cttcagcaac aactgttaca 601 acttctgttg ctgggtgctt gagctcaatg acacgtggct tagcaggaga agcatctcta 661 ggaccaccgg cttcttcaaa ccataccagt cttggaatag gaaacccctt ccaaccgttg 721 atgatggaaa gatcaaaaag gtggccaacg caattctctg cgcacttgga tcactgtttt 781 caaaaccaat caaggaccta ttgggcaaac ttaaaccatt gaacttgctg cacttgctcg 841 catcatgtga ctggacgttt gcgggtatag tagagacagt catcctaatg gcggaacttt 901 tcggcatctt ttggacaccg ccagatgttt ccagtttcat agcctccctg ataggtgatt 961 ttgaattgca agggcctgag gacctggctg tggagcttgt acccgtggtc atgggtggca 1021 taggaatggt tctcggcttc actgctgaga agataggccg catgctatcg tccgctgcat 1081 caacactacg ggcgtgcaaa gacttgggga attatgctct tgacatactg aaactggtta 1141 tgaagtggtt cttcccaaag aaagaagaga aagccgagat ggaaacccta agggcgattg 1201 aggatgccgt cctggacatg gaagctatag gaaataacca tctcacaacc ctcctcaagg 1261 acaaggatag cctcacggct ttcatgaaga ctctagatct agaagaagag aaggcgagga 1321 agctgtccac caaatcatcc tcgccagaca ttgtcggcac cattaatgcc atactagcta 1381 gaatagctgc tgccaggtcc ctcttacaca aggctaaaga agaaatgttc agcaggatca 1441 gacccgtggt tgtcatgatc tcgggtagac ctggcattgg caaaacccac atggcaagac 1501 acttggctaa gagtatcgcc aacaccatga gcggcgacca gagagtgggg ctcgtcccac 1561 gcaatggggt tgatcattgg gacgcctaca ggggagagag ggtggtttta tgggatgatt 1621 atggcatggg aaaccctgtc aaagatgccc taacactgca agagctggcc gacacctgcc 1681 cagtaactct aaactgtgat aggattgaga acaaggggaa gatgtttgac agtgatgtca 1741 tcataattac gaccaattta gtcaacccag cgcccctcga ttatgtgaac ttcgaggcgt 1801 gctccagaag ggtcgacttt ctggtctatg cagagtcgcc agaaattgag aaggttaaga 1861 gagacttccc cggccaacct gacatgtgga aggaccattt taagccagac ttttcccaca 1921 taaaactgac tctagcccca cagggtggat ttgacaagaa tggcaacacc ccgcatggta 1981 agggcaccat gcgatcccta acccaggggt ccctgactgc aagggttgca ggtcttgttc 2041 atgagaggag agacgagttt cagcttcagg ggaacgacct tcaaacatat aactttgata 2101 ccaacagagt ctctgcattt aggaagctgg ccgcagacaa caagtatggg atcatggaga 2161 ctatgagagt gggcacagcg cttaagagtg tcaagacctt ggaagatctg aaagttgcac 2221 tgagggatgt gaagttcaat gagtgtgaga taatttacag aaactccaaa taccgagtct 2281 cttccaatgg taaaggttct gtctctgtta acaaagttga ggaccaaaca tcccaggccg 2341 caaacgaagt gggtgcagca ctccttagac tcagacaggc aagggccagg tactatgtca 2401 gctgcttcca agacctcgtt tacactctaa tgcaggtcgc cggagcatca ttcgttgtca 2461 acaggatctc taaaaggttc tgttgggaga gatgggtcaa accaaccgag acccaggaaa 2521 cgagtgaatc cgaaaaagaa gtggcccaag gcagatggga gattgagccc aaggacacag 2581 aaccagaagg taagaagggt aagaacaaga aaggaagagg caagaaacac acagctttct 2641 ccagtaaagg tctgagtgat gaggagtatg acgagttcaa gagaatcaga gaagaaagga 2701 acggaaaata ctccattgag gaatacctgc aagaccggga tcgctactat gaggaagtgg 2761 cagttgcccg ggcgacagag gaggacttct gtgaagagga ggaggccaag ataagacaaa 2821 gaatctttcg ccccacaaag aaacagagga aggaagaaag gggggtgctt ggtttggtta 2881 ctggctcaga catcaggaag agaagaccag acgattttca accgaagggc aacctgtggg 2941 cagacgacac caggattgtg gactacaacg agaggcttga tttcgaggct cccccgagtg 3001 tctggtcaag aatagtccca ttgggcactg gctggggctt ctgggtctca tcaaacctcc 3061 tgatcacaac aacgcacgtc ctacctaagg ggattaacga gctctttgga gttgagatca 3121 aacagattca gattcacaag tctggagagt tctgcaggtt cagattccca agaccaatta 3181 gaccagatgt cacagggctc gtgttggagg agggcgctcc agaaggcact gtctgctcca 3241 tactcgtgaa gagacctaca ggtgagatga tccccctggc agtgaggatg ggcacgcatg 3301 catccatgaa aatacagggt aggaccgtcg gtggccagat ggggatgctc ctcacagggg 3361 caaatgcgaa gaacatggat cttggcaccg gtcctggtga ctgcggttgc ccctacatct 3421 acaaacgtgg caatgatata gttgtcgcgg gtgtccacac cgcagcagcc cggggaggca 3481 acactgttat atgtgccact caagggcaag atggggaagc agtccttgag ggaaatgaga 3541 accttggcac ttactgcggt gctccaatct tgggtccagg caaggcgccc aaacttagca 3601 cgaagaccaa gttctggcgt tcatcaccag acgctttgcc gccaggcact tatgaacctg 3661 cctacttggg aggtaaggac cctagagtgg aaaaaggacc atccctgcag caagtcatga 3721 gggaccagct aaaacctttc acagaaccca ggggcaagcc acctagacct gcagtcttag 3781 aagaagccaa aaagacagtg atgaatgttc tagagcaaac cattgaccct gctaaaccgt 3841 ggacctattc ccaagcatgt gcctcactgg acaagaccac ttccagtggt agcccccatc 3901 atgtcaggaa aaatgaccat tggaatgggg aatccttcac tggccccctc gcagaccaag 3961 catccaaagc caacctcatg tacgagcagg ccaaacatgt gcagcccgtg tacacggccg 4021 cactcaaaga tgaactagtc aaaactgata agatctacaa gaagataaag aaaaggctct 4081 tatgggggtc ggatcttggt acaatgatca ggtgtgccag ggcctttggc ggtctcatgg 4141 atagcatgaa ggcaagctgc atagctctcc catgtagggt aggaatgaac atgaatgaag 4201 atggccccat catatttgac aagcattcta agtataggta ccattatgat gctgactatt 4261 ccaggtggga ctcaacccag caaaggagca ttctctcggc cgctatggaa gtgatggtgc 4321 ggttctctgc tgaaccagag ctggcacaag tggttgcaga ggacctcctg gcacccagcc 4381 aactagatgt tggcgatttc gtcatctcag tccaggaggg tctgccatca ggggtcccat 4441 gcacatcaca atggaattca atagcacact ggatcctaac cttgagtgca atggcagaag 4501 tgtcgggtct ctcaccagat gttgttcaag cccactcctg tttctcattc tacggtgatg 4561 atgagatcgt cagcactgac atcaaccttg atcccatgaa gttgacacag aagctcagag 4621 agtatggcct ggtccccacc cgacctgaca aaactgaggg tcccctcgta ataactgaag 4681 atctcaccgg cctaacgttc ctgcgcaggt caattgcacg ggacccagct gggtggtttg 4741 gaaaattgga ccaagactca atcctcagac agttgtactg gacaaggggc cccaaccatg 4801 agaacccata tgagagcatg gtccctcatt cccagcgggc cacacaactt atggcccttc 4861 tcggtgaggc ttcactgcac ggtccccagt tttacaagaa agttagcaag atggttatta 4921 atgagatcaa aagtggtggc ctggaattct atgtgcccag acaagaggcc atgttcagat 4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg 5041 tgaatgaaga tggcgtcgaa tgacgctgct ccatcgaatg atggtgctgc caacctcgta 5101 ccagaggcca ccaatgaggt tatggcactt gagccggtgg tgggagcctc aattgctgct 5161 cctgtcgtcg gccaacaaaa tataattgac ccctggatta gagaaaactt tgttcaggca 5221 ccacagggtg agtttactgt ttcaccaagg aactcacctg gtgagatgct tctaaatctt 5281 gaattaggcc ctgagctcaa cccttatctg agtcacttgt cccgcatgta taacggctat 5341 gctggtggta tgcaggttca ggtggtccta gctgggaatg cgttcacagc tggtaaaatc 5401 atctttgccg ccgtcccacc acatttccct gttgagaaca ttagtgcagc ccaaatcaca 5461 atgtgccccc atgtaatcgt tgatgtaaga cagcttgagc cagtgctttt gcccctccct 5521 gacataagga atagattctt tcattataac caggaaaata ccccccggat gagactcgtg 5581 gctatgttgt atacacccct tagagcaaat tctggtgagg atgtgtttac ggtgtcttgc 5641 agagttctga cccgccctgc ccccgacttt gagttcacgt ttttggtgcc accaactgtg 5701 gagtcaaaga ctaagccctt tacactccct attctgactc ttggagagct gtccaactcc 5761 agattccccg ctccgataga catgttgtac actgacccca atgaggcaat tgtggtgcaa 5821 ccacaaaatg gcaggtgcac tctagatgga acacttcaag ggaccaccca actggtaccc 5881 acccaaattt gctccttcag gggcacgcta attagccaga cgtcgaggtc tgcagattca 5941 acagattcag ccccacgggc gaggaaccac cctctccacg ttcagctgaa gaacctcgat 6001 gggacaccat atgacccaac agatgaggtg ccagcagttt tgggtgccat agatttcaaa 6061 ggaactgtgt ttggggtcgc tagccaaaga aacaccacag ggaactctat aggagcaacc 6121 cgcgcccatg aagtgcacat agacaccaca aaccctagat acaccccaaa gcttggctct 6181 gtgttgatgt attctgaatc tactgatttt gatgatggac aacccacccg ctttaccccc 6241 attggtatgg gagccgatga ttggcatcaa tgggaattgc ccgaatattc tggtcacctc 6301 actcttaaca tgaatttggc ccccgcagtt gcccctgctt tccctggtga gcgcattctc 6361 ttcttcagat cagtggtacc gtctgctggt ggctatggat caggtcacat agattgcctc 6421 atcccacagg agtgggttca gcatttctac caggaggccg ctccatcaca gtccgcagtg 6481 gctcttatca gatatgtcaa ccctgacact gggagaaaca tctttgaggc aaaactgcat 6541 agagaagggt tcatcactgt ggcaaattct ggaaacaacc ccatagttgt gcccccaaat 6601 ggttacttca ggtttgaggc ctgggtcaat caattctaca cactcacccc catgggaact 6661 ggacaggggc gcagaagagt tcaataatgg caggagcttt cttagctgga ttggcaggtg 6721 acgccataac aagtggtgtc gggtccctaa tcaatgctgg ggccaatgca attaaccaga 6781 aggtagaata tgactttaat aaacagctcc aattggcatc cttcaaacat gacaaagaga 6841 tgttgcaatc acaagtactg gccactaaac agctccagca ggagatgatg aacataaggc 6901 aaggggtctt gtccgctggc ggcttttccc ctacagatgc cgcgagaggt gctgtgaacg 6961 cgccgatgac aagaattttg gattggaatg gaacaaggta ctttgcccca aatagtatga 7021 agacaaccag ttattcgggc cagttttcca gcaaccctgt gcataggcaa cccactttac 7081 cccgttctga acccccaaaa attaaggtta gtagtgattc tgctagtgtg tatagttctg 7141 cacctactgc tccttcacaa tcaactcact caacggcttt gactgcgggg tctagctcat 7201 ctaggacaac atcctcttct gcagtagctt ccaccctatc taggactagt gactgggtga 7261 aaggacaaaa tgaaaggctt agcccgttta tggatggtgc tctccaaaca acttttgtca 7321 caccaccatc gagcaaagct tcatcatatg ggtcggtctc aaccgttccc aaagctgttt 7381 tggactcctg gactcctatg ttcaataccc ataggcagcc tctcttcgct catgtgcgca 7441 ggcgagggga gtcacagatt tagtgaaaag attgattagg ttttctttct ttcttctttt 7501 ccttttcttt ctttt //