Typing tool
|
Complete norovirus genomes
MW305523 | GII.6 | ||
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GII.P7 |
ORF1: 1..5063 ORF2: 5044..6696 ORF3: 6696..7475LOCUS MW305523 7528 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate PNV002309 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305523 VERSION MW305523.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7528) 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analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7528) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A.,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..7528 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="PNV002309" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Peru" /collection_date="12-Oct-2008" /note="genotype: GII.6[GII.P7]" gene <1..5063 /gene="ORF1" CDS <1..5063 /gene="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="QPJ58905.1" /translation="LGSQNSVNDSINTTPSNKEEAGAFSNIKVGFKKMLGAVPKGTKA PSSDQHCPTVKIGPKILTVPPEPPNGEDTVQFDAKSETVIGLPDLTTVQNEHENTPYT VPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELT PISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSI SRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLL HLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQGPEDLAVELVP VVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAE METLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDI VGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHMARHLAKNIANT MSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCD RIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESPEIEKVKRDFPG QPDMWKDYFKQDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHER KDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKNVKTLEDLKTAL RDVRFNECEIIYRNSKYRVSSNGKGSVSVDKVEDHTSQTANEVGSALLRLRQARARYY VSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTEAQEASEPEKEVAQGRWEIEP KDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDR YYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTGSDIRKRRPDDF QPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKG VKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTVCSILIKRPTGE MIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDI VVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKF WRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEA KKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQA SKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGL MDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRNILSAAME 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..6696 /gene="ORF2" CDS 5044..6696 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ58906.1" /translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG MQVQVVLAGNAFTAGKIIFAAVPPHFPVDNISAAQITMCPHVIVDVRQLEPVLLPLPD IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT VESKTKPFTLPILTLGELSNSRFPAAIDMLYTDPNESIVVQPQNGRCTLDGTLQGTTQ LVPTQICAFRGTLISQTARAVDSTDSPQRARDHPLHVQVKNLDGTQYDPTDDIPAVLG AIDFKGTVFGVASQRDVSGTQEQGHYATRAHEAHIDTIDPKYAPKLGTILIKSESTDF NTNQPIRFTPVGMGDNNWRQWELPDYSGRLTLNMNLAPAVSPSFPGERILFFRSVVPS AGGYGSGYIDCLIPQEWVQHFYQEAAPSQSAVALVRYVNPDTGRNIFEAKLHREGFLT VANSGNNPIVVPPNGYFRFEAWVNQFYTLAPMGSGQGRRRAQ" gene 6696..7475 /gene="ORF3" CDS 6696..7475 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ58907.1" /translation="MAGAFFAGLAGDVVSNGIGSLINAGANAVNQKVEYDFNKQLQMA SFKHDKEMLQSQVLATKQLQQEMMNIKQGMLTAGGFSPADAARGAVNAPMTKILDWNG TRYWAPNSMKTTSYSGQFSSSPVHRSPAPPQHTAPPKSKLQSDSASVYSSPSSVSSQS THSTVLSAGTGLSRSTPTSTATSTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSK ASSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQI" ORIGIN 1 cccttggcag tcaaaattct gtcaatgaca gtatcaacac caccccttca aacaaagaag 61 aggctggtgc attctccaac attaaagttg gatttaagaa aatgctgggt gccgtaccta 121 agggcaccaa agcacccagc agtgaccagc actgcccaac agttaagatc gggcctaaaa 181 tactaacagt cccccctgaa cccccaaatg gtgaagacac tgtacagttt gatgcaaaat 241 cggaaactgt gattgggcta ccggacttga caacagtgca aaatgaacat gaaaacaccc 301 catacaccgt ccctccactg agtgagaggg aacacagacc agccactgag ccgcttcctg 361 gcacaatatt ggagatgtgg gatggtgagt tctaccacta ctccgtgtac gtcagcggcg 421 gcaaagctct gggggttcac aagcccccgg cagctataag cctcgcgacg atagagctca 481 cccccatatc tctatactgg aggcctgttt acacccccaa ctacctggtc tgcccagaca 541 cactgaaagg tctcgctggt gaaaagttcc cctatacggc cttcagcaac aactgctaca 601 acttctgttg ctgggtgctt gagctcaatg acacgtggct tagcagaaga agcatctcca 661 gaaccaccgg cttcttcaaa ccgtaccagt cttggaacag gaaacctctc ccaaccgttg 721 acgatggaaa gatcaaaaag gtggctaacg cgatcctctg tgcactcggt tcgctgttct 781 caaagccaat caaggacctg ttaggcaagc tcaaaccatt gaacttatta cacctgctcg 841 cgtcgtgtga ttggacgttt gcgggtatag tggagacagt catcttaatg gcggaacttt 901 tcaacgtctt ttggaccccg ccagatgtct ctaatttcat agcctccctg ataggtgatt 961 ttgaattgca gggacctgag gacttggcgg tagagcttgt tcctgtggtc atgggtggta 1021 taggaatggt tctcggcttc acagctgaga agataggtcg catgctgtcg tccgctgcat 1081 caacactgcg tgcgtgtaaa gacttaggga actatgctct tgacatactt aaattggtca 1141 tgaagtggtt cttcccaaag aaagaggaga aagccgagat ggaaaccttg agggcgattg 1201 aggatgccgt cctagacatg gaggccatag gtaacaacca tctcacgacc ctcctcaagg 1261 acaaagacag tctcacggct ttcatgaaga ccctggatct agaagaagag aaggcaagga 1321 agctatccac caaatcatcc tcgccggaca tcgtcggcac tatcaatgcc atactggcta 1381 gaatagctgc cgctagatcc ctcctacaca aagctaaaga agagatgttc agtaggatca 1441 gaccagtggt tgttatgatc tcaggcagac ctggcattgg caaaacccat atggcaagac 1501 atttggctaa aaacatcgcc aacaccatga gtggtgacca aagggtcggg ctcgttccgc 1561 gcaacggggt tgaccactgg gacgcctaca ggggagagag ggtggtcttg tgggatgatt 1621 atggaatggg aaaccctgtc aaagatgcct taacactaca agaattagct gacacatgcc 1681 cagttactct aaactgtgac aggatcgaga acaagggaaa aatgttcgac agtgatgtca 1741 tcataattac gaccaatcta gtcaaccctg cacctctcga ttatgtgaac ttcgaggcgt 1801 gttctagaag aattgatttc ttggtctatg cagagtcacc agaaattgag aaggttaaga 1861 gagatttccc tggccaacct gacatgtgga aggactattt caaacaagac ttttcccata 1921 taaagctgac cttagccccc caaggcggat ttgacaagaa cggtaacacc ccgcatggta 1981 agggcaccat gcgatctctc acccaggggt ccctgaccgc aagggttgca ggccttgttc 2041 atgagaggaa ggacgagttc caactacaag ggaatgacct ccagacatac aactttgaca 2101 ccaacagggt ctctgcgttc aggaaactgg ctgcagacaa caagtatgga atcatggaaa 2161 caatgagagt gggtgcagcg ctcaaaaatg tcaaaacttt ggaagatctg aagaccgcct 2221 taagagatgt gaggttcaat gagtgtgaaa taatttacag gaactctaag taccgagtct 2281 cttccaacgg caagggctct gtttctgttg acaaagttga ggatcacacg tcccagactg 2341 caaatgaagt gggctcagca ctcctcagac tcagacaagc aagggctaga tattatgtca 2401 gctgcttcca agacctcgtc tacactctca tacaggttgc tggggcatca ttcgttgtca 2461 acaggatctc caaaaggttc tgctgggaaa ggtgggttaa accaaccgaa gcccaagaag 2521 cgagtgagcc cgaaaaggaa gtagctcaag gtagatggga gatagagccc aaggacacag 2581 aaccagaagg caagaagggt aagaacaaga aagggagagg caagaaacac acagccttct 2641 ccagcaaagg cctaagtgat gaagagtatg atgagttcaa gagaatcaga gaagagagga 2701 acggaaaata ctccattgag gaatacctgc aagaccggga ccgctactac gaagaagtgg 2761 cagttgcccg agcaacagaa gaggactttt gtgaagaaga agaagccaag ataagacaaa 2821 gaatcttccg cccgacaagg aagcaaagaa aggaggaaag gggggtgctt ggcttagtca 2881 ctggctcaga tatcaggaag aggagaccag acgattttca accaaaaggt aacctgtggg 2941 cagatgacac taggagtgtg gactacaatg agaggcttga cttcgaggct cccccaagcg 3001 tctggtcaag aatagtccca ttgggtactg gttggggctt ctgggtttca tctaatctcc 3061 tgatcacaac aacacacgtc ctgcccaagg gggtcaagga actctttggg gttgaagtca 3121 aacaaattca aatccacaag tctggagagt tctgcaggtt taggttccca agaccaatca 3181 ggccagatgt cacaggactc gtgttggagg aaggtgctcc agaaggtact gtctgttcta 3241 ttctcataaa gagacctaca ggtgagatga tccccctagc agtgaggatg ggcacgcatg 3301 catccatgaa aatacagggt aggaccgtag gtggccagat gggaatgctt ctcacagggg 3361 caaacgcaaa gaacatggat cttggcaccg gtcctggtga ctgtggctgc ccttacatct 3421 ataagcgtgg caacgacata gttgtcgcgg gtgtccacac cgcagcagcc cgggggggca 3481 acactgttat ttgtgccact caaggacaag acggggaggc agtccttgag ggaaatgaaa 3541 accttggcac ttactgtggt gctccaattc tgggccctgg caaagcgcct aaactcagca 3601 cgaaaaccaa attctggcgc tcatcaccag atgccctacc tcctggtacg tatgaacctg 3661 cttacctggg gggtaaggat cccagagtgg aaaaggggcc ctccctacag caagttatga 3721 gggaccagct gaaaccattc acagagccca ggggcaaacc acctagacca gcagttttag 3781 aagaggctaa aaagacagtg atgaatgttc tagaacagac cattgatcct gctaaaccat 3841 ggacctactc acaagcatgt gcttcactgg acaagaccac ttctagtgga agcccacacc 3901 atgtcaggaa aaatgaccac tggaatgggg agtcttttac tggtcccctc gcggaccaag 3961 catccaaagc caacctcatg tatgaacagg caaaacatgt gcagcccgtg tacacggccg 4021 cgctcaaaga tgagcttgtt aagactgata agatctacaa gaagataaag aagaggcttc 4081 tatggggatc agaccttggt acgatgatca ggtgtgccag ggcttttggt ggccttatgg 4141 acagtatgaa agcaagttgt atagccctcc catgcagagt ggggatgaac atgaatgagg 4201 atggtcctat catatttgac aaacactcca agtataggta ccactatgat gctgactact 4261 ctaggtggga ctcaacccag caaaggaaca ttctttccgc cgctatggag gtgatggtga 4321 ggttctctgc tgaaccagaa ttggcacaag tggtcgcaga ggacctcttg gcgcccagcc 4381 agctagatgt tggcgacttt gtcatctcag tccaggaggg tctgccatca ggagtcccat 4441 gtacatcaca atggaattca atagcgcact ggattctaac tctgagcgca atggcagaag 4501 tgtcaggcct ttcaccagac gttgtccaag cccattcctg tttttcattc tatggcgatg 4561 atgagatcgt cagcactgac atcaaccttg accccatgaa attgacacag aaactcaggg 4621 agtatggtct ggtccccacc cggcctgata agactgaagg ccccctcgtc ataactgaag 4681 acctcaccgg cctgacattc ctgcgtaggt cgattgcacg ggatccagct ggatggtttg 4741 gaaaattgga tcaagactca atcctcaggc aattatactg gacaagaggg cccaatcatg 4801 aaaacccata cgagagcatg gttccccatt cccagcgagc cacccagctc atggcccttc 4861 ttggtgaggc ttcactgcat ggtccccagt tttacaagaa agttagcaag atggtcatca 4921 atgagattaa gagtggtggt ctggagtttt atgtgcccag acaagaggcc atgtttaggt 4981 ggatgagatt ctctgacctc agcacatggg agggcgatcg caatcttgct cccgagggtg 5041 tgaatgaaga tggcgtcgaa tgacgccgct ccatcaaatg atggtgctgc caacctcgta 5101 ccagaggcca acaatgaggt tatggcactt gaaccggtgg tgggagcttc aatcgcagct 5161 cctgttgtcg gtcagcaaaa tataattgac ccctggatta gagaaaattt tgtccaagca 5221 ccacagggcg agtttactgt ttcaccaagg aattcgcccg gtgagatgct tctaaatctt 5281 gaattgggcc cagaactaaa cccctacttg agtcatttgt cccgcatgta caatgggtat 5341 gctggtggta tgcaggttca ggtggtccta gctgggaatg cgttcacagc tgggaagatc 5401 atctttgccg ccgtgccacc acatttcccc gtggacaata ttagtgcagc ccagataact 5461 atgtgtcccc atgtgattgt tgatgtgaga cagcttgaac cagtgcttct gcccctcccc 5521 gatataagga acaggttctt ccattacaac caggaaaaca ccccccggat gagacttgtg 5581 gccatgctct acacgcctct aagggctaat tctggagagg acgtgttcac tgtgtcctgt 5641 agggttctga ctcgccccgc tccagatttt gaattcacat ttttagtccc accaactgtt 5701 gaatcaaaaa caaaaccctt tactctacct attctaaccc ttggtgagtt gtctaattcc 5761 cgtttcccgg ctgctataga catgctttat actgatccca atgaatcaat agttgttcag 5821 ccccaaaatg gtagatgcac ccttgatggc acattgcaag gcacaacaca attggtccca 5881 acacagattt gtgcctttag agggaccctg atcagccaga ctgcgagagc ggtcgattca 5941 acagattccc cccagagagc ccgtgaccac ccgttacacg tccaggtcaa gaacctagat 6001 ggcacacagt atgacccaac agatgatatt cctgcagtcc tgggggctat tgacttcaaa 6061 ggcacagtgt tcggagtggc tagtcagagg gacgtctctg gaacacaaga acagggccat 6121 tatgccaccc gggcccatga agcacacatt gacacaattg acccaaagta tgcacccaaa 6181 ttaggcacaa ttcttatcaa atctgaatct actgatttta atacaaatca acccattagg 6241 ttcactccag tgggcatggg agacaacaat tggagacagt gggaattgcc tgactattct 6301 ggtagattga ctctaaatat gaaccttgcc cccgctgttt ccccatcttt ccctggtgaa 6361 cggatccttt tcttcaggtc tgtagtacca tcagctggag gctacgggtc tggctatata 6421 gactgtctca taccccagga atgggtgcaa cacttctacc aggaggcagc accttcacaa 6481 tctgctgttg cactggttag gtatgtcaac cccgacactg ggcgtaacat ctttgaggcc 6541 aagttgcaca gagaagggtt cctcaccgtg gccaattctg gaaacaatcc tattgtggtt 6601 ccccctaatg gttattttag atttgaggct tgggttaatc aattctacac acttgccccc 6661 atgggatctg gacaggggcg tagaagggct cagtaatggc tggagccttc ttcgcagggt 6721 tagcaggtga tgtcgtgtcg aacggcatcg gttccctcat caatgcaggt gctaatgcag 6781 tcaatcaaaa agttgagtat gattttaaca agcaacttca gatggcatca ttcaaacatg 6841 acaaggagat gttacaatca caggtgttgg caaccaaaca actgcagcag gaaatgatga 6901 atataaagca ggggatgttg accgctggcg gcttctcccc tgcggacgct gctagagggg 6961 ctgttaacgc tccaatgaca aaaatactgg actggaatgg cacaagatat tgggcaccta 7021 acagcatgaa aactacaagc tattcaggac agttctctag tagccccgtc cacaggtctc 7081 ctgctccccc ccagcacact gctccaccaa aaagtaagtt gcaaagtgat tctgccagtg 7141 tgtatagctc cccttcctct gtttcttcac aatcaactca ttcaacagtg ttgtctgcag 7201 gaactgggtt gtccagatcc acccccacgt ccacagcaac ctccaccctg tctaggacta 7261 gcgactgggt tagaggacag aatgaaaggc ttagcccgtt tatggatggt gctctccaaa 7321 ctacttttgt cacaccacca tcgagcaaag cttcatcaaa tgggacagtc tcaaccgtgc 7381 ccaaagctgt tttggactcc tggactccta tgttcaatac acataggcag cctctcttcg 7441 cccatttgcg taggcgaggg gagtcacaaa tttagtgaaa agagtgatta ggctttcttt 7501 ctcttcctct tccccttttc tctctttt //