Typing tool
|
Complete norovirus genomes
KM198531 | GII.6 | ||
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GII.P7 |
ORF1: 1..5094 ORF2: 5075..6724 ORF3: 6724..7437LOCUS KM198531 7437 bp RNA linear VRL 13-NOV-2014 DEFINITION Norovirus Hu/GII/30116/2009/VNM nonstructural polyprotein and capsid protein VP1 genes, complete cds; and capsid protein VP2 gene, partial cds. ACCESSION KM198531 VERSION KM198531.1 KEYWORDS . SOURCE Norovirus Hu/GII/30116/2009/VNM ORGANISM Norovirus Hu/GII/30116/2009/VNM Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7437) AUTHORS Cotten,M., Petrova,V., Phan,M.V., Rabaa,M.A., Watson,S.J., Ong,S.H., Kellam,P. and Baker,S. TITLE Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting JOURNAL J. Virol. 88 (19), 11056-11069 (2014) PUBMED 25056894 REFERENCE 2 (bases 1 to 7437) AUTHORS Cotten,M.L., Petrova,V., Phan,M.V.T., Rabaa,M.A., Watson,S.J., Kellam,P. and Baker,S. TITLE Direct Submission JOURNAL Submitted (13-JUL-2014) Virus Genomics, The Wellcome Trust Sanger Institute, Hinxton CB10 1SA, United Kingdom COMMENT ##Assembly-Data-START## Assembly Method :: SPAdes v. 2.4.0 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7437 /organism="Norovirus Hu/GII/30116/2009/VNM" /mol_type="genomic RNA" /isolate="Hu/GII/30116/2009/VNM" /host="Homo sapiens" /db_xref="taxon:1526992" /country="Viet Nam" /collection_date="09-Jul-2009" /note="genotype: GII" CDS 1..5094 /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AII02721.1" /translation="MKMASNDATTAFGSQNSVNDSINTAPSKKEEVGAFSNIKVGFKK MLGAVPKGTKAPSNDQHCPTVKIGTKTLTVPPEPPNGEDIVQFDAKSETVLGLPDLTT VQNEHENTPYSVPPLSEREHRPATEPLPGTILEMWDGEFYHYAIYVSGGKALGVHKPP AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSNFISSLIGDFELQ GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLAAFMKTLDLEEEKAR KLSTKSSSPDIVGTINAILARISAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL TARVAGLVHERKDEFQFQGNGLQTYNFDTNRVSAFRKLAADNKYGLMETMRVGAALKN VKTLEDLKAALRDVKFNECEIIYKNSKYRISSNGKGSVSIDKVEGQTSQTANEVCSAL LRLRQARARYYVSCFQDLVYTLMQVAGASFVVSRISKRFCWEKWVKPTEAQETSESEK EVAQSSWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG SDIRKRRPDDFQPKGKLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL LITTTHVLPKGLKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG KPPRPAILEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHAKKNDHWNG ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST QQRSILTAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM FRWMRFSDLSTWEGDRNLAPEGVNEDGVE" CDS 5075..6724 /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="AII02722.1" /translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVAGASIAAPVVGQ QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG MQVQVVLAGNAFTAGKIIFAAVPPHFPVENINAAQITMCPHVIVDVRQLEPVLLPLPD IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ LVPTQICAFRGRLIGQTSRSPDLDSTDSAPRRRDHPLHMQLENLDGTQYDPTDEVPAA LGAVDFKGTIFGVASQRDTSGSQVGATRAHEVTINTTDPRYTPKLGSVLMYSESQDFE TGQPIRFTPIGMGEDDWHQWELPNYSGRLTLNMNLAPAVAPAFPGERILFFRSIVPSA GGYGSGQIDCLLPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITV ANSGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ" CDS 6724..>7437 /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="AII02723.1" /translation="MASAFLAGLAGDAITNGVGSLINAGANAINQKVEFDFNRQLQLA SFKHDKEMLQSQVSATKQLQQEMMNIKQGALTAGGFSPADAARGAVNAPMTKILDWNG TRYWAPNSMKTTSYSGQFSSSPVHRSPAPSQLVASSKGKLQNDSASVHSSSSSVSSQS THSTVLSSGTRSSRSTTTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSK ASSNGTVSTVPKAVLDSWTP" ORIGIN 1 atgaagatgg cgtctaacga cgctactact gcatttggca gccaaaactc tgtcaatgac 61 agtattaaca ccgccccttc taagaaagaa gaggttggtg cattctccaa catcaaagtt 121 ggatttaaga aaatgctggg tgccgttccc aaggggacca aagcacccag caacgaccag 181 cactgtccca cagtcaagat cgggaccaaa acattaacag ttccccctga gcccccaaat 241 ggtgaagata tcgtgcagtt tgatgcgaag tcagaaactg tgcttgggct accagactta 301 acaacggtgc aaaatgaaca tgagaacaca ccatactcag tccccccatt gagtgaaagg 361 gaacacagac cagccactga gccgctccct ggcacaatac tggagatgtg ggatggtgaa 421 ttctaccact acgccatata cgtcagcggt ggcaaagccc taggggttca taagccccct 481 gcggcaataa gcctcgcgac gatagagctc acacctatat ctctttactg gaggcccgtt 541 tacaccccca actacctggt ctgcccagac acgttgaaag gcctcgctgg cgagaagttc 601 ccctacacgg ccttcagcaa caactgttac aacttctgtt gctgggtgct tgaactcaat 661 gacacgtggc ttagcaggag aagcatctcc aggaccaccg gcttcttcaa accataccag 721 tcttggaaca gaaaacccct cccaaccgtt gatgatggaa agatcaaaaa ggtggccaac 781 gcaatcctct gtgcacttgg atcactgttt tcaaaaccaa tcaaagacct gttaggcaaa 841 ctcaaaccac tgaacttgtt gcacttgctc gcgtcatgtg attggacgtt cgcgggcata 901 gtggagacag tcatcctaat ggcagaactt ttcaacatct tttggacacc gccagacgtt 961 tccaacttca tatcctccct gataggtgat tttgaattgc aagggcctga ggacctggcc 1021 gtggagctcg tccccgtggt catgggtggc ataggaatgg ttctcggctt tactgctgag 1081 aagataggcc gcatgctgtc gtctgctgca tcaacactgc gggcatgtaa agaccttggg 1141 aattatgccc ttgacatact aaaactggtt atgaaatggt tcttcccaaa gaaagaagag 1201 aaagccgaga tggaaacctt aagggcgatt gaggatgccg tcctggacat ggaggctata 1261 ggaaacaatc atcttacaac cctcctcaaa gataaggata gcctcgcggc cttcatgaag 1321 accctggacc tagaagagga gaaggcaagg aagctgtcca ccaaatcatc ctcgccagac 1381 atcgttggca ctatcaatgc catactggcc agaatatctg ctgccagatc cctcctgcac 1441 aaggctaaag aagaaatgtt tagtaggatc agacctgtgg ttgttatgat ctcgggtaga 1501 cctggtattg gcaaaaccca catggcaaga catctggcta agagcatcgc caacaccatg 1561 agtggcgacc aaagggtcgg gctcgttcca cgcaacgggg tcgatcactg ggacgcctac 1621 aggggggaga gggtggtctt gtgggatgat tatggcatgg gaaaccctgt caaagatgct 1681 ctaacactgc aagagttggc cgacacctgc ccagtaactc taaactgtga taggattgag 1741 aacaagggga agatgttcga cagtgatgtc atcataatca cgaccaacct agtcaaccca 1801 gcgccccttg attatgtaaa cttcgaggcg tgctccagaa gggttgactt tctggtctat 1861 gcagagtcac cagaaattga gaaggttaag agagatttcc ccggccaacc tgacatgtgg 1921 aaggaccact ttaagccaga cttctcccat ataaaactga ctctagcccc ccagggtgga 1981 tttgacaaaa atggtaacac cccgcatggc aagggcacca tgcgatccct aacccagggg 2041 tccctgactg caagggttgc aggtcttgtt catgagagga aagatgagtt ccagttccag 2101 gggaacggcc tccaaacata caactttgac accaacaggg tctccgcatt taggaagctg 2161 gccgcagata acaagtatgg actcatggaa acaatgagag taggtgcggc gcttaagaat 2221 gtcaagacct tggaagatct gaaagctgcc ctgagggatg tgaagttcaa tgagtgtgag 2281 ataatttaca agaactccaa atatcgaatc tcctccaacg gtaaaggttc tgtctctatt 2341 gacaaagttg agggccaaac atcccagact gcgaacgagg tgtgttcagc actcctcagg 2401 ctcaggcagg caagggccag atactatgtc agctgcttcc aagatctcgt ttacactcta 2461 atgcaggtcg ccggagcatc gttcgttgtc agcagaattt ctaagaggtt ctgttgggag 2521 aaatgggtca aaccaaccga ggcccaggaa acgagtgaat ccgaaaagga agtagcccaa 2581 agtagctggg agattgaacc caaggacaca gaaccagaag gtaagaaggg caagaacaag 2641 aaaggaagag gcaagaaaca cacagctttc tccagcaaag gcctgagtga tgaggagtat 2701 gacgagtaca agagaatcag ggaagaaagg aacgggaaat actccattga ggaatacctg 2761 caagaccggg atcgctacta tgaggaagta gcagttgccc gggcgacaga ggaggacttc 2821 tgtgaggagg aggaggccaa gattagacaa agaatcttcc gccccacaaa gaaacagagg 2881 aaggaagaaa ggggggtgct tggcttggtc actggttcag acatcaggaa gaggagacca 2941 gatgattttc aaccaaaggg caaactgtgg gcagacgaca ccagaagtgt ggactacaac 3001 gagagacttg atttcgaggc tcccccgagt gtctggtcga gaatagtccc attgggaacc 3061 ggctggggct tttgggtctc atccaacctc ctgatcacaa caacacatgt cctgcctaag 3121 gggcttaagg aactttttgg ggttgaaatc aaacagatcc aaattcacaa gtctggagag 3181 ttttgcaggt tcagattccc aagaccaatc aggccagatg tcacagggct cgtgctggag 3241 gaaggtgctc cagaaggcac tgtctgctcc atactcgtaa agagacctac aggtgagatg 3301 atccctctgg cggtgaggat gggcacgcat gcatccatga agatacaggg caggaccgtt 3361 ggtggccaaa tgggaatgct cctcacaggg gcaaacgcga agaacatgga tcttggcacc 3421 ggtcctggtg actgcggctg cccttacatc tacaaacgcg gcaatgacat agttgtcgcg 3481 ggtgtccaca ccgcagcagc ccggggaggc aacaccgtca tatgtgccac tcaagggcaa 3541 gatggggagg cagttcttga gggaaatgag aaccttggca cttactgcgg tgccccaatt 3601 ttgggtccgg gcaaggcgcc caaactcagc acgaagacca aattctggcg ttcatcacca 3661 gacgctttgc cgccaggcac ttatgagcct gcctacctag gaggcaagga ccccagagtg 3721 gaaaaaggac catccctgca gcaagtcatg agggatcagt taaaaccttt cacagaaccc 3781 agaggcaaac cacctagacc tgcaatctta gaagaagcca aaaagacagt gatgaatgtt 3841 ctagaacaaa ccatcgaccc tgccaagcca tggacctatt cccaagcatg tgcctcactg 3901 gacaagacca cttctagtgg tagcccccac catgccaaga aaaatgacca ttggaatgga 3961 gaatccttca ccggccccct tgcagaccaa gcatccaaag ccaatctcat gtatgagcag 4021 gccaaacatg tgcagcccgt gtacacggcc gctctcaaag atgagcttgt taagactgac 4081 aagatctaca aaaagataaa gaagaggctc ttatggggat cggatcttgg cacgatgatc 4141 aggtgcgcca gggcctttgg cggtctcatg gatagcatga aggcaagctg tatagccctc 4201 ccatgtagag taggaatgaa catgaatgaa gatggcccca tcatatttga caaacactct 4261 aagtacagat atcactatga tgctgactat tccaggtggg attcaaccca gcaaaggagc 4321 attctcacgg ccgctatgga agtgatggtg cggttttctg ccgaaccaga actggcacaa 4381 gtggtcgcag aggaccttct ggcacccagc caactagatg ttggcgactt tgtcatctca 4441 gtccaggagg gtctgccatc aggggtccca tgcacatcac agtggaattc aatagcacat 4501 tggatcctaa ccctgagtgc aatggcagaa gtgtcaggtc tatcaccaga tgttgtccaa 4561 gcccactcct gtttctcatt ttacggcgac gatgagatcg tcagcactga cattaacctt 4621 gaccccatga agttgacaca gaaactcagg gaatatggtc tggtccccac ccggcctgac 4681 aaaactgaag gaccccttgt aataactgaa gacctcaccg gcctaacgtt ccttcgtagg 4741 tcgattgcac gagacccagc tgggtggttt ggaaaattag accaggactc aatcctcagg 4801 cagttatact ggacaagagg ccccaatcat gagaatccat atgagagcat ggtccctcac 4861 tcccaacggg ccacacaact catggccctt ctcggtgagg cttcactgca tggcccccaa 4921 ttctacaaga aagttagcaa gatggtcatc aatgaaatca aaagtggtgg tctggaattt 4981 tatgtgccca gacaagaggc catgttcagg tggatgagat tctctgacct cagcacatgg 5041 gagggcgatc gcaatcttgc tcccgagggt gtgaatgaag atggcgtcga atgacgctgc 5101 tccatcgaat gatggtgctg ccaacctcgt accagaggcc aacaatgagg ttatggcact 5161 tgaaccggtg gcgggagcct caatcgcggc tcctgtcgtc ggccaacaaa acataattga 5221 cccctggatt agagaaaatt ttgtccaagc accacagggc gagttcaccg tttcaccgag 5281 aaactcgcct ggtgagatgc tattaaatct tgaattaggc ccagaactca acccttacct 5341 aagccatttg tcccgcatgt ataacgggta tgctggtggc atgcaggttc aggtggtcct 5401 ggctgggaat gcgttcacag ctgggaaaat catctttgcc gccgtgccac cacattttcc 5461 cgtagaaaac atcaatgcag ctcaaattac catgtgtccc catgtaattg ttgatgtgag 5521 gcaacttgaa ccagtgcttt tacccctccc tgacataagg aacaggttct ttcattacaa 5581 tcaagaggat accccccgga tgaggcttgt ggcaatgctt tacactcccc tgagggctaa 5641 ttctggtgaa gatgttttta ctgtctcttg tagggtttta acccgtcctg cccctgattt 5701 tgaattcact ttcttggtgc caccaaccgt tgaatcaaag actaaacctt ttacactacc 5761 catactaact cttggtgagc tatccaactc tagattccca gccccgatag acatgttgta 5821 cactgaccca aatgagggga ttgtggtcca accacaaaat ggtaggtgca ctcttgatgg 5881 cactctgcaa ggcaccacac aactggtccc cacccaaatt tgtgctttca ggggcagact 5941 aattggccag acatcaaggt ctccagactt agactcaact gactcagccc ctcggagaag 6001 ggatcaccca ctccacatgc aattagagaa tcttgatggc acgcagtatg atccaactga 6061 tgaagtgcca gcagcccttg gtgccgttga cttcaagggg accatttttg gagtggccag 6121 ccagagagac acgtcaggga gtcaagtggg ggcaacccga gctcatgagg tgaccatcaa 6181 cactaccgat cctaggtaca caccaaaact gggatccgtc ctcatgtatt cagagtcgca 6241 agactttgag actggacagc cgatccgctt cacacctata ggaatgggtg aggacgactg 6301 gcaccagtgg gagctgccta actactctgg acgcctgacc ctgaacatga accttgcccc 6361 agctgttgct cctgcttttc ccggtgagag gattcttttc ttcaggtcaa tagtcccatc 6421 tgctggtggc tacgggtctg gacagataga ctgcctctta ccacaggagt gggttcagca 6481 tttctaccag gaagctgcac cgtcccaatc tgccgtggca ctcattaggt atgtcaaccc 6541 tgacacaggc agaaacattt ttgaggctaa attgcacagg gaaggtttca tcaccgtggc 6601 aaattctggc aataacccca ttgttgtccc ccctaatgga tatttcagat ttgaagcttg 6661 ggtgaatcaa ttttacactt tgacccccat gggaactggt caggggcgca ggaggaatca 6721 ataatggcca gtgcttttct tgcaggcctt gctggcgacg ccataacaaa tggcgttgga 6781 tctttaataa atgctggagc taatgcaatt aatcagaaag ttgaatttga ttttaataga 6841 cagcttcaat tggcatcatt caaacatgat aaagagatgt tgcaatcaca agtgtcagca 6901 accaagcagt tgcagcagga gatgatgaac ataaaacagg gggcgctgac cgctggcggc 6961 ttctcccccg cggatgctgc tagaggggcc gttaacgccc caatgacaaa gattctggat 7021 tggaatggca ccaggtattg ggcaccaaac agcatgaaaa ctacaagcta ctcaggacag 7081 ttctctagca gtcctgttca taggtcccct gctccttctc agcttgttgc ctcatcaaag 7141 ggtaaattgc aaaatgattc tgctagtgta catagctctt cttcctctgt ttcttcacaa 7201 tcaacccatt caacagtgct gtcatcagga actagatcat ccaggtccac caccacatcc 7261 acagcaaccc ccaccttgtc caggaccagc gactgggtta ggggacagaa tgagaggctt 7321 agcccgttca tggatggtgc tctccaaact gcctttgtca cacctccgtc gagcaaagct 7381 tcttcaaatg gtacggtctc aaccgttccc aaagctgttt tggactcctg gactcct //