Typing tool
|
Complete norovirus genomes
KY424343 | GII.6 | ||
---|---|---|---|
GII.P7 |
ORF1: 1..5060 ORF2: 5041..6684 ORF3: 6684..7460LOCUS KY424343 7509 bp RNA linear VRL 19-APR-2018 DEFINITION Norovirus GII.6 isolate Hu/GII.6/BethesdaD14/2012/US nonstructural polyprotein gene, partial cds; and major capsid protein VP1 and minor capsid protein VP2 genes, complete cds. ACCESSION KY424343 VERSION KY424343.1 KEYWORDS . SOURCE Norovirus GII.6 ORGANISM Norovirus GII.6 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7509) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C.J., Sosnovtsev,S.V. and Green,K.Y. TITLE Static and Evolving Norovirus Genotypes: Implications for Epidemiology and Immunity JOURNAL PLoS Pathog. 13 (1), e1006136 (2017) PUBMED 28103318 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7509) AUTHORS Parra,G.I., Squires,R.B., Karangwa,C.K., Johnson,J.A., Lepore,C., Sosnovtsev,S.S. and Green,K.Y. TITLE Direct Submission JOURNAL Submitted (03-JAN-2017) LID, NIAID, NIH, 50 South Drive, B50/R6316, Bethesda, MD 20892, USA COMMENT ##Assembly-Data-START## Assembly Method :: Bowtie v. 2; Sequencher v. 5 Sequencing Technology :: Sanger dideoxy sequencing; IonTorrent ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7509 /organism="Norovirus GII.6" /mol_type="genomic RNA" /isolate="Hu/GII.6/BethesdaD14/2012/US" /host="Homo sapiens" /db_xref="taxon:499193" /country="USA" /collection_date="Dec-2012" /note="genotype: GII.6" CDS <1..5060 /codon_start=3 /product="nonstructural polyprotein" /protein_id="APU54792.1" /translation="FGSQNSVNDSINTAPSKEEVGAFSNIKVGFKKMLGAVPKGTKAP SSDQHCPSVKIGAKTLIVPPEPPNGEDTVQFDAKSETVRGLPDLTTVQNEHENTPYTV PPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPPAAISLATIELTP ISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLELNDTWLSRRSIS RTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKDLLGKLKPLNLLH LLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQGPEDLAVELVPV VMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMKWFFPKKEEKAEM ETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKARKLSTKSSSPDIV GTINAILARIAAARSLLHKAKEEMFSRTRPVVVMISGRPGIGKTHMARHLAKSIANTM SGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQELADTCPVTLNCDR IENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESPEIEKVKRDFPGQ PDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSLTARVAGLVHERR DEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKSVKTLEDLKVALR DVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAALLRLRQARARYYV SCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETGESEKEVTQGRWEIEPK DTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKYSIEEYLQDRDRY YEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTGSDIRKRRPDDFQ PKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNLLITTTHVLPKGI KELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVAGLVLEEGAPEGTVCSILVKRPTGEM IPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCGCPYIYKRGNDIV VAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPGKAPKLSTKTKFW RSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRGKPPRPAVLEEAK KTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNGESFTGPLADQAS KANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGTMIRCARAFGGLM DSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDSTQQRSILSAAMEV MVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQWNSIAHWILTLS AMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREYGLVPTRPDKTEG PLAITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNHENPYESMVPHSQ RATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAMFRWMRFSDLSTW EGDRNLAPEGVNEDGVE" CDS 5041..6684 /codon_start=1 /product="major capsid protein VP1" /protein_id="APU54793.1" /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ" CDS 6684..7460 /codon_start=1 /product="minor capsid protein VP2" /protein_id="APU54794.1" /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPRSDPPKIKVNSDSASVYSSASTAPSQST HSTALTAGSSSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSRA SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI" ORIGIN 1 cctttggcag ccaaaactct gtcaatgaca gcatcaacac cgccccttct aaagaagagg 61 ttggtgcatt ctccaacatc aaagttggtt ttaagaaaat gctgggtgcc gttcccaagg 121 ggaccaaagc acccagtagt gatcagcact gcccctcagt caagatcggg gccaagacat 181 taatagttcc ccctgagccc ccaaatggtg aagacaccgt gcagtttgat gcgaagtcgg 241 aaaccgtgcg cgggctacca gacttgacaa cggtgcagaa tgaacacgaa aacacaccat 301 acactgtccc cccattgagt gaaagggagc acagaccagc cactgaaccg cttcctggca 361 caatactgga gatgtgggat ggtgaattct accattactc tgtgtacgtc agcggtggca 421 aggccctagg ggttcacaag ccccctgcag cgataagcct cgcgacgata gagctcacac 481 ccatatctct ttattggagg cctgtttaca cccccaacta tctggtctgt ccagacacgt 541 tgaaaggcct tgctggtgag aagttcccct acacggcctt cagcaacaac tgttacaact 601 tctgttgctg ggtgcttgag ctcaatgaca cgtggcttag caggagaagc atctctagga 661 ctaccggctt cttcaaacca tatcagtctt ggaataggaa accccttcca accgttgatg 721 atggaaagat caaaaaggtg gccaacgcaa ttctctgcgc acttggatca ctgttttcaa 781 aaccaatcaa ggacctattg ggcaaactta aaccattgaa cttgctgcac ttgctcgcat 841 catgtgactg gacgtttgcg ggtatagtag agacagtcat cctaatggcg gaacttttca 901 acatcttttg gacaccgcca gatgtttcca gtttcatagc ctctctgata ggtgattttg 961 aattgcaagg gcctgaggac ctggctgtgg agcttgtccc cgtggtcatg ggtggcatag 1021 gaatggttct cggctttact gctgagaaga taggccgcat gctgtcgtcc gctgcatcaa 1081 cactacgggc atgcaaagac ttggggaatt atgcacttga catattgaaa ctggttatga 1141 agtggttctt tccaaagaaa gaagagaaag ccgagatgga aaccctaagg gcgattgaag 1201 atgccgtcct ggacatggaa gctataggaa ataaccatct cacaaccctc ctcaaggaca 1261 aggatagcct cacggctttc atgaagactc tagatctaga agaggagaag gcaaggaaac 1321 tgtccaccaa atcatcctcg ccagacatcg tcggcactat taatgccata ctggccagaa 1381 tagctgctgc caggtctctc ttgcacaagg ctaaagaaga gatgtttagc aggaccagac 1441 ccgtggttgt catgatctcg ggtagacctg gcattggcaa aacccacatg gcaagacact 1501 tggctaagag tatcgccaac accatgagcg gcgaccagag agtagggctc gtcccacgca 1561 acggggtcga tcattgggac gcctacaggg gagagagggt ggtcttatgg gatgattatg 1621 gcatgggaaa ccctgtcaaa gatgccctaa cactgcaaga gttggccgac acctgcccag 1681 taactctaaa ctgtgatagg attgagaaca aggggaaaat gtttgacagt gatgtcatca 1741 taatcacgac caatttagtc aacccggcgc ccctcgatta tgtaaacttc gaggcttgct 1801 ccagaagggt cgactttctg gtctatgcag agtcaccaga aattgagaag gttaagagag 1861 atttccccgg ccaacctgac atgtggaagg accattttaa gccagacttc tcccacataa 1921 aattgactct agccccacag ggtggatttg acaagaatgg caacaccccg catggtaagg 1981 gcaccatgcg atccctaacc caggggtccc tgactgcaag ggttgcaggt cttgttcatg 2041 agaggagaga cgagtttcag ctccagggga acgaccttca aacatacaac tttgacacca 2101 acagggtctc tgcatttagg aagctggccg cagacaacaa gtatgggatc atggagacta 2161 tgagagtggg cacagcgctt aagagtgtca agaccttgga agatctgaaa gttgcactga 2221 gggatgtgaa gttcaatgag tgtgagataa tttacagaaa ctccaaatac cgagtctctt 2281 ctaatggtaa aggttctgtc tctgttgaca aagttgagga ccaaacatcc cagactgcaa 2341 acgaagtggg tgcagcactc cttaggctca ggcaggcaag agccagatac tatgtcagct 2401 gcttccaaga tctcgtttac actctaatac aggtcgccgg agcatcattc gttgtcaaca 2461 ggatctctaa aaggttctgt tgggagagat gggtcaaacc aaccgagacc caggaaacgg 2521 gtgaatccga aaaggaagtg acccaaggca gatgggagat tgaacccaag gacacagaac 2581 cagaaggtaa gaagggtaag aacaagaaag gaagaggcaa gaaacacaca gctttctcca 2641 gcaaaggcct gagtgatgag gagtatgacg agttcaagag aatcagagaa gaaaggaacg 2701 gaaaatactc cattgaggaa tacctgcaag accgggatcg ttactatgag gaagtggcag 2761 ttgcccgggc gacagaggag gacttctgtg aagaggagga ggccaagata agacaaagaa 2821 tctttcgccc cacaaagaaa cagaggaagg aagaaagggg ggtgcttggt ttggtcactg 2881 gctcagacat caggaagaga agaccagacg attttcaacc gaagggaaac ctgtgggcag 2941 acgacaccag gagtgtggac tacaacgaga gacttgattt cgaggctccc ccgagtgtct 3001 ggtcaagaat agtcccattg ggcactggct ggggcttctg ggtctcatca aacctcctga 3061 tcacaacaac acacgtcctg cctaagggga ttaaggaact ttttggagtt gaaatcaaac 3121 agattcaaat tcataagtct ggagagttct gcaggttcag attcccgaga ccaattagac 3181 cagatgtcgc agggctcgtg ttggaggaag gcgctccaga aggcactgtc tgctccatac 3241 tcgtaaagag acctacaggt gagatgatcc ccctggcagt gaggatgggc acgcatgcat 3301 ccatgaaaat acagggtagg accgtcggtg gccagatggg aatgctcctc acaggggcaa 3361 acgcgaagaa catggacctt ggcaccggtc ctggtgactg cggttgccct tacatctaca 3421 aacgtggcaa tgatatagtt gtcgcgggtg tccacaccgc agcagcccgg ggaggcaaca 3481 ctgtcatatg tgccactcaa gggcaagatg gggaagcagt ccttgagggg aatgagaacc 3541 ttggcaccta ctgcggtgcc ccaatcttgg gtccaggcaa ggcgcccaaa cttagcacga 3601 agaccaagtt ctggcgctca tcaccagacg ctttgccacc aggcacttat gagcctgcct 3661 acttgggagg taaggacccc agagtggaaa aaggaccatc cctgcagcaa gtcatgaggg 3721 accagctaaa acctttcaca gaacccaggg gcaagccacc tagacctgca gtcttagaag 3781 aggccaaaaa gacagtgatg aatgttctag agcaaaccat tgaccctgcc aagccgtgga 3841 cctattccca agcgtgtgcc tcactggaca agaccacttc cagtggtagc ccccatcatg 3901 tcaggaaaaa tgaccattgg aatggggaat ccttcactgg cccccttgca gaccaagcat 3961 ccaaagccaa cctcatgtac gagcaggcca aacatgtgca gcccgtgtac acggccgcac 4021 ttaaagatga actagttaaa actgacaaga tctacaagaa gataaagaaa aggctcttat 4081 gggggtcgga tcttggtaca atgatcaggt gtgccagggc ctttggcggt ctcatggata 4141 gcatgaaggc aagttgcata gccctcccat gtagggtagg aatgaacatg aatgaagatg 4201 gtcccatcat atttgacaaa cattctaagt ataggtatca ttatgatgct gactattcca 4261 ggtgggactc aacccagcaa aggagcattc tctcggccgc tatggaagtg atggtgcggt 4321 tctctgccga gccagagctg gcacaagtgg ttgcagagga cctcctggca cccagccaac 4381 tagatgttgg cgatttcgtc atctcagtcc aggagggtct gccatcaggg gttccatgca 4441 catcacaatg gaattcaata gcacactgga tcctaacctt gagtgcaatg gcagaagtgt 4501 cgggtctctc accagatgtt gttcaagccc actcctgttt ctcattctac ggtgatgatg 4561 agatcgtcag cacagacatc aaccttgatc ccatgaagtt gacacagaaa cttagagagt 4621 atggcttggt ccccactcga cctgacaaaa ctgagggtcc cctcgcaata actgaagatc 4681 tcaccggcct aacgttcctg cgcaggtcaa ttgcacggga cccagctggg tggtttggaa 4741 aattagacca agactcaatc ctcagacagt tgtactggac aaggggcccc aatcatgaga 4801 acccatatga gagcatggtc cctcattccc agcgggccac acagcttatg gcccttctcg 4861 gtgaggcttc actgcatggt ccccagtttt acaagaaagt tagcaagatg gtcattaatg 4921 agatcaaaag tggtggtctg gaattctatg tgcccagaca agaggccatg ttcagatgga 4981 tgagattctc tgacctcagc acatgggagg gcgatcgcaa tcttgctccc gagggtgtga 5041 atgaagatgg cgtcgaatga cgctgctcca tcgaatgatg gtgctgccaa cctcgtacca 5101 gaggccacca atgaggttat ggcacttgag ccggtggtgg gagcctcaat cgctgctcct 5161 gtcgtcggcc aacaaaatat aattgacccc tggattagag aaaattttgt tcaggcacca 5221 cagggtgagt tcactgtttc accaaggaac tcacctggtg agatgcttct aaatcttgaa 5281 ttaggccctg agctcaaccc ttatctgagt catttgtccc gcatgtataa cggctatgct 5341 ggtggtatgc aggttcaggt ggtcctagct gggaatgcgt tcacagctgg taaaatcatc 5401 tttgccgccg tcccaccaca tttccctgtt gagaatatta gtgcagccca aattacaatg 5461 tgcccccatg taattgttga tgtaagacag cttgagccag tgcttttgcc cctccctgac 5521 ataaggaata gattctttca ttataatcag gaaaacaccc cccggatgag acttgtggct 5581 atgttgtaca caccccttag agcaaattct ggtgaggatg tgtttacggt gtcttgcagg 5641 gttctgaccc gccctgcccc cgactttgag ttcacgtttt tggtgccacc aactgtggag 5701 tcaaagacta agccctttac actccctatt ctgactcttg gagagctgtc caactccaga 5761 ttccccgctc caatagacat gttgtacact gaccccaatg aggcaattgt ggtgcaacca 5821 caaaatggca ggtgcactct agatggaaca cttcaaggga ccacccaact ggtacccacc 5881 caaatttgct ccttcagggg cacgctaatt agccagacgt cgaggtctgc agattcaaca 5941 gattcagccc cacgggtgag gaaccaccct ctccacgttc agctgaagaa cctcgatggg 6001 acaccatatg acccaacaga tgaagtgcca gcagttttgg gtgccataga tttcaaagga 6061 actgtgtttg gggtcgctag tcaaagaaac accacaggga actctatagg agcaacccgc 6121 gcccatgaag tgcacataga taccacaaac cctagatata ccccaaagct tggctctgtg 6181 ttgatgtatt ctgaatctac tgattttgat gatggacaac ccacccgctt tacccccatt 6241 ggcatgggag ccgatgattg gcaccaatgg gaattgcccg aatattctgg tcacctcact 6301 cttaacatga atttggcccc cgcagttgcc cctgctttcc ctggtgagcg catcctcttc 6361 ttcagatcag tggtgccgtc tgctggtggc tatggatcag gtcacataga ttgcctcatc 6421 ccacaggaat gggttcagca tttctaccag gaggccgctc catcacagtc tgcggtggct 6481 cttatcagat atgtcaaccc tgacactgga agaaacatct ttgaggcaaa actgcataga 6541 gaagggttca tcactgtggc aaattctgga aacaacccta tagttgtgcc cccaaatggt 6601 tacttcaggt ttgaggcctg ggtcaaccaa ttctatacac tcacccccat gggaactgga 6661 caggggcgca gaagagttca ataatggcag gagctttctt agctggattg gcaggtgacg 6721 ccataacaag tggtgtcggg tccctaatca atgctggggc caatgcaatt aaccaaaagg 6781 tagagtatga ttttaataaa cagctccaat tggcatcctt caaacatgac aaagagatgt 6841 tgcagtcaca agtactggcc actaaacagc tccagcagga aatgatgaac ataaggcaag 6901 gggtcttgtc cgctggcggc ttttccccta cagatgccgc gagaggtgct gtgaacgcgc 6961 cgatgacaaa aatcttggat tggaatggaa caaggtactt cgccccaaat agtatgaaga 7021 caaccagtta ttcgggccag ttttccagca accctgtgca taggcaaccc actttacccc 7081 gttctgaccc cccaaaaatc aaggttaata gtgattctgc tagtgtgtat agttctgcat 7141 ctactgctcc ttcacaatca acccactcaa cggctttgac tgcggggtct agctcatcta 7201 ggacaacatc ctcttctgca gtagcttcca ctctatctag gactagtgat tgggtgagag 7261 gacaaaatga gaggcttagc ccgtttatgg atggtgctct ccaaacaact tttgtcacac 7321 caccatcgag cagggcttca tcatatgggt cggtctcaac cgttcccaaa gctgttttgg 7381 actcctggac tcctatgttc aatacccata ggcagcctct cttcgctcat gtgcgcaggc 7441 gaggggagtc acagatttag tgaaaagatt gattaggttt tctttctttc ttcttttcct 7501 tttctttct //