Typing tool
|
Complete norovirus genomes
KC517364 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS KC517364 7509 bp RNA linear VRL 02-APR-2015 DEFINITION Norovirus Hu/GII-4/New Taipei/CGMH54/2012/TW ORF1, VP1, and VP2 genes, complete cds. ACCESSION KC517364 VERSION KC517364.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/New Taipei/CGMH54/2012/TW ORGANISM Norovirus Hu/GII-4/New Taipei/CGMH54/2012/TW Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7509) AUTHORS Chen,S.Y., Feng,Y., Chao,H.C., Lai,M.W., Huang,W.L., Lin,C.Y., Tsai,C.N., Chen,C.L. and Chiu,C.H. TITLE Emergence in Taiwan of Novel Norovirus GII.4 Variants Causing Acute Gastroenteritis and Intestinal Hemorrhage in Children JOURNAL J. Med. Microbiol. (2015) In press PUBMED 25752853 REMARK Publication Status: Available-Online prior to print REFERENCE 2 (bases 1 to 7509) AUTHORS Tsai,C.N., Lin,C.Y., Huang,W.L., Chen,Z.S., Chen,S.Y. and Chiu,C.H. TITLE Direct Submission JOURNAL Submitted (23-JAN-2013) Chang Gung University, Graduate Institute of Clinical Medical Sciences, No. 259, Wenhua 1st Rd., Guishan Township, Taoyuan County 333, Taiwan (R.O.C.) COMMENT ##Assembly-Data-START## Assembly Method :: Vector NTI v. 10 Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7509 /organism="Norovirus Hu/GII-4/New Taipei/CGMH54/2012/TW" /mol_type="genomic RNA" /isolate="Hu/GII-4/New Taipei/CGMH54/2012/TW" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1325203" /country="Taiwan" /collection_date="25-Jan-2012" /note="genotype: GII.4" CDS 1..5100 /codon_start=1 /product="ORF1" /protein_id="AGK25894.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNVAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKSQVEDTEEMANKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEARIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGTKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVGVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEATLHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /note="viral capsid protein" /codon_start=1 /product="VP1" /protein_id="AGK25895.1" /translation="MKMASSDANPSDGSVANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" CDS 6703..7509 /note="minor capsid protein" /codon_start=1 /product="VP2" /protein_id="AGK25896.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS SSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHICKRGESRG" ORIGIN 1 atgaagatgg cctctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc 181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg 241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa 301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaattatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg acttatactt ggtgtgcaca agccaccggc agccatcagc 481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca 601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta 661 agcaggagaa tgattcagag aacaacaggt ttcttcaggc cgtaccagga ttggaacagg 721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc 781 actttgtctt cactattcac cagacccatt aaggacataa tagggaagtt gaaacctctt 841 aacatcctta acattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta 901 atactcttgg cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc 961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc 1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag 1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg 1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagtg ctagacctcg aggcaattga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca 1381 atcaactctc ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaaaacc agggataggg 1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag 1561 cgtgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggac 1801 tatgtcaact ttgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaagcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtca ctggctccac agggtggttt tgacaagaac 1981 ggcaacaccc cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc 2041 cgagcatcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accactttca actttgaccg caacaagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacgtc gcgatcaaga agtgccagat agtgtacaat 2281 ggtagcacct acacacttga ggccgatggc aagggtagtg tgaaagttga caaagtgcaa 2341 agcgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagtcacagg tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtccg gccgtggcaa gaagcacaca gccttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagag gaaaggaatg gtaagtactc catagaagag 2761 taccttcagg acagagacag gtactacgag gaggtggcca ttgccagggc aaccgaagag 2821 gacttctgtg aagaagaaga ggccagaatc cggcagagaa ttttcagacc aacaaggaaa 2881 caacgcaaag aagagagggc ctctctcggc ctggtcacag gctctgaaat caggaagaga 2941 aacccagaag acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac 3001 tacaatgaga aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt 3061 ggttcaggct ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata 3121 ccccaaggta caaaagagtt cttcggagtc cctatcaagc aaatccagat acacaaatca 3181 ggtgaattct gccggttgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt 3241 ctagaagaag gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga 3301 gagctcatgc ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc 3361 acagttggag ggcaaatggg tatgctcctg acaggatcca acgccaagag tatggaccta 3421 ggcacaacac caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg 3481 gtcataggag tccatacggc cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag 3541 gggagtgagg gagaagccac acttgaagga ggtgacagta aagggacata ctgtggcgca 3601 ccaatcttgg gcccagggag cgctccgaag ctcagtacca agactaagtt ttggagatca 3661 tccacaacac cactcccacc tggcacctac gaaccagcct acctcggtgg caaagacccc 3721 agagtcaaag gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca 3781 gaacccagag gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc 3841 aatgtccttg agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca 3901 tcccttgaca aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgattgttgg 3961 aatggggagt ccttcacagg aaaattggct gatcaagctt ccaaggccaa cctaatgttt 4021 gaagagggaa agaacatgac tccagtctac accggtgcac ttaaagatga gttggtaaag 4081 accgataaag tttatggtaa ggtcaagaag aggcttctgt ggggttcaga tctggcgacc 4141 atgatacggt gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc 4201 acacttcctg tcggagttgg tatgaacatg aatgaggatg gccccatcat ctttgagaag 4261 cactccagat atagatatca ctatgatgct gattattccc ggtgggactc aacacaacaa 4321 agggatgtgc tagcagcagc actagaaatc atggttaagt tctctccaga accacacctg 4381 gcccagatag ttgcagaaga cctcctttcc cctagcgtaa tggatgtagg tgactttcaa 4441 atatcaataa gtgagggtct cccctctggg gtaccttgta cctcccagtg gaattccatc 4501 gcccactggc tcctcactct ttgtgcactc tctgaagtca cggacctgtc ccctgacatc 4561 attcaggcca actccctttt ctccttctat ggtgatgatg agattgtaag cacagacata 4621 aagttggacc cagagaagct gacagcaaaa ctcaaggagt acgggctgaa accaacccgc 4681 cccgacaaaa ctgaaggacc ccttgttatc tctgaagacc tggatggcct gacattcctc 4741 cggagaactg tgacccgtga tccagctggc tggtttggaa aattggaaca aagttcaatt 4801 ctcaggcaaa tgtactggac caggggtccc aaccatgaag atccatttga aacaatgata 4861 ccacactccc aaagacccat acaattgatg tccttgctgg gcgaggctac actccacggc 4921 ccggcattct atagcaaaat tagcaaatta gtcattgcag agttgaagga aggtggcatg 4981 gatttttacg tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga 5101 cgccaaccca tctgatgggt ccgtagctaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctctggag cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtgtc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc 5341 ctacctatcc catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt 5401 aattctcgcg gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga 5521 tgttaggcaa ctagaacctg tgttgattcc cttacccgat gttaggaata atttctatca 5581 ttacaatcaa tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag 5641 ggctaataat gctggggatg atgtcttcac agtttcttgc cgagttctca cgagaccatc 5701 ccccgatttt gatttcatat ttctagtgcc gcccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agattcccca ttcctttgga 5821 aaagttgttc acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gcaggtgcac 5881 gactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggagatgtc acccatatca caggtagtcg taactacaca atgaatttgg cttctcaaaa 6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcgtgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtggca ccacccaccg aaatgaaccc caacagtggg tgctcccaag 6301 ttactcaggc agaaatactc ataatgtgca tctggccccc gctgtagccc ccacttttcc 6361 gggtgagcaa cttctcttct tcagatccac catgcccgga tgcagcgggt accccaacat 6421 ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagcccc 6481 agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt 6541 tgagtgtaag cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt 6601 ggttatcccc cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacgct 6661 tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa tgctggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc 6841 caatttagca gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca 6901 caaattgagg ccaccaaaaa gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caatcaacgc ccccatgaca 7021 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacaacatac 7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg cccctgctcg gggttcctcc agcaaatctt ctagctcttc tactgctact 7201 tctgtgtact caaatcaaac cacttcaacg agacttggtt ctacagctgg ttctggtacc 7261 agtgtctcga gcttcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aggttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagccactt ttcgctcaca tttgtaagcg aggggagtca 7501 cgggggtaa //