Typing tool
|
Complete norovirus genomes
KC517361 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS KC517361 7509 bp RNA linear VRL 02-APR-2015 DEFINITION Norovirus Hu/GII-4/Taoyuan/CGMH51/2012/TW ORF1, VP1, and VP2 genes, complete cds. ACCESSION KC517361 VERSION KC517361.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Taoyuan/CGMH51/2012/TW ORGANISM Norovirus Hu/GII-4/Taoyuan/CGMH51/2012/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/Taoyuan/CGMH51/2012/TW" /mol_type="genomic RNA" /isolate="Hu/GII-4/Taoyuan/CGMH51/2012/TW" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1325209" /country="Taiwan" /collection_date="10-Jan-2012" /note="genotype: GII.4" CDS 1..5100 /codon_start=1 /product="ORF1" /protein_id="AGK25886.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAALDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAREL AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSDPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQPKDVKTM SDLKQALKNIAIKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALYHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMSLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTIICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANPMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL ATMMRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /note="viral capsid protein" /codon_start=1 /product="VP1" /protein_id="AGK25887.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDITHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVHTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" CDS 6703..7509 /note="minor capsid protein" /codon_start=1 /product="VP2" /protein_id="AGK25888.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NPSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" 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 tcttatactt ggtgtgcaca agccaccggc agccatcagc 481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccagacac tcttaggaga ttgcatggag 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 ggatgcagcg 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 gaccccatcc atgatgccct caggttgcag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat 1801 tatgtcaact ttgaagcgtg ctcgagacgc attgacttcc tcgtgtacgc agaagcccct 1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc 1921 agtcctgact tctcacacat aaaactgtca ttggctccac 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 ccaaggatgt caagaccatg 2221 tcagacctta aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat 2281 ggtagcacct acacacttga ggccgatggc aagggtagcg tgaaagttga caaagtgcaa 2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tataccacct aaggtgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc 2521 aagccacagg tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtccg gccgtggcaa gaagcacaca gccttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttcagg acagagacag gtactacgag gaggtggcca ttgccagggc aaccgaagag 2821 gacttctgtg aagaagaaga ggccaaaatc cggcagagaa ttttcagacc aacaaggaaa 2881 caacgcaaag aagagagggc ctctctcggc ttggtcacag gctctgaaat caggaagaga 2941 aacccagaag acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac 3001 tacaatgaga aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt 3061 ggttcaggct ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata 3121 ccccaaggtg caaaggagtt cttcggagtc cctatcaagc aaatccagat acacaaatca 3181 ggtgaattct gccggttgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt 3241 ctagaagaag gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga 3301 gagctcatgt ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc 3361 acagttggag ggcaaatggg tatgctcctg acgggatcca acgccaagag tatggaccta 3421 ggcacaacac caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg 3481 gtcataggag tccatacggc cgctgcccgt ggaggaaaca ctatcatatg tgccacccag 3541 gggagtgagg gagaagccac acttgaggga 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 tctcttgaca aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgattgttgg 3961 aatggggagt ccttcacagg aaaattggct gatcaagcct ccaaggccaa cccaatgttt 4021 gaagagggaa agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag 4081 accgataaag tttatggtaa ggtcaagaag aggcttctgt ggggttcaga tctggcgacc 4141 atgatgcggt gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc 4201 acacttcctg tcagagttgg 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 tggatggctt gacattcctc 4741 cggagaactg tgacccgtga tccagctggc tggtttggaa aattggaaca aagttcaatt 4801 ctcaggcaaa tgtactggac caggggtccc aaccatgaag atccatttga aacaatgata 4861 ccacactccc aaagacccat acaattgatg tccttgctgg gcgaggctgc 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 ccgcagccaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctctggag cccgttgttg gtgccgccat tgcggcacct gtggcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaggcccct ggtggagagt ttacagtatc 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 acccacagtt gagtcaagaa ctaaaccatt 5761 ctctgtccca gttttaactg ttgaggagat gaccaattca agatttccca ttcctttgga 5821 aaagttgttc acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gcaggtgcac 5881 gactgatggc gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag 5941 aggagatatc acccatatca caggtagtcg taactacaca atgaatttgg cttctcaaaa 6001 ttggaacaat tatgacccaa cagaagaaat cccagcccct ctaggaactc cagattttgt 6061 ggggaagatt caaggcgtgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca 6121 caaagctaca gtgcacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagtcgg 6241 tgtcatccaa gatggtggca ccacccaccg aaatgaaccc cagcagtggg tgctcccaag 6301 ttactcaggc agaaacactc ataatgtgca tctggccccc gctgtagccc ccacttttcc 6361 gggtgagcaa cttctcttct tcaggtccac 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 tgccggggct 6781 ggggccatca accaaaaagt tgagtttgaa aataacagga 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 tccctgctcg gggttcctcc agcaaatctt ctaacccttc tactgctact 7201 tctgtgtact caaatcaaac tacttcaacg agacttggtt ctacagctgg ttctggcacc 7261 agtgtctcga gcttcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg 7321 aatttgtcac ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aggttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgggcgtaa //