Typing tool
|
Complete norovirus genomes
KC517376 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS KC517376 7509 bp RNA linear VRL 02-APR-2015 DEFINITION Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW ORF1, VP1, and VP2 genes, complete cds. ACCESSION KC517376 VERSION KC517376.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/TW ORGANISM Norovirus Hu/GII-4/Taoyuan/CGMH66/2012/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/CGMH66/2012/TW" /mol_type="genomic RNA" /isolate="Hu/GII-4/Taoyuan/CGMH66/2012/TW" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1325218" /country="Taiwan" /collection_date="18-Aug-2012" /note="genotype: GII.4" CDS 1..5100 /codon_start=1 /product="ORF1" /protein_id="AGK25923.1" /translation="MKMASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARP KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LKPLNILNILAACDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAVENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL VKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALGLQELADTC PLTLNCDRIENKGKVFDSDAIIIATNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEYELQGPALTTFNFDRNEILAFRQLAAENKYGLMDTMRVGKQLKDVKTM SDLKQALKNITIKKCQIVYSGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIRIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGC LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHAAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCT SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /note="viral capsid protein" /codon_start=1 /product="VP1" /protein_id="AGK25924.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLSTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" CDS 6703..7509 /note="minor capsid protein" /codon_start=1 /product="VP2" /protein_id="AGK25925.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPPTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 atgaagatgg cctctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc 61 gcaaaatctt caagtgacgg tgtgttttct aacatggctg tcacttttaa gcgggccctc 121 ggggcgcggc ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc 181 acaccagaac tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg 241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa 301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac 361 gccaaggagc cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac 421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc 481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag 541 tatctcatct ctccagacac tcttaggaga ctacatggag 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 aaagacataa tagggaagtt gaaacctctt 841 aacatcctta acattctggc tgcatgtgat 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 ggtccatcga ggatgcagta ctagacctcg aggcagttga aaacaaccac 1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt 1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca 1381 atcaactctc ttctggcaag aatcgccgct gcacgctccc tagtgcatcg ggcgaaagaa 1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg 1501 aaaactcacc ttgccaggga gctggtcaag aagatcgcgg cctccctcac aggggaccag 1561 cgcgtgggtc ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga 1621 gttgtcctat gggacgacta tggaatgagc aaccccatcc atgatgccct cgggttgcag 1681 gagcttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa 1741 gtctttgaca gtgatgccat aattatcgcc 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 ggctactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc 2101 accactttca actttgaccg caacgagata cttgctttta gacagcttgc tgctgaaaac 2161 aagtatgggc tgatggacac aatgagagtt ggaaagcagc tcaaggatgt caagaccatg 2221 tcagacctca aacaagcact caagaacatc acgatcaaga agtgccagat agtgtacagt 2281 ggtagcacct acacacttga ggctgatggc aagggtagtg tgaaggttga caaagtgcaa 2341 agtgccactg tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct 2401 agaatcagat actatgttaa gtgcgtccag gaggcactgt attccatcat ccgaatcgct 2461 ggggctgcat tcgtcaccac gcgcatcgct aagcgtatga atatacagaa tctctggtcc 2521 aagccacagg tggaagacac agaagagatg gccaacaagg atggttgcct aaaacccaaa 2581 gatgatgaag agtttgtcgt ctcatccgac gacatcaaaa ctgagggcaa gaaagggaag 2641 aacaagtccg gccgtggcaa gaagcacgca gccttttcaa gcaaagggct cagtgatgag 2701 gagtacgatg agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag 2761 taccttcagg acagagacaa 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 caaaagagtt cttcggagtc cctatcaagc aaatccagat acacaaatca 3181 ggtgaattct gccggttgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt 3241 ctagaagaag gtgcgcccga gggaaccgtg 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 gaaccggcct acctcggtgg caaagaccct 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 gaaattggct gatcaagcct ccaaggccaa cctaatgttt 4021 gaagagggaa agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag 4081 accgataaag tttatggtaa ggtcaagaag aggcttctgt ggggttcaga tctggcgacc 4141 atgatacggt gcgcccgagc ttttggaggc cttatggatg aactcaaggc acactgtgtc 4201 acacttcctg tcagagttgg tatgaacatg aatgaggatg gccccatcat ctttgagaag 4261 cactccagat atagatatca ctatgatgct gattattccc ggtgggactc gacacaacaa 4321 agggatgtgc tagcagcagc actagaaatc atggttaagt tctctccaga accacacctg 4381 gcccagatag ttgcagaaga cctcctttcc cctagcgtaa tggatgtagg tgactttcaa 4441 atatcaataa gtgagggtct cccctctggg gtaccttgta cctcccagtg gaattccatc 4501 gcccactggc tcctcactct gtgtgcactc 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 agttggaaca aagttcaatt 4801 ctcaggcaaa tgtactggac caggggtccc aaccatgaag atccatttga aacaatgata 4861 ccacactccc aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc 4921 ccggcattct acagcaaaat tagcaaatta gtcattgcag agttgaagga gggtggcatg 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 gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct 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 agtcactatg 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 agattcccca ttcctttgga 5821 aaagttgtcc 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 cagggcgtgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca 6121 caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt 6181 tgaaactgac acagaccatg attttgaagc taaccaaaac acaaagttca ccccagttgg 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 caatttagta gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca 6901 caaattgagg ccaccaaaag gctacaacag gaaatgatga aagttaagca ggcaatgctc 6961 ctagagggtg ggttctctga gacagatgca gcccgcgggg caatcaacgc ccccatgaca 7021 aaagctttgg actggagcgg gacaaggtac tgggctcccg atgctaggac tacgacatac 7081 aatgcaggcc gcttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt 7141 agggatgctg tccctgctcg gggttcctcc agcaagtctt ctaattcttc tactgctact 7201 tctgtgtact caaatcaaac tacttcaacg agacttggtt ctacagctgg ttctggtacc 7261 agtgtctcga gcttcccgcc aactgcaagg actaggagct gggttgagga tcaaagtagg 7321 aatttgtcgc ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagt 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aggttttgga ctcctggact 7441 ggcgctttca acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca 7501 cgggcgtaa //