Typing tool
|
Complete norovirus genomes
KC517372 | GII.4 Den Haag | ||
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GII.P4 Den Haag |
ORF1: 1..5100 ORF2: 5081..6703 ORF3: 6703..7509LOCUS KC517372 7509 bp RNA linear VRL 02-APR-2015 DEFINITION Norovirus Hu/GII-4/New Taipei/CGMH62/2012/TW ORF1, VP1, and VP2 genes, complete cds. ACCESSION KC517372 VERSION KC517372.1 KEYWORDS . SOURCE Norovirus Hu/GII-4/New Taipei/CGMH62/2012/TW ORGANISM Norovirus Hu/GII-4/New Taipei/CGMH62/2012/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/CGMH62/2012/TW" /mol_type="genomic RNA" /isolate="Hu/GII-4/New Taipei/CGMH62/2012/TW" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1325207" /country="Taiwan" /collection_date="03-Jul-2012" /note="genotype: GII.4" CDS 1..5100 /codon_start=1 /product="ORF1" /protein_id="AGK25914.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGMFSSMAVTFKRALGARP KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELSTVRQPE ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK AKRDFPGQPDMWKNAFSPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSIQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEDATNKDGC PKPIDIEEFVISSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG EYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV TGTEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVAGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEP RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLLDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5081..6703 /note="viral capsid protein" /codon_start=1 /product="VP1" /protein_id="AGK25915.1" /translation="MKMASNDANPSDGSAVNLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDARQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVAHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFETDTENDFETHQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNVPNVHLAPAVAPTFPGEQLLLFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPSGYFRFDSWVNQFYTLAPMGNGTGRRRAL" CDS 6703..7509 /note="minor capsid protein" /codon_start=1 /product="VP2" /protein_id="AGK25916.1" /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENSRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQSSGALPGRVSPRTPIPARGSPNTSS NASTATSLYSNQTVSTRLGSTAGSGTNVSSPPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPFFAHICRGGESRG" ORIGIN 1 atgaagatgg cctctaacga cgcttccgct gccgctgttg ctaacagcaa caacgacacc 61 gcaaaatctt caagtgacgg aatgttttct agcatggctg tcacttttaa acgagccctc 121 ggggcgcggc ctaaacagcc ccccccgagg gaaataccac aaagaccccc acgaccacct 181 accccagaac tggtcaaaaa gatccctcct cctccgccca acggagagga tgaattagtg 241 gtttcttaca gtgccaaaga tggcgtttcc ggtttacctg agctctccac cgtcaggcaa 301 ccggaagaaa ctaatacggc cttcagtgtc cctccactca atcagaggga gaatagggat 361 gctaaggaac cactgactgg aacaattctg gaaatgtggg atggagagat ctaccattat 421 ggcctgtatg ttgagcgagg tcttgtgctg ggtgtgcaca aaccaccagc tgctattagc 481 ctcgccaagg tcgaactaac accactctcc ttgttctgga gacctgtgta cactcctcag 541 tacctcatct ctccagacac tctcaagaaa ttacacggag aaacattccc ctacacagcc 601 ttcgacaaca attgctatgc cttttgttgc tgggtcctgg atctaaacga ctcgtggctg 661 agcaggagaa tgatccagag aacaactggc ttcttcagac cttaccaaga ttggaatagg 721 aaacctctcc ccactatgga tgattccaaa ttaaagaagg tagctaatat attcctatgc 781 accctgtctt cgctattcac caggcccata aaagacataa tagggaagtt aagacccctc 841 aacatcatca acatcctggc ttcatgtgat tggaccttcg caggcatagt ggagtccttg 901 atactcttgg cagagctctt tggagtcttc tggacacccc cagatgtgtc tgcgatgatt 961 gcccccttac tcggtgactt cgagttacaa ggacctgagg accttgtagt ggagctcgtc 1021 cctgtggtaa tggggggaat tggtttggtg ctagggttca ccaaagagaa aattggaaaa 1081 atgttgtcat ctgctgcatc caccttgaga gcttgtaaag atcttggtgc atatgggcta 1141 gagatcctaa agttagtcat gaagtggttc ttcccgaaga aagaagaagc aaatgaactg 1201 gctatggtga gatccatcga ggatgcagta ctggatcttg aagcaattga aaacaaccac 1261 atgaccacct tgctcaaaga caaagacagc ctggcaacct atatgagaac ccttgacctc 1321 gaggaagaaa aagccagaaa actctcaacc aaatctgctt cacctgacat cgtgggcaca 1381 atcaacgccc ttctggcgag aatcgccgct gcacgctcct tggtgcaccg agcgaaggag 1441 gagctctcca gcagaccaag acctgtagtc ttgatgatat caggcagacc aggaataggg 1501 aagacccacc ttgctaggga agtggctaag agaatcgcag cctctctcac aggagaccag 1561 cgtgtgggcc tcatcccacg caatggcgtc gaccactggg atgcgtataa gggggagagg 1621 gtcgtcctat gggacgacta cggaatgagc aatcccatcc acgacgccct caggctgcaa 1681 gaactcgctg acacctgccc cctcactcta aattgtgaca ggattgagaa taaagggaag 1741 gtcttcgaca gcgatgtcat tatcatcact actaacctgg ccaacccagc accactggac 1801 tatgttaact ttgaggcgtg ctcgaggcgc attgatttcc tcgtgtatgc agaagccccc 1861 gaggtcgaaa aggcgaagcg tgacttcccg ggtcaacctg acatgtggaa aaacgccttt 1921 agtcctgatt tctcacacat aaaactggca ttggctccac aaggtggctt tgataagaac 1981 gggaacaccc cacacgggaa gggcgtcatg aagaccctca ccactggctc cctcatcgcc 2041 cgggcatcag ggctactcca tgagagattg gatgagtttg aactacaggg cccagctctt 2101 accaccttca actttgaccg caacaaagtg cttgccttca ggcagcttgc tgctgaaaac 2161 aaatacgggt tgatggacac aatgaaagtt gggaggcagc tcaaggatgt caaaaccatg 2221 ccagaactta aacaagcact caagaatatc tcaatcaaga agtgccagat tgtgtatagt 2281 ggttgcacct acacacttga gtctgatggt aaaggcaatg tgaaagttga cagagttcag 2341 agtacttcta ttcagaccaa caatgagctg gctggcgccc tgcatcacct aaggtgcgcc 2401 agaatcaggt actatgtcaa gtgtgttcag gaggccctgt attctatcat ccagattgct 2461 ggggctgcgt ttgtcaccac gcgcatcatc aagcgtgtga acattcaaga cttatggtcc 2521 aagccacaag tggaaaacac agaggatgcc accaacaagg acgggtgtcc aaaacccata 2581 gatattgagg agttcgtcat ttcatctgac gacattaaaa ctgagggtaa gaaagggaag 2641 aacaaatctg gccgtggcaa gaagcacacg gccttctcaa gtaaaggtct cagtgacgaa 2701 gagtatgatg agtacaagag aattagagag gaaagaaatg gcgagtactc catagaagag 2761 tacctacagg acagggacag atactatgag gaggtggcca ttgccagggc gaccgaggaa 2821 gacttctgtg aagaggagga ggccaagatc cggcaaagga tcttcagacc aacaaggaag 2881 caacgcaagg aagaaagggc ttctctcggt ttagtcacag gcactgaaat taggaaaagg 2941 aacccagaag acttcaagcc taaggggaaa ctatgggctg acgatgacag aagtgtggac 3001 tacaatgaaa aactcagttt tgaggcccca ccaagcattt ggtcaaggat agtcaacttt 3061 ggctcaggtt ggggcttctg ggtctccccc agcctgttca taacatcaac ccacgtcata 3121 ccccagggcg caaaggagtt ctttggagtt cccatcaaac aaattcaggt gcacaagtca 3181 ggcgaattct gtcgcttgag gttcccaaaa ccaatcagga ctgatgtggc tggcatgatc 3241 ttggaagaag gtgcgcccga aggcaccgtg gtcacactgc tcatcaaaag gtctactgga 3301 gaactcatgc ccctagcagc tagaatgggg acccatgcaa ccatgaagat tcaggggcgc 3361 actgttggag gtcagatggg catgcttctg acaggatcca acgccaaaag catggatcta 3421 ggcaccacac caggtgactg cggctgtccc tacatctaca agagagggaa tgactatgtt 3481 gtcattggag tccacacggc tgccgctcgt gggggaaaca ctgtcatttg tgccacccaa 3541 gggggtgagg gggaagctac acttgaaggt ggtgacagta agggaacata ctgtggtgca 3601 ccaatcctag gtccagggag tgccccaaaa cttagcacca aaaccaaatt ctggagatca 3661 tccacagcac cactcccacc tggcacctat gaaccagcct acctaggtgg caaggatccc 3721 agggtcaagg atggcccctc gttgcagcaa gtcatgaggg accagctgaa accatttaca 3781 gagcccaggg gtaagccacc aaagccaagt gtgttagaag ctgccaagaa aaccatcatc 3841 aatgtccttg aacaaacaat tgacccacct gagaagtggt cgttcgcaca agcttgcgcg 3901 tcccttgaca agaccacttc tagcggccat ccgcaccaca tgcggaaaaa cgactgctgg 3961 aacggggaat ccttcacggg caagctggca gaccaggctt ccaaggccaa cctgatgttt 4021 gaagagggga agaacatgac cccagtctac acaggtgcac ttaaggatga gttagtcaaa 4081 actgacaaaa tttatggtaa gatcaagaag aggcttctct ggggctcaga tttagcaacc 4141 atgatccggt gcgctcgagc tttcggaggc ctattggatg aactcaaagc acactgtgtc 4201 acacttccta tcagagttgg tatgaacatg aatgaggatg gtcccatcat cttcgagaag 4261 cattccaggt acagatacca ctatgatgct gattactctc ggtgggattc aacacagcag 4321 agagccgtgt tggcagctgc tctagaaatc atggttaaat tctcctcaga accacatttg 4381 gctcaggtgg tagcagaaga cctcctttct cctagcgtgg tggatgtggg tgacttcaca 4441 atatcaatca acgagggtct tccctctggg gtgccctgca cctcccaatg gaactccatc 4501 gcccactggc ttctcactct ctgtgcactc tccgaagtca caaatttgtc cccagacatc 4561 atacaggcta attctctctt ctccttctat ggtgatgatg aaattgttag tacagacata 4621 aaattagacc cagagaaatt gacagcaaag cttaaggaat acggattgaa accaactcgc 4681 cctgataaaa ctgaaggacc tcttgttatc tctgaagact tagatggttt gaccttcctg 4741 cggagaaccg tgacccgcga cccagctggt tggtttggaa aactggagca gagctcaata 4801 ctcaggcaaa tgtactggac taggggcccc aaccatgaag atccatctga atcaatgatt 4861 ccacactctc aaagacccat acaattgatg tccttactgg gagaggccgc actccacggc 4921 ccaacattct acagcaaaat cagcaaatta gtcattgcag agctaaaaga aggtggtatg 4981 gatttttacg tgcccaggca agagccaatg ttcagatgga tgagattctc agatctgagc 5041 acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgaatga 5101 cgccaaccca tctgatgggt ccgcagtcaa cctcgtccca gaggtcaaca atgaggttat 5161 ggctttggag cccgttgtcg gtgccgctat tgcggcgcct gtagcgggcc aacaaaatgt 5221 aattgacccc tggattagaa ataattttgt acaagcccct ggtggagagt tcacagtatc 5281 ccctagaaac gctccaggtg aaatactatg gagcgcgccc ttaggccctg atctgaatcc 5341 ctacctatct catttggcca gaatgtataa tggttatgca ggtggttttg aagtgcaggt 5401 gattctcgcg gggaacgcgt tcaccgccgg aaaaattata tttgcagcag tcccaccaaa 5461 ttttccaact gaaggcttga gtcccagtca agtcaccatg ttcccccata taatagtgga 5521 tgctaggcaa ttggaacctg tgttgatccc cttacctgat gttaggaata atttctacca 5581 ctataatcag tcaaatgatt ctaccattaa attgatagca atgctgtata caccacttag 5641 ggctaataat gctggggaag atgtcttcac agtctcttgt cgagttctca cgaggccatc 5701 ccctgatttt gatttcatat ttttggtgcc acctacagtt gagtcaagaa ctaagccatt 5761 tactgtccca atcctaactg ttgaagaaat gaccaactca aggttcccca ttcctttgga 5821 gaagttgttc acgggtccca gcagtgcctt tgttgttcaa ccacaaaatg gcagatgcac 5881 aactgatggc gtgctcttag gcaccaccca gctgtctcct gttaacatct gcaccttcag 5941 aggggatgtc gcccacattg caggttctcg taattacaca atgaatttgg cttctctaaa 6001 ttggaacaac tatgacccaa cagaagaaat tccagcccct ctaggaactc cagatttcgt 6061 gggaaagatc caaggtatgc tcactcaaac cacaaaggga gatggctcga cccgtggcca 6121 taaagctaca gtttacactg ggagtgcccc cttcactcca aagctgggca gtgtccaatt 6181 cgaaactgac acagaaaatg attttgaaac ccaccaaaac acaaaattca ccccagtcgg 6241 tgtcatccag gatggtggca ccacccaccg aaatgaacct caacaatggg tgctcccaag 6301 ttattcaggt agaaatgtcc ctaatgtaca cctagcccct gctgtagccc ccacttttcc 6361 gggtgaacaa ctccttctct ttaggtccac tatgcccgga tgcagcgggt atcccaacat 6421 ggacttggac tgcctgctac ctcaggagtg ggtgcagcac ttctaccaag aggcagctcc 6481 agcacaatct gatgtggctc tattgagatt tgtgaatcca gacacgggta gggtcctgtt 6541 tgagtgcaaa cttcataaat caggctatgt cacagtggcc cacaccggcc agcatgattt 6601 ggtcatcccc cccagtggtt attttaggtt tgattcctgg gttaaccaat tctacacgct 6661 tgcccccatg ggaaacggaa cggggcgtag acgtgctttg taatggctgg agctttcttt 6721 gctggattgg catctgatgt ccttagctct ggacttggtt ccctaatcaa tgctggggct 6781 ggggctatca accaaaagat tgattttgaa aatagcagaa aattgcagca agcttccttc 6841 cagtttagca gtaatctaca acaggcttcc tttcaacatg acaaagagat gcttcaagca 6901 caaattgagg ccactaaaaa gttgcaacag gaaatgatga aagtcaaaca ggcaatgctc 6961 ttagaaggtg gattctctga aacagatgca gcccgtgggg cagtcaacgc ccctatgaca 7021 aaggttttgg actggagcgg aacaaggtac tgggcccctg atgctaggac tacaacatac 7081 aatgcaggcc gtttttccac ccctcaatct tcaggggcat tgccaggaag agtcagtccc 7141 aggactccca tccccgctcg gggctccccc aacacatcct ctaatgcttc tactgctact 7201 tctttgtatt caaatcaaac tgtttcaacg agacttggtt ctacagctgg ttctggcacc 7261 aatgtctcga gtcccccttc aactgcaagg actaggagtt gggttgagga tcaaagcaga 7321 aatttgtcac ctttcatgag gggggctcac aacatatcat tcgtcacccc accatctagt 7381 agatcctcta gccaaggcac agtctcaacc gtgcctaaag aagttttgga ctcctggact 7441 ggcgctttta acacgcgcag gcagcctttt ttcgctcaca tttgtagggg aggggagtca 7501 cgggggtaa //