Typing tool
|
Complete norovirus genomes
JX846924 | GII.3 | ||
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GII.P41 |
ORF1: 5..5110 ORF2: 5091..6737 ORF3: 6737..7501LOCUS JX846924 7527 bp ss-RNA linear VRL 24-OCT-2013 DEFINITION Norovirus Hu/GII.3/HK71/1978/CHN, complete genome. ACCESSION JX846924 VERSION JX846924.1 DBLINK BioProject: PRJNA70471 KEYWORDS . SOURCE Norovirus Hu/GII.3/HK71/1978/CHN ORGANISM Norovirus Hu/GII.3/HK71/1978/CHN Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7527) AUTHORS Madupu,R., Halpin,R., Ransier,A., Fedorova,N., Stockwell,T., Amedeo,P., Bishop,B., Edworthy,P., Gupta,N., Katzel,D., Li,K., Schobel,S., Shrivastava,S., Thovarai,V., Wang,S., Kim,M., Bok,K., Sosnovtsev,S.V., Wentworth,D.E. and Green,K.Y. TITLE Direct Submission JOURNAL Submitted (31-JUL-2012) J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA COMMENT ##Assembly-Data-START## Assembly Method :: clc_ref_assemble_long v. 3.22.55705 Coverage :: 65.0x Sequencing Technology :: Sanger; Illumina; 454 ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7527 /organism="Norovirus Hu/GII.3/HK71/1978/CHN" /mol_type="genomic RNA" /strain="Hu/GII.3/HK71/1978/CHN" /host="Homo sapiens" /db_xref="taxon:1260941" /country="China: Hong Kong" /collection_date="05-Jan-1978" /note="genotype: GII.3" gene 5..5110 /gene="POL" CDS 5..5110 /gene="POL" /note="genome polyprotein" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AFX71655.1" /translation="MKMASNDASAAAAAASNNDNAKSSSDGVLNSMAVTFKRALGARP KQPPPRETTQKQKPPRPPTPELVKKIPPPPPNGEDELVVSYSIKDGVSGLPELSTVSQ PDEANTAFSVPPLNQRENRDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA ISLAKVELTPLSLYWRPVYTPQYLMSPDTLRKLHGELFPYTAFDNNCYAFCCWVLDLN DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKMANIILCALSSLFTRPIKDII GKLRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKDEANELAMVRSIEDAVLDLEAIENNHMTSLLKDKDSLATYMRTLDLEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR ELAKKIAATLTGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV EKAKRDFPGQPDMWKDAFKPDFSHIKLMLAPQGGFDKNGNTPHGKGVMKTLTSGSLIA RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRQLAAENKYGLMDTMRVGSQLKGVK TVSELKQALKNIAIKRCQIVYSGSTYSLESDGKGNVKVEKVQSTTVQTNNELSGALHH LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDAEETINKD GCPKPKDDEEFVISSEDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLG LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV SPSLFITSTHVIPQGSQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDNKGTYCGAPI LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRIKGGPSLQQVMRDQLKPFT EPRGKPPNPSVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNE CWNGESFTGKLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGS DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYNYHYDADYSR WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP CTSQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAK LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR GPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVIAELKEGGMDFYVPR QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..1000 /gene="POL" /product="protein p48" mat_peptide 1001..2098 /gene="POL" /product="NTPase" /note="p41" mat_peptide 2099..2635 /gene="POL" /product="protein p22" mat_peptide 2636..3034 /gene="POL" /product="viral genome-linked protein" /note="VPg" mat_peptide 3035..3577 /gene="POL" /product="3C-like protease" /note="3CLpro; calicivirin" mat_peptide 3578..5107 /gene="POL" /product="RNA-directed RNA polymerase" gene 5091..6737 /gene="VP1" CDS 5091..6737 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="AFX71656.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG FEVQVVLAGNAFTAGKVIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPINLPMPD VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT QLLPSQICAFRGTLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPAP LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTSGRFTPKLGSLEISTESDDFDPNQP TRFTPVGIGVDNEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ" gene 6737..7501 /gene="VP2" CDS 6737..7501 /gene="VP2" /note="minor capsid protein" /codon_start=1 /product="capsid protein VP2" /protein_id="AFX71657.1" /translation="MAGAFIAGLAGDMLTSTVGSLVNAGASAINQKVDFENNKYLQNA SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPITRVLDWSG TRYWAPNATSTTSMSGGFTSQTVHRTTPNFKTNQAPKSTPSSGSSVRSNSTQLTSLSS HSSGSSRSSGSTVVSSLPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASNSD TVSTVPKSVLDSWTSAFNTRRQPLFAHLRRRGESNV" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctgcca gcaacaacga 61 caacgcaaaa tcttcaagtg acggagtact aaatagtatg gctgtcactt ttaaacgagc 121 cctcggggcc cggcccaaac agccgccccc gagggaaaca acacaaaaac aaaaaccccc 181 acgaccgccc actccggagt tggtcaaaaa gatcccgcct cccccgccca acggggagga 241 cgagttagtg gtctcctata gtattaaaga tggcgtctcc ggtttgcctg agctctccac 301 cgtcagtcaa ccagacgagg ccaacacagc atttagtgtc cccccattaa accaaaggga 361 gaacagagat gctaaggaac cactgcccgg caccatcctg gagatgtggg acggagagat 421 ctaccattat ggcctgtacg tggaacgggg tctggtgctt ggggtacaca aaccaccagc 481 ggctattagt cttgccaagg ttgagttgac accattgtct ctatattgga gaccagtgta 541 caccccccag taccttatgt ccccggacac tctcagaaag ctacatggag aactattccc 601 ttatacggcc tttgataata actgttatgc cttctgttgt tgggttttag atctaaacga 661 ctcttggctt agcaggagaa tgatacagag aacaactggc tttttccggc cctaccagga 721 ctggaacaga aagccccttc ccaccatgga tgattccaaa ttgaaaaaga tggccaatat 781 aatactgtgt gctttgtcat cgctgtttac caggcccatt aaggacataa ttggaaagtt 841 gagaccccta aacatcctca atatattggc ttcctgcgat tggacttttg caggtatagt 901 agaatcccta atcctcttgg cagagctctt tggagttttc tggacgcccc cagatgtgtc 961 tgcgatgatc gcccccttac taggtgacta cgagctacag ggacctgaag accttgctgt 1021 ggagctcgta ccagtagtaa tgggggggat aggtttggtt ctaggtttca ccaaagaaaa 1081 gattggaaaa atgctatcat ctgctgcatc cactcttagg gcttgtaaag accttggagc 1141 atacgggttg gaaatcttaa aattggtcat gaagtggttc ttcccgaaga aagatgaggc 1201 aaacgagctc gcaatggtga gatccatcga ggacgcagta ttggatctcg aagcaattga 1261 aaacaaccac atgacctctt tgctcaaaga caaggacagt ttggcaacct acatgagaac 1321 tctagatctt gaagaggaga aggctagaag actctccacc aagtctgcct ctcctgacat 1381 cgtgggcaca atcaatgccc tattggcgcg gatcgcagcc gcccgctccc tggtgcatcg 1441 ggcaaaagaa gagctctcta gcaggccaag gcccgttgtt gtgatgatat caggcaaacc 1501 aggaatagga aagactcacc tcgctagaga gttagcaaag aaaattgcag ccaccctcac 1561 aggagatcag agggtgggcc ttgtcccacg gaacggtgtt gaccactggg acgcatacaa 1621 aggtgagaga gtcgtccttt gggatgacta tgggatgagc aaccccattc acgacgccct 1681 cagactgcaa gaacttgctg acacgtgccc cctaacacta aattgtgata ggattgagaa 1741 caagggaaaa gtctttgaca gtgacgctat aatcattaca actaatctgg ccaacccagc 1801 accactggac tatgtcaact ttgaagcatg ctcaaggcgc attgacttcc tcgtgtatgc 1861 tgacgcccct gatgttgaaa aggcgaagcg cgactttcca ggacaacctg atatgtggaa 1921 ggacgctttc aaacccgact tctcacacat aaaactaatg ctggcccctc aaggtgggtt 1981 tgataagaac ggcaacaccc cacacggaaa gggcgtcatg aaaaccctca catctggttc 2041 tctcattgca cgtgcatcag ggctcctcca tgaaagattg gacgaatacg agttgcaagg 2101 cccaacgccc acaaccttca atttcgacca gaacaaggtc tttgctttca ggcaactcgc 2161 tgctgaaaac aaatacgggt tgatggacac tatgagagtg ggaagccagc tcaagggagt 2221 caaaactgtg tcagagctta agcaggcgct caagaacatc gcaattaaaa ggtgccagat 2281 agtctacagt ggttccacat actcacttga atctgatggc aaaggtaatg tgaaagttga 2341 gaaggtacag agtacaactg tgcaaacaaa caatgagcta tctggtgcgc tacaccacct 2401 cagatgcgcc aggatcagat attatgttaa gtgtgtccag gaggcccttt attccatcat 2461 ccaaattgct ggggccgcgt ttgtcaccac gcgcattgca aaacgcatga acatacaaaa 2521 tctctggtct aagccacagg tggaggatgc agaagaaacc atcaataaag atgggtgccc 2581 aaagccaaaa gatgatgagg aatttgtcat ctcgtctgaa gacatcaaag tcgagggcaa 2641 gaagggaaag aacaagtctg gccgtggcaa gaaacacaca gccttttcaa gcaagggtct 2701 cagtgatgag gagtacgatg aatacaaaag aattagagaa gaaagaaatg gtaagtactc 2761 catagaagaa taccttcagg acagggacaa atactatgaa gaggtggcca tagccagggc 2821 tactgaagag gacttctgtg aggaagagga agccaaaatc cgacagagga ttttcagacc 2881 aacgaggaaa caacgtaaag aggagagggc ttctcttggc ctggtcacag gctcagaaat 2941 caggaagagg aacccagacg acttcaaacc caagggaaag ttgtgggctg atgacgacag 3001 gagtgtcgat tacaatgaga aactcagctt tgaagctccc ccaagcatct ggtcaagaat 3061 agtcaacttt ggttcaggtt ggggtttctg ggtttcacca agtttgttta taacatccac 3121 ccatgttata cctcagggat cacaggagtt cttcggggtt tccattaaac agatccaaat 3181 ccacaaatcg ggtgagttct gccgactaag atttccaaaa ccaatcagaa ctgatgtgac 3241 aggcatgatc ctggaggaag gggcccctga aggaacagtg gccacactac tcataaagag 3301 accaactggg gagctcatgc cactggcagc taggatgggc acccacgcaa ctatgaagat 3361 ccagggtcgc actgttgggg gccaaatggg aatgctcttg acaggatcca acgccaagag 3421 catggacctg ggtactacac caggtgattg tgggtgccca tatatctaca aaagaggaaa 3481 tgactacgtg gtcattggag tccacactgc cgccgctcgc ggggggaaca ccgtcatctg 3541 tgcaacccag ggaagcgagg gtgaggccat gcttgaaggt ggtgacaaca aaggcaccta 3601 ttgcggtgcc ccaatcctag gtccaggaaa tgcccccaag ctcagtacta agaccaaatt 3661 ttggaggtcc tcaacagctc cactcccacc tggcacatac gaaccagcct acctcggagg 3721 taaggacccc aggatcaaag gtggcccctc attacaacaa gtcatgagag atcaattaaa 3781 gccattcacg gaacccaggg gcaaaccacc aaacccaagt gtgctagaag ctgccaaaaa 3841 gaccatcatt aatgttcttg aacaaacaat agacccacca caaaaatggt catttgcaca 3901 agcatgcgca tcgcttgaca aaaccacctc cagtggccac ccgcaccaca tgcggaagaa 3961 tgaatgttgg aatggagagt ccttcacagg aaaattggca gaccaagctt caaaagctaa 4021 cctaatgtat gaggaaggta aaaacatgac cccggtctac acaggtgccc tcaaggatga 4081 gctagtcaaa actgacaaaa tatatggcaa gattaagaag aggctcctct gggggtcaga 4141 cctggcaacc atgatccggt gcgctcgagc attcggaggg ctaatggatg aactcaaggc 4201 ccactgcgtc acactcccta ttagggttgg gatgaacatg aatgaggatg gccccatcat 4261 ctttgagaag cactccaggt acaactacca ttatgatgca gattactctc ggtgggattc 4321 aacacaacag agggctgtgt tagctgcagc tctagaaatc atggtaaaat tttccccaga 4381 accacaccta gcccagatag tcgcagaaga ccttttgtcc cccagtgtga tggacgtggg 4441 cgatttcaaa atatcaatca ctgaagggct cccctctggg gtgccttgca cctcacaatg 4501 gaactccatc gcccattggc tcctcacact ctgtgcactc tctgaggtaa caaatttgtc 4561 ccctgacacc atccaagcaa attctctttt ctctttctat ggtgatgatg aaattgtgag 4621 cacagatatt aaattggatc cagaaaagct gacagctaaa ttgaaagagt atgggctaaa 4681 accaactcgc cctgacaaga ctgaaggacc tctggtcatc tctgaggact tgaatggtct 4741 gaccttcctg cggagaactg taacccgcga cccagctggt tggtttggaa aattggaaca 4801 gagttcaata cttagacaaa tgtattggac caggggcccc aatcatgagg acccctccga 4861 aacaatgata ccacattccc aaagacccat acagctaatg tccctactag gtgaagctgc 4921 actgcatggc ccatcattct acagcaagat cagtaagcta gttattgcag agttgaagga 4981 aggtggcatg gatttttacg tgcccagaca agaaccaatg tttcgatgga tgaggttctc 5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg 5101 cgtcgaatga cgctgctcca tctaacgatg gtgccgccgg cctcgtccca gagatcaaca 5161 atgaggcaat ggcgctagag ccagtggcgg gtgcagcgat agcagcaccc ctcactggcc 5221 agcaaaacat aattgatccc tggattatga ataattttgt gcaagcacct ggtggtgagt 5281 ttacagtgtc acctaggaat tcccctggtg aagtgcttct taatttagaa ttaggtccag 5341 aaataaaccc ctatttggct caccttgcta ggatgtacaa tggttatgca ggtgggtttg 5401 aagtgcaggt agtcctggct ggaaacgcgt ttacagcagg aaaggtgatc tttgcagcta 5461 taccccccaa ttttccaatt gataatctga gcgcagcaca aattacaatg tgcccgcatg 5521 tgattgtgga tgtcaggcag ctggaaccaa ttaatcttcc gatgcctgat gtccgcaaca 5581 atttctttca ttataatcaa gggtctgatt cgaggttacg cttaattgca atgctgtata 5641 cacctcttag ggcaaacaat tccggagatg atgtttttac tgtgtcctgt agagtattaa 5701 ctaggcctag ccctgatttc tcattcaatt ttcttgtccc acccactgtg gaatcaaaga 5761 caaaaccctt caccctcccc attctgacta tctctgaaat gtctaattcc aggtttccag 5821 tgccaattga ctctctacac accagcccga ctgagaacat tgttgtccag tgccaaaatg 5881 ggcgcgtcac tcttgacggt gagttaatgg gtaccaccca actcttgccg agtcagatat 5941 gtgctttcag gggcacgctc accagatcaa caagcagggc cagtgatcaa gccgacacag 6001 caacccctag gttattcaat tattattggc acatacaatt ggacaatcta aatggaaccc 6061 cctacgaccc tgcagaggac ataccagccc ctctgggaac accagacttc cggggcaagg 6121 tctttggcgt agccagccag agaaaccctg acagcacaac aagagcacat gaagcaaaag 6181 tggacacaac atctggtcgc ttcaccccga aattgggttc cctagaaata tccactgaat 6241 ccgatgactt tgacccaaac caaccaacaa gattcacccc agttggcatt ggggttgaca 6301 atgaggcaga ttttcagcaa tggtccttac ctgactattc cggtcagttc actcacaaca 6361 tgaacttagc cccagctgtc gcccccaatt tccctggtga gcagcttctt ttcttccgct 6421 cacagttgcc atcttctggt gggcggtcta acgggattct agactgcctg gtcccccagg 6481 aatgggttca acacttctac caggaatcag cccctgccca aacacaggtg gccctggtta 6541 ggtatgtcaa ccctgacact ggtagagtgc tatttgaggc caagctacat aaattaggtt 6601 tcatgactat agctaagaat ggtgactctc caataaccgt ccctccaaat gggtacttta 6661 ggtttgaatc ttgggtgaac cccttttata cacttgcccc catgggaact ggaaatgggc 6721 gcagaaggat tcaataatgg ctggagcctt tatagcagga ttggctggtg acatgctcac 6781 aagtactgtg ggatctttag ttaatgcagg ggctagtgct atcaatcaaa aagttgattt 6841 tgaaaataat aaatatttac aaaatgcatc ttttaatcat gataaggaga tgttaaatgc 6901 acaaattgag gcaacaaaga ggctacaggc tgacatgatt gctatcaaac aaggggtctt 6961 gaccgctggc ggcttttccc ccactgatgc agcccgtggg gcaattaatg cccccataac 7021 aagagttttg gactggagtg gaacgaggta ctgggcacca aacgccacct ccacaacctc 7081 aatgtcaggt ggcttcacaa gccaaactgt acacagaacc acaccaaatt ttaaaacgaa 7141 ccaggccccc aagtccacac ccagcagtgg gtcttcagtg agatcaaact caacccaact 7201 cactagcttg agctcacact catccgggtc gtctcgatcc agcgggtcta cggttgttag 7261 ctcattgcca tcttccaaca ggactaggga ttgggtcaat caacagaatt tcaatttgga 7321 accacacatg cctggatctc tcaggacagc ttttgtcact ccaccatcta gtacagcctc 7381 taattcagac acggtctcaa ccgtgcccaa aagtgttttg gactcctgga catctgcgtt 7441 taatacgcgc agacagccgc tattcgcaca ccttcgcaga aggggggagt caaatgttta 7501 gtgaaaagat tatcttaaat ttagttt //