ID JX966248; SV 1; linear; genomic RNA; STD; VRL; 4448 BP. XX AC JX966248; XX DT 16-DEC-2012 (Rel. 115, Created) DT 16-DEC-2012 (Rel. 115, Last updated, Version 1) XX DE Rice yellow mottle virus isolate Tz1102, complete genome. XX KW . XX OS Rice yellow mottle virus OC Viruses; Riboviria; Solemoviridae; Sobemovirus. XX RN [1] RC Publication Status: Available-Online prior to print RP 1-4448 RX PUBMED; 23123216. RA Rakotomalala M., Pinel-Galzi A., Mpunami A., Randrianasolo A., RA Ramavovololona P., Rabenantoandro Y., Fargette D.; RT "Rice yellow mottle virus in Madagascar and in the Zanzibar Archipelago; RT Island systems and evolutionary time scale to study virus emergence"; RL Virus Res. 0:0(2012). XX RN [2] RP 1-4448 RA Rakotomalala M., Pinel-Galzi A., Mpunami A., Randrianasolo A., RA Ramavovololona P., Rabenantoandro Y., Fargette D.; RT ; RL Submitted (12-OCT-2012) to the INSDC. RL RPB, IRD, 911 av Agropolis BP 64501, Monptellier 34080, France XX DR MD5; b8b555c3435c2a74fe93878557383be3. DR EuropePMC; PMC3791421; 23830075. XX CC ##Assembly-Data-START## CC Sequencing Technology :: Sanger dideoxy sequencing CC ##Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..4448 FT /organism="Rice yellow mottle virus" FT /host="Oryza sativa" FT /isolate="Tz1102" FT /mol_type="genomic RNA" FT /country="Tanzania" FT /collection_date="2007" FT /db_xref="taxon:31744" FT gene 83..556 FT /gene="ORF1" FT CDS 83..556 FT /codon_start=1 FT /gene="ORF1" FT /product="putative movement and gene silencing protein" FT /db_xref="InterPro:IPR021971" FT /db_xref="UniProtKB/TrEMBL:E1UHN3" FT /protein_id="AFZ75402.1" FT /translation="MTRLEVLIRPTEQTVAKAIAVGYTHALTWVWYPQTWDVDSVNDPV FT LRADFNPDRVGWVTVSFACTQCTAHHYTCEQVKFFTDIPSVHYDVVCADCERRVQRDDE FT IDREHQERNAEISACNARALSEGRPASLVYLSRDACDIPGHSGTCRYNRYLNF" FT gene 610..3605 FT /gene="ORF2b" FT CDS join(610..2094,2094..3605) FT /codon_start=1 FT /ribosomal_slippage FT /gene="ORF2b" FT /product="polyprotein" FT /note="ORF2b produced by a -1 frameshift in ORF2a; FT translation occurs as an ORF2a-ORF2b fusion protein; FT contains RNA-dependent RNA polymerase" FT /db_xref="GOA:L0AQ82" FT /db_xref="InterPro:IPR001795" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:L0AQ82" FT /protein_id="AFZ75404.1" FT /translation="MGSSVVGRFLTRTKETTRVDSNLLIVLAGLIAAAIVSERLPVTAS FT LWAIPSAIIANWIVLSAHESFSRFVEGVEVEPMSTLRYGKVQSAPRFDPSRGYVVDVSY FT NGHVIPVILDFTTTTALSVPQRVNPGVSMEASRGGLPPTSVKLEDVPPSVVVLYHDSVR FT LGLGTRVRTPTGRDLLMTNHHIAALEPNGIAYKGHLKKVALDAPVIACDHPHIDCAFYE FT VPPKIWSLLGVKSASLKPLVKQTAVSLFGGSSSTDFSSCVGIAQIGDNPFLIRHQSTTC FT SGWSGSPLYHKGCVVGLHIGAADGYNVASNVAWYFHTFKKEVVVESPFEIYGKFREANS FT EEYDESLRHGVQYAEYDFSGDTIRASSNTWVREREKYHAEERRKSGQPSWADRFGDDDG FT EDVDIETSHPVAPSISKTRQKRSKRIEQFVDAVSECSFSFESAHEGVIPETSAYDHVPL FT NCQGAGSSLRASPPLDGLSNSENTNGTPLETPSLPTAMPFSYVGKSGVIFGEHAGKSVC FT AAVKDAIPVFPALEGFGWPERGSKAELDSLILQAGRFNRTVCPSGLAEAVRSLQERYPK FT VPPRRCLRDEWRFDDIFDEVERILCETGEVNTASSPGVPLAGLANSNGEVRKLGRDLVC FT LAVVERLNALASVDPRQHNWTPRELVEKGLCDPVRLFVKNEPHPQKKLRERRFRLISSV FT SLVDQLVERMLFGPQNNTEISTWWQWPSKPGMGLLTREQIRLVWDDVFQKHQAHPAAEA FT DISGFDWSVQDWELWSDLAIRINRGSFSGNLRKAAISRYYCFMNSVFQLSDGTLIQQEL FT PGLMKSGSYCTSSTNSRIRCLMAELIGSPWCIAMGDDSVEGWIEGAQSKYAALGHTCKE FT YYPCKTRGRELLEFNFCSHLIRRGHAELTSWPKALFRFLSSKHEDFEDLWVELHTCGVW FT GRIEQYLRGIGRVSHKDGQEGQENQLQPKPARQEEPTSPWAFGGAPASTGSSGSGLPDI FT WDGSWSTIF" FT gene 610..2427 FT /gene="ORF2a" FT CDS 610..2427 FT /codon_start=1 FT /gene="ORF2a" FT /product="protease and VPg" FT /db_xref="GOA:L0ANQ1" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:L0ANQ1" FT /protein_id="AFZ75403.1" FT /translation="MGSSVVGRFLTRTKETTRVDSNLLIVLAGLIAAAIVSERLPVTAS FT LWAIPSAIIANWIVLSAHESFSRFVEGVEVEPMSTLRYGKVQSAPRFDPSRGYVVDVSY FT NGHVIPVILDFTTTTALSVPQRVNPGVSMEASRGGLPPTSVKLEDVPPSVVVLYHDSVR FT LGLGTRVRTPTGRDLLMTNHHIAALEPNGIAYKGHLKKVALDAPVIACDHPHIDCAFYE FT VPPKIWSLLGVKSASLKPLVKQTAVSLFGGSSSTDFSSCVGIAQIGDNPFLIRHQSTTC FT SGWSGSPLYHKGCVVGLHIGAADGYNVASNVAWYFHTFKKEVVVESPFEIYGKFREANS FT EEYDESLRHGVQYAEYDFSGDTIRASSNTWVREREKYHAEERRKSGQPSWADRFGDDDG FT EDVDIETSHPVAPSISKTRQKRSKRIEQFVDAVSECSFSFESAHEGVIPETSAYDHVPL FT NCQGAGSSLRASPPLDGLSNSENTNGTPLETPSLPTACHSATLENRVSSLENMLGKVSA FT QLSKTQSQYSQLLKDLAGLREGVRQSSTPSSSKPAGSTERYVPPGSRKQSGHSKKGTQK FT SPPGVASGTSGGSTTSSMKSKESSAKPAK" FT gene 3448..4167 FT /gene="ORF4" FT CDS 3448..4167 FT /codon_start=1 FT /gene="ORF4" FT /product="coat protein" FT /db_xref="GOA:E1UHN6" FT /db_xref="InterPro:IPR000937" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:E1UHN6" FT /protein_id="AFZ75405.1" FT /translation="MARKGKKTNSNQNQQGKKSRRPRGRSAEPRLQRAPVAQASRISGM FT VPGPLSSNVWPVNRSVEFLMDFKRSATSADATIFNCVPFNLPRVWSLARCYSLWKPTRW FT DVVYLPEVSAATAGSIEMCYLYDYADTIPSDTGKMSRTAGFVTSSVWYGAEGCHLLTGG FT SARNAVVASMDCSRVDWKRVTSSIPSKVDPNVVNTILPARLAVRSSIKPAVDDAPGKLY FT AIVSMVLRDPVDPTLNT" XX SQ Sequence 4448 BP; 977 A; 1159 C; 1279 G; 1033 T; 0 other; acaattgaag ctaggaaagg agcatattgc gaaagcgatc cctccttccg ccgaacaatt 60 gtagccgcgc tgctcgtcgt gcatgacacg gttggaagtt cttatacgac cgacagagca 120 gaccgtggca aaagccattg ccgtgggcta tacgcacgca ctcacctggg tttggtatcc 180 gcagacctgg gacgttgatt ctgtgaacga tccagttctc agagccgact tcaaccctga 240 tagggttggt tgggtgaccg tgtcgtttgc ctgtacccag tgcacagctc atcactatac 300 gtgtgagcag gtgaagttct tcaccgacat cccgtcagtt cattacgacg tggtgtgtgc 360 tgattgcgag cgccgtgttc agcgggacga cgagatcgac cgtgagcacc aagagcgtaa 420 cgcagaaatc tctgcttgca acgctcgagc tttgagtgag ggaagaccag caagtctggt 480 gtacctttct cgggacgctt gtgatatccc tgggcactcc ggaacgtgcc ggtacaacag 540 gtacctcaac ttttgagggc gccaacctgc cgacatctaa ggaacggtct tggctcagac 600 taacacggga tgggctcttc tgttgttggt cgctttctca ctcgaaccaa ggaaacgacg 660 agggtggatt ccaacctcct catcgtcttg gctgggttga tagcggccgc gatagtttca 720 gagcgcctac ccgtgacggc gtcattgtgg gcaatcccct cagctatcat agcaaattgg 780 atcgtgctgt cagctcacga gagcttcagc cggttcgtgg agggggttga ggttgaaccc 840 atgtcaacac ttcggtatgg caaggttcaa tccgctccac ggttcgatcc ctcccggggt 900 tatgtggtcg atgtctctta caacggtcac gtgattccag tgatattgga cttcaccacg 960 acgacggctc tgtcggttcc ccaaagagta aaccctgggg tctcgatgga ggcgagtcgt 1020 ggggggctcc cgccgacgtc cgtcaaactc gaagatgtgc cgccgagtgt tgtggtcttg 1080 taccacgact ccgtcaggct aggcctggga actagagtgc gaactcccac cggtcgtgat 1140 ctcctcatga ccaatcacca tatcgctgct ctagaaccta atggtatcgc gtacaagggt 1200 caccttaaga aagtagccct tgacgcgcca gtcatcgcat gtgaccatcc acacatagac 1260 tgcgcgtttt acgaggtgcc tcccaagatt tggtctctct tgggggtcaa gtctgccagt 1320 ttgaaacctt tggttaaaca aactgcggtg tcactcttcg gtggctcgtc atctactgac 1380 ttctcaagtt gtgttgggat agcccagatt ggggacaatc cgtttctgat aaggcatcaa 1440 agcacgactt gcagtgggtg gtcgggctcc ccgctctacc acaaaggttg cgtggttggc 1500 ttgcatatag gtgctgcgga tggttataat gtggcatcta atgtggcctg gtatttccat 1560 accttcaaga aggaagtggt cgttgagtct ccttttgaga tttacggcaa attccgggag 1620 gcgaactctg aggagtacga cgagagtcta cgacacggag ttcagtatgc ggagtacgac 1680 ttctctggtg atactatccg ggcgtcttcc aacacctggg tgcgtgagag agagaagtac 1740 cacgctgagg aacgtcgtaa gtccggccag cctagctggg cagaccgttt tggtgacgac 1800 gatggcgagg atgttgatat cgagacatca catcccgtag caccgtcaat atctaaaacg 1860 cggcagaaac ggtcaaagcg cattgagcag ttcgtcgatg cggtttccga gtgctccttc 1920 tcgttcgagt cagctcacga gggggtaatc cctgagacct cagcttatga ccacgttcct 1980 ttaaactgcc agggggcggg ctcgagccta cgggcgagtc cgcccttgga cggcttatcc 2040 aactcggaga ataccaatgg gactcctttg gagactccct cccttccgac ggcatgccat 2100 tcagctacgt tggaaaatcg ggtgtcatct ttggagaaca tgctgggaaa agtgtctgcg 2160 cagctgtcaa agacgcaatc ccagtattcc cagctcttga aggatttggc tggcctgaga 2220 gagggagtaa ggcagagctc gactccctca tcctccaagc cggccggttc aacagaacgg 2280 tatgtccctc cgggctcgcg gaagcagtcc ggtcactcca agaaaggtac ccaaaagtcc 2340 cccccaggcg ttgcctcagg gacgagtgga ggttcgacga catcttcgat gaagtcgaaa 2400 gaatcctctg cgaaaccggc gaagtgaata ccgcttcctc gccgggggtg ccgcttgcag 2460 gtcttgctaa ttcaaacggt gaggttcgca agctggggag agatttggta tgtttagctg 2520 tggtagagcg actgaatgcc ttagcctcgg ttgacccccg ccagcataac tggacaccca 2580 gggagctggt agagaaaggt ctttgcgacc ctgtgcgctt gtttgtcaag aacgagccac 2640 acccacagaa gaaattgcgt gaacgtcgat tcaggctgat ttcttctgtt tctctagttg 2700 accagctggt ggagcggatg cttttcgggc ctcagaacaa caccgagatt tcaacttggt 2760 ggcagtggcc ttcgaagccg ggcatgggtc tgttgactcg tgaacaaatc cgtctggtgt 2820 gggacgatgt gttccagaag caccaagccc accctgcggc tgaggcagac atatcggggt 2880 ttgactggtc cgttcaggac tgggagttgt ggtcagacct cgcgatccga atcaacagag 2940 ggagtttctc aggaaacctc agaaaagcgg ccatcagccg ttattactgt ttcatgaact 3000 ctgttttcca gctctcagat ggaaccctca tccagcagga gttgcccgga ttgatgaaat 3060 ccggctctta ttgcacctct tcaacaaact cacgcatacg ctgtctcatg gctgagctca 3120 tcggctcgcc gtggtgtata gctatgggag atgattctgt ggaggggtgg atcgaggggg 3180 cccaatccaa gtacgccgcg ctaggtcaca cctgcaagga gtactacccg tgtaagacca 3240 ggggccgtga gctcctggaa ttcaacttct gttcacactt gatcaggagg ggtcatgctg 3300 agctaacttc atggccgaag gcgttgtttc gctttctgtc tagcaagcat gaggattttg 3360 aagatctgtg ggttgagctt cacacgtgcg gggtgtgggg taggatcgaa caatatctac 3420 gtgggatagg gcgtgtctcc cacaaagatg gccaggaagg gcaagaaaac caactccaac 3480 caaaaccagc aaggcaagaa gagccgacgt ccccgtgggc gttcggcgga gccccggctt 3540 caacgggctc cagtggctca ggcctcccgg atatctggga tggttcctgg tccactatct 3600 tctaacgtct ggccggttaa ccgctccgtg gaattcctga tggattttaa acggagcgcc 3660 acctcggcgg atgcgaccat attcaactgt gtgccgttca atctgccccg agtgtggagt 3720 cttgcgcgtt gttactcctt gtggaagcca acaaggtggg atgtcgtcta cctccctgag 3780 gttagtgcgg cgacagctgg aagtatcgag atgtgttatc tctacgacta tgctgacact 3840 atcccaagtg acacgggcaa gatgagcagg acggcgggct tcgtcacctc cagcgtttgg 3900 tacggcgcgg agggctgcca tttgttaact ggcggctcag cacgaaatgc cgtggtcgcc 3960 tcgatggact gttctcgagt cgactggaaa cgcgttacta gttcaattcc tagtaaagtg 4020 gatcccaacg tcgtaaacac catactgcca gctaggctag ctgtgcggtc gtcgattaaa 4080 ccggcggttg atgatgcacc aggcaagctg tatgccatcg tcagtatggt cctgcgggat 4140 ccggttgacc caacactcaa tacgtgaacc ggacccagtg gaggcaggta ttggcatcgg 4200 tgatggccaa cggactaact cagagatcga ctaccctgaa aaggatgttg agcgtttgcg 4260 aacgcgggtt cagtcctaag agggcacatc ggtgtctgcc ccacgtgagg agttgcactc 4320 acattaaccc aaagcaaccc agacactgga tggtgtttac ccggctggtt tcggagctgc 4380 cgggaggacc tctgcacact ccgaattccc catttcatcc gagagaattc tcgggatggg 4440 tgggggag 4448 //