ID JX966246; SV 1; linear; genomic RNA; STD; VRL; 4448 BP. XX AC JX966246; 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 Mg20, 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; b04cc5ec773380b79f33ca9e87a2c388. 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="Mg20" FT /mol_type="genomic RNA" FT /country="Madagascar" FT /collection_date="2004" FT /db_xref="taxon:31744" FT gene 82..555 FT /gene="ORF1" FT CDS 82..555 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:L0AQ73" FT /protein_id="AFZ75394.1" FT /translation="MTRLEVLIRPTLQTVEKAIAAGYTHTLTWIWHSQIWDVNGVSDPT FT LAADFNPERVGWVSVSFACTRCTAHYYTCEQVKFFTNIPSVHYDVVCADCERSVQQDDV FT IDREHDGRNAEISACNARALSEGRPASLVYLSRDACDIPEHAGSCRFDKYLNF" FT gene 608..3606 FT /gene="ORF2b" FT CDS join(608..2092,2092..3606) 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:L0APK3" FT /db_xref="InterPro:IPR001795" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:L0APK3" FT /protein_id="AFZ75396.1" FT /translation="MGSSVVGRFLTRTKETTRVDSNLLIVLAGLIAAAIVSERLPVTAS FT LWAIPSAIIANWIVLSAHESFSRFVEGVEIEPMSTLRYGKVQSAPRFDPSRGYVVDVSY FT NGHVIPVILDFTTTTALSVPQRVNPGVSMEASRGGLPPTSVKLEDVPPSVVVLYHDSVR FT LGLGTRVRTPTGRDLLMTNHHIAALEPNGIAYKGHLKKVALDAPVIACDHPHIDCAFYE FT VPPKIWSLLGVKSASLKPLVKQTAVSLFGGSSSTDFSSCVGIAQIGDNPFLIRHQSTTC FT SGWSGSPLYHKGCVVGLHIGAADGYNVASNVAWYFHTFKRDVVVESPFEIYGKFREANS FT EEYDESLRHGVEYAEYDFSGDTIRASSNTWVRERERYHAEERRKSGQLSWADRFGDDSG FT EDVDIETSHPVAPSISKTRRKRSKRVEQFVDAASECSFSFESAHEGIVPETSAYDHVPL FT NCQGAGSSLRASPPLDGLFNSENTAGTPSVTPSLPTEMPFSYVGKSGVIFGEHAGKSVC FT AAVKDAISVFPDLEGFGWPERGSKAELDSLILQAGRFNRTVCPPGLAQAVQSLQEKYPK FT VPPRRCLRDEWRFDDIFDEVERILCETGEVNSASSPGVPLTGLANSNGEVRRLARDLVC FT LAVVERLNALASVDPRQHNWTPRELVEKGLCDPVRLFVKNEPHPQKKLRERRFRLISSV FT SLVDQLVERMLFGPQNNTEISTWWQWPSKPGMGLLTPEQIRLVWDDVFQKHQAHPAAEA FT DISGFDWSVQDWELWSDLAIRINRGNFQGNLRKAAISRYYCFMNSVFQLSDGTLIQQEL FT PGLMKSGSYCTSSTNSRIRCLMAELIGSPWCIAMGDDSVEGWIEGAQSKYAALGHTCKE FT YYPCKTKGRELLEFNFCSHLIRRGHAELTSWPKALFRFLSSKHEDFEDLWVELHTCGVW FT SRIERYLRGIGRVSHKDGQEGQENQLQPRPARQEEEPTSSWAFGGAPASTGSSGSGVPD FT IWDGSWTTIF" FT gene 608..2425 FT /gene="ORF2a" FT CDS 608..2425 FT /codon_start=1 FT /gene="ORF2a" FT /product="protease and VPg" FT /db_xref="GOA:L0AND9" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:L0AND9" FT /protein_id="AFZ75395.1" FT /translation="MGSSVVGRFLTRTKETTRVDSNLLIVLAGLIAAAIVSERLPVTAS FT LWAIPSAIIANWIVLSAHESFSRFVEGVEIEPMSTLRYGKVQSAPRFDPSRGYVVDVSY FT NGHVIPVILDFTTTTALSVPQRVNPGVSMEASRGGLPPTSVKLEDVPPSVVVLYHDSVR FT LGLGTRVRTPTGRDLLMTNHHIAALEPNGIAYKGHLKKVALDAPVIACDHPHIDCAFYE FT VPPKIWSLLGVKSASLKPLVKQTAVSLFGGSSSTDFSSCVGIAQIGDNPFLIRHQSTTC FT SGWSGSPLYHKGCVVGLHIGAADGYNVASNVAWYFHTFKRDVVVESPFEIYGKFREANS FT EEYDESLRHGVEYAEYDFSGDTIRASSNTWVRERERYHAEERRKSGQLSWADRFGDDSG FT EDVDIETSHPVAPSISKTRRKRSKRVEQFVDAASECSFSFESAHEGIVPETSAYDHVPL FT NCQGAGSSLRASPPLDGLFNSENTAGTPSVTPSLPTECPSATLENRVSSLENMLGKVSA FT QLSKTQSQYSQILKDLAGLRGEVKQSLTPSSSKPAGSTERYVPPGSRKQSNHSKKSTQK FT SPPGDASGTSGGSTTSSMKSKESSAKPAK" FT gene 3446..4165 FT /gene="ORF4" FT CDS 3446..4165 FT /codon_start=1 FT /gene="ORF4" FT /product="coat protein" FT /db_xref="GOA:B5D688" FT /db_xref="InterPro:IPR000937" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:B5D688" FT /protein_id="AFZ75397.1" FT /translation="MARKGKKINSNQGQQGKKKSRRPRGRSAEPQLQRAPVAQASRISG FT TVPGPLSSNAWPVHSVEFLMDFKRSATSADAVAFNCVPFNLPRVWSLARCYSLWKPTRW FT DVVYLPEVSAATAGSIEMCYLYDYADAIPSDTGKMSRTAGFVTSSVWYGAEGCHLLNGG FT SARNAVVASMDCSRVGWRRVTSSIPSSVDPNVVNTILPARLAVRSSIKPTVDDVPGKLY FT AIVSMVLRDPVDPTLNT" XX SQ Sequence 4448 BP; 962 A; 1139 C; 1288 G; 1059 T; 0 other; acaattgaag ctaggaaagg agcatattgc gaaagcgatc cctccttccg acgaacaatt 60 gtacccacgt ctgctacgtg tatgacacgg ttggaagttc ttatacgacc gactttgcag 120 actgtggaaa aggccattgc cgcgggctat acgcacacgc tcacctggat ttggcattct 180 cagatctggg acgttaacgg tgtgagtgat cccactcttg ccgctgactt caaccccgag 240 agggttggtt gggtgtctgt gtcatttgcc tgtactcggt gcactgctca ctactatacg 300 tgtgagcagg tgaaattctt caccaacatc ccgtcggttc attacgacgt ggtgtgtgct 360 gattgtgagc gcagtgttca gcaggacgac gtgatcgacc gcgaacacga cgggcgtaac 420 gcagagattt ctgcctgcaa cgctcgggct ttgagtgagg gtcgtccagc cagtctggtt 480 tacctctctc gggacgcttg cgatatcccc gagcacgccg gaagctgccg gtttgataag 540 tacctcaact tttgagggaa cactctgccg acatccaagg agcggtcgtg gttcagacta 600 acacgggatg ggctcttctg ttgttggtcg ctttctcact cgcaccaagg aaacgacgag 660 ggtggactcc aacctcctca tcgtcttggc tgggttgata gcggccgcga tagtctcaga 720 gcgcctgccc gtgacggcgt cattgtgggc aatcccctca gctattatag caaactggat 780 cgtgctgtca gctcacgaga gcttcagccg gttcgttgag ggggttgaga ttgagcctat 840 gtccacgctt cggtatggga aggttcagtc tgctccccgg tttgatccct cccggggtta 900 tgtggtcgat gtttcgtaca acggccacgt gattccggtg atattggact tcaccacgac 960 tacggctctg tcggttcccc aaagagtaaa ccctggggtc tcgatggagg ctagtcgtgg 1020 ggggctccca ccgacgtccg tcaaactcga agatgtgccg ccgagcgttg tggttttgta 1080 ccacgactct gtcaggctag gccttggaac tagggtgcga actcccacgg gtcgtgattt 1140 gctcatgacc aatcaccata tcgctgctct agagcccaat ggcatcgcgt acaagggtca 1200 ccttaagaaa gtggctctag acgcgccagt catcgcatgt gaccatccac acatagactg 1260 tgcgttttac gaggtgcctc ccaagatctg gtctctcttg ggggtcaagt ctgccagttt 1320 gaaacctttg gttaaacaga ctgcggtgtc actcttcgga ggctcgtcat ccactgactt 1380 ctcgagttgt gttgggatag cccagattgg ggataatcca ttcctgataa ggcatcaaag 1440 cacaacttgc agtggctggt cgggctcccc gctctaccac aaaggttgcg tggttggctt 1500 acatataggt gctgcggatg gttataatgt ggcatctaat gtagcctggt acttccatac 1560 cttcaaaagg gatgttgttg ttgagtctcc gttcgagatt tacggcaaat tccgggaagc 1620 aaactctgag gagtatgacg aaagtctgcg ccatggggtg gaatatgcgg agtacgattt 1680 ctctggtgac acaatccggg cgtcttccaa cacctgggtg cgtgagagag agagatacca 1740 cgctgaggaa cgtcgtaagt ccggccagct tagctgggca gatcgttttg gtgacgacag 1800 tggcgaggat gttgatatcg agacatcgca tcccgtagca ccgtcaatat ctaaaacgcg 1860 gcggaaacgg tcaaagcgcg ttgagcagtt cgtcgacgcg gcttctgagt gctccttctc 1920 gttcgagtca gctcacgagg ggattgtgcc agagacctca gcttatgacc acgttccttt 1980 aaactgccag ggggcgggct cgagccttcg ggcgagtccg cccttggacg gcttattcaa 2040 ctcggagaat accgctggga ctccctcggt gactccctcc cttccgacgg aatgcccttc 2100 agctacgttg gaaaatcggg tgtcatcttt ggagaacatg ctgggaaaag tgtctgcgca 2160 gctgtcaaag acgcaatctc agtattccca gatcttgaag gatttggctg gcctgagagg 2220 ggaagtaaag cagagcttga ctccctcatc ctccaagccg gccggttcaa cagaacggta 2280 tgtccccccg ggctcgcgca agcagtccaa tcactccaag aaaagtaccc aaaagtcccc 2340 cccaggcgat gcctcaggga cgagtggagg ttcgacgaca tcttcgatga agtcgaaaga 2400 atcctctgcg aaaccggcga agtgaattcc gcttcctcgc cgggggtgcc gctgacgggc 2460 cttgccaatt ccaatggtga ggtgcggagg cttgcgagag atttggtatg tttagctgtg 2520 gtggagcgat tgaatgcctt agcctcggtt gacccccgcc agcataactg gacacccagg 2580 gagctggtag agaaaggtct ttgtgaccct gtgcgtttgt tcgtcaagaa cgagccacac 2640 ccacagaaga aattgcgtga acgcagattc aggctgattt cttctgtttc tctagttgac 2700 cagctggtgg agcggatgct tttcgggcca cagaacaaca ctgagatttc aacttggtgg 2760 cagtggcctt cgaagccggg catgggtctg ttgacccctg aacaaatccg tttggtgtgg 2820 gacgacgtgt tccagaagca ccaagcccac cctgcggctg aggcagacat atcggggttt 2880 gattggtccg ttcaggactg ggagttgtgg tcagacctcg cgatccgtat aaacagaggg 2940 aattttcagg gaaacctcag gaaagcggct atcagccgtt actactgttt tatgaactct 3000 gttttccagc tctcagatgg aaccctcatc cagcaggagt tacccgggct tatgaagtcc 3060 ggctcttact gcacctcatc caccaattca cgcatacgct gcctaatggc tgagctaatc 3120 ggctcgccct ggtgcatagc tatgggtgat gattcggtgg aaggatggat tgagggtgcc 3180 cagtccaagt acgccgcgtt gggtcacacc tgcaaggagt actacccatg taagaccaag 3240 gggcgtgagc tcctggaatt caacttctgt tcacacttga tcaggagggg tcatgctgag 3300 ctcacttcat ggccgaaggc gcttttccgc tttctgtcga gcaagcatga ggactttgaa 3360 gatctgtggg ttgagcttca cacgtgcggg gtgtggagca ggatcgaacg atatctgcgt 3420 gggatagggc gagtctccca caaagatggc caggaagggc aagaaaatca actccaacca 3480 aggccagcaa ggcaagaaga agagccgacg tcctcgtggg cgttcggcgg agccccagct 3540 tcaacgggct ccagtggctc aggcgtcccg gatatctggg acggttcctg gaccactatc 3600 ttctaatgcc tggccggtcc actccgtgga attcctgatg gattttaagc ggagtgccac 3660 atcggcggat gcggtagcat ttaattgtgt accgttcaat ctgcctcggg tgtggagtct 3720 tgcacgttgt tactcgctgt ggaagccaac acggtgggat gtagtttacc tccccgaggt 3780 gagcgcggcg acagctggaa gtattgagat gtgttatctc tacgactatg ctgatgctat 3840 cccaagtgac acgggcaaga tgagcaggac ggcgggcttc gtcacctcta gcgtttggta 3900 cggcgcggag ggctgccatt tgttgaatgg tggttcagca cggaatgccg tggtcgcctc 3960 gatggattgt tctcgagtcg gctggagacg cgtaactagt tcaattccta gtagcgtgga 4020 tcccaacgtc gtaaatacca tactgccagc aaggctagct gtgcggtcgt ctatcaaacc 4080 gacggtcgat gatgtgccgg ggaaactcta tgccatcgtc agtatggtcc tgcgggatcc 4140 ggttgatcca acactcaata cgtgaaccgg attcaatgga gataggtatt ggcaccagtg 4200 atgatccacg gattagctca gagatcgact accctgaaaa ggatgttgag cgtttgcgaa 4260 cgcgggctga gtcctacgag atgatactgg cgcctatccc atgtggggaa tcgcacccac 4320 gtttcaaccc aaagcgatcc acacgctgga tagcgtttac ctggttggtt tcggagctgc 4380 caggaggacc tcttcacact ccgaattcca cattctttcc gagagaattc tcgggatggg 4440 tgggggag 4448 //