ID AF406990; SV 1; linear; genomic RNA; STD; VRL; 6791 BP. XX AC AF406990; XX DT 11-JUN-2002 (Rel. 72, Created) DT 29-MAY-2003 (Rel. 75, Last updated, Version 2) XX DE Tobacco rattle virus segment RNA1, complete sequence. XX KW . XX OS Tobacco rattle virus OC Viruses; Riboviria; Virgaviridae; Tobravirus. XX RN [1] RP 1-6791 RX DOI; 10.1046/j.1365-313X.2002.01297.x. RX PUBMED; 12028572. RA Liu Y., Schiff M., Marathe R., Dinesh-Kumar S.P.; RT "Tobacco Rar1, EDS1 and NPR1/NIM1 like genes are required for N-mediated RT resistance to tobacco mosaic virus"; RL Plant J. 30(4):415-429(2002). XX RN [2] RP 1-6791 RA Liu Y.; RT ; RL Submitted (08-AUG-2001) to the INSDC. RL MCDB, Yale University, 165 Prospect Street, New Haven, CT 06520, USA XX DR MD5; 813ea79eab72dc1a52d6edf66f8e7bc6. DR EuropePMC; PMC3069956; 21401913. DR EuropePMC; PMC3421689; 22623792. DR EuropePMC; PMC3893464; 24465085. DR EuropePMC; PMC434121; 15220402. DR EuropePMC; PMC5043491; 27005823. DR EuropePMC; PMC5865466; 29576941. DR EuropePMC; PMC6366713; 30668603. DR EuropePMC; PMC6528620; 31156664. DR RFAM; RF01101; TLS-PK6. XX FH Key Location/Qualifiers FH FT source 1..6791 FT /organism="Tobacco rattle virus" FT /segment="RNA1" FT /strain="ppk20" FT /mol_type="genomic RNA" FT /db_xref="taxon:12295" FT CDS 203..5326 FT /codon_start=1 FT /transl_except=(pos:3764..3766,aa:OTHER) FT /product="putative replicase" FT /note="translated by readthrough of stop codon" FT /db_xref="GOA:Q8JU32" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:Q8JU32" FT /protein_id="AAM50509.1" FT /translation="MANGNFKLSQLLNVDEMSAEQRSHFFDLMLTKPDCEIGQMMQRVV FT VDKVDDMIRERKTKDPVIVHEVLSQKEQNKLMEIYPEFNIVFKDDKNMVHGFAAAERKL FT QALLLLDRVPALQEVDDIGGQWSFWVTRGEKRIHSCCPNLDIRDDQREISRQIFLTAIG FT DQARSGKRQMSENELWMYDQFRENIAAPNAVRCNNTYQGCTCRGFSDGKKKGAQYAIAL FT HSLYDFKLKDLMATMVEKKTKVVHAAMLFAPESMLVDEGPLPSVDGYYMKKNGKIYFGF FT EKDPSFSYIHDWEEYKKYLLGKPVSYQGNVFYFEPWQVRGDTMLFSIYRIAGVPRRSLS FT SQEYYRRIYISRWENMVVVPIFDLVESTRELVKKDLFVEKQFMDKCLDYIARLSDQQLT FT ISNVKSYLSSNNWVLFINGAAVKNKQSVDSRDLQLLAQTLLVKEQVARPVMRELREAIL FT TETKPITSLTDVLGLISRKLWKQFANKIAVGGFVGMVGTLIGFYPKKVLTWAKDTPNGP FT ELCYENSHKTKVIVFLSVVYAIGGITLMRRDIRDGLVKKLCDMFDIKRGAHVLDVENPC FT RYYEINDFFSSLYSASESGETVLPDLSEVKAKSDKLLQQKKEIADEFLSAKFSNYSGSS FT VRTSPPSVVGSSRSGLGLLLEDSNVLTQARVGVSRKVDDEEIMEQFLSGLIDTEAEIDE FT VVPAFSAECERGETSGTKVLCKPLTPPGFENVLPAVKPLVSKGKTVKRVDYFQVMGGER FT LPKRPVVSGDDSVDARREFLYYLDAERVAQNDEIMSLYRDYSRGVIRTGGQNYPHGLGV FT WDVEMKNWCIRPVVTEHAYVFQPDKRMDDWSGYLEVAVWERGMLVNDFAVERMSDYVIV FT CDQTYLCNNRLILDNLSALDLGPVNCSFELVDGVPGCGKSTMIVNSANPCVDVVLSTGR FT AATDDLIERFASKGFPCKLKRRVKTVDSFLMHCVDGSLTGDVLHFDEALMAHAGMVYFC FT AQIAGAKRCICQGDQNQISFKPRVSQVDLRFSSLVGKFDIVTEKRETYRSPADVAAVLN FT KYYTGDVRTHNATANSMTVRKIVSKEQVSLKPGAQYITFLQSEKKELVNLLALRKVAAK FT VSTVHESQGETFKDVVLVRTKPTDDSIARGREYLIVALSRHTQSLVYETVKEDDVSKEI FT RESAALTKAALARFFVTETVLXRFRSRFDVFRHHEGPCAVPDSGTITDLEMWYDALFPG FT NSLRDSSLDGYLVATTDCNLRLDNVTIKSGNWKDKFAEKETFLKPVIRTAMPDKRKTTQ FT LESLLALQKRNQAAPDLQENVHATVLIEETMKKLKSVVYDVGKIRADPIVNRAQMERWW FT RNQSTAVQAKVVADVRELHEIDYSSYMYMIKSDVKPKTDLTPQFEYSALQTVVYHEKLI FT NSLFGPIFKEINERKLDAMQPHFVFNTRMTSSDLNDRVKFLNTEAAYDFVEIDMSKFDK FT SANRFHLQLQLEIYRLFGLDEWAAFLWEVSHTQTTVRDIQNGMMAHIWYQQKSGDADTY FT NANSDRTLCALLSELPLEKAVMVTYGGDDSLIAFPRGTQFVDPCPKLATKWNFECKIFK FT YDVPMFCGKFLLKTSSCYEFVPDPVKVLTKLGKKSIKDVQHLAEIYISLNDSNRALGNY FT MVVSKLSESVSDRYLYKGDSVHALCALWKHIKSFTALCTLFRDENDKELNPAKVDWKKA FT QRAVSNFYDW" FT CDS 203..3766 FT /codon_start=1 FT /product="putative replicase" FT /note="part of the complete replicase; has helicase and FT nucleotide binding motifs" FT /db_xref="GOA:Q8JU31" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:Q8JU31" FT /protein_id="AAM50508.1" FT /translation="MANGNFKLSQLLNVDEMSAEQRSHFFDLMLTKPDCEIGQMMQRVV FT VDKVDDMIRERKTKDPVIVHEVLSQKEQNKLMEIYPEFNIVFKDDKNMVHGFAAAERKL FT QALLLLDRVPALQEVDDIGGQWSFWVTRGEKRIHSCCPNLDIRDDQREISRQIFLTAIG FT DQARSGKRQMSENELWMYDQFRENIAAPNAVRCNNTYQGCTCRGFSDGKKKGAQYAIAL FT HSLYDFKLKDLMATMVEKKTKVVHAAMLFAPESMLVDEGPLPSVDGYYMKKNGKIYFGF FT EKDPSFSYIHDWEEYKKYLLGKPVSYQGNVFYFEPWQVRGDTMLFSIYRIAGVPRRSLS FT SQEYYRRIYISRWENMVVVPIFDLVESTRELVKKDLFVEKQFMDKCLDYIARLSDQQLT FT ISNVKSYLSSNNWVLFINGAAVKNKQSVDSRDLQLLAQTLLVKEQVARPVMRELREAIL FT TETKPITSLTDVLGLISRKLWKQFANKIAVGGFVGMVGTLIGFYPKKVLTWAKDTPNGP FT ELCYENSHKTKVIVFLSVVYAIGGITLMRRDIRDGLVKKLCDMFDIKRGAHVLDVENPC FT RYYEINDFFSSLYSASESGETVLPDLSEVKAKSDKLLQQKKEIADEFLSAKFSNYSGSS FT VRTSPPSVVGSSRSGLGLLLEDSNVLTQARVGVSRKVDDEEIMEQFLSGLIDTEAEIDE FT VVPAFSAECERGETSGTKVLCKPLTPPGFENVLPAVKPLVSKGKTVKRVDYFQVMGGER FT LPKRPVVSGDDSVDARREFLYYLDAERVAQNDEIMSLYRDYSRGVIRTGGQNYPHGLGV FT WDVEMKNWCIRPVVTEHAYVFQPDKRMDDWSGYLEVAVWERGMLVNDFAVERMSDYVIV FT CDQTYLCNNRLILDNLSALDLGPVNCSFELVDGVPGCGKSTMIVNSANPCVDVVLSTGR FT AATDDLIERFASKGFPCKLKRRVKTVDSFLMHCVDGSLTGDVLHFDEALMAHAGMVYFC FT AQIAGAKRCICQGDQNQISFKPRVSQVDLRFSSLVGKFDIVTEKRETYRSPADVAAVLN FT KYYTGDVRTHNATANSMTVRKIVSKEQVSLKPGAQYITFLQSEKKELVNLLALRKVAAK FT VSTVHESQGETFKDVVLVRTKPTDDSIARGREYLIVALSRHTQSLVYETVKEDDVSKEI FT RESAALTKAALARFFVTETVL" FT CDS 5328..6086 FT /codon_start=1 FT /product="movement protein" FT /db_xref="GOA:Q9QPN4" FT /db_xref="InterPro:IPR028919" FT /db_xref="UniProtKB/Swiss-Prot:Q9QPN4" FT /protein_id="AAM50510.1" FT /translation="MEDKSLVTLKKKTFEVSKFSNLGAIELFVDGRRKRPKYFHRRRET FT VLNHVGGKKSEHKLDVFDQRDYKMIKSYAFLKIVGVQLVVTSHLPADTPGFIQIDLLDS FT RLTEKRKRGKTIQRFKARACDNCSVAQYKVEYSISTQENVLDVWKVGCISEGVPVCDGT FT YPFSIEVSLIWVATDSTRRLNVEELNSSDYIEGDFTDQEVFGEFMSLKQVEMKTIEAKY FT DGPYRPATTRPKSLLSSEDVKRASNKKNSS" FT CDS 6111..6536 FT /codon_start=1 FT /product="16 kDa protein" FT /db_xref="GOA:Q77JX3" FT /db_xref="InterPro:IPR007968" FT /db_xref="UniProtKB/Swiss-Prot:Q77JX3" FT /protein_id="AAM50511.1" FT /translation="MTCVLKGCVNEVTVLGHETCSIGHANKLRKQVADMVGVTRRCAEN FT NCGWFVCVVINDFTFDVYNCCGRSHLEKCRKRVETRNREIWKQIRRNQAENMSATAKKS FT HNSKTSKKKFKEDREFGTPKRFLRDDVPFGIDRLFAF" XX SQ Sequence 6791 BP; 1990 A; 1130 C; 1743 G; 1928 T; 0 other; ataaaacatt tcaatccttt gaacgcggta gaacgtgcta attggatttt ggtgagaacg 60 cggtagaacg tacttatcac ctacagtttt attttgtttt tctttttggt ttaatctatc 120 cagcttagta ccgagtgggg gaaagtgact ggtgtgccta aaaccttttc tttgatactt 180 tgtaaaaata catacagata caatggcgaa cggtaacttc aagttgtctc aattgctcaa 240 tgtggacgag atgtctgctg agcagaggag tcatttcttt gacttgatgc tgactaaacc 300 tgattgtgag atcgggcaaa tgatgcaaag agttgttgtt gataaagtcg atgacatgat 360 tagagaaaga aagactaaag atccagtgat tgttcatgaa gttctttctc agaaggaaca 420 gaacaagttg atggaaattt atcctgaatt caatatcgtg tttaaagacg acaaaaacat 480 ggttcatggg tttgcggctg ctgagcgaaa actacaagct ttattgcttt tagatagagt 540 tcctgctctg caagaggtgg atgacatcgg tggtcaatgg tcgttttggg taactagagg 600 tgagaaaagg attcattcct gttgtccaaa tctagatatt cgggatgatc agagagaaat 660 ttctcgacag atatttctta ctgctattgg tgatcaagct agaagtggta agagacagat 720 gtcggagaat gagctgtgga tgtatgacca atttcgtgaa aatattgctg cgcctaacgc 780 ggttaggtgc aataatacat atcagggttg tacatgtagg ggtttttctg atggtaagaa 840 gaaaggcgcg cagtatgcga tagctcttca cagcctgtat gacttcaagt tgaaagactt 900 gatggctact atggttgaga agaaaactaa agtggttcat gctgctatgc tttttgctcc 960 tgaaagtatg ttagtggacg aaggtccatt accttctgtt gacggttact acatgaagaa 1020 gaacgggaag atctatttcg gttttgagaa agatccttcc ttttcttaca ttcatgactg 1080 ggaagagtac aagaagtatc tactggggaa gccagtgagt taccaaggga atgtgttcta 1140 cttcgaaccg tggcaggtga gaggagacac aatgcttttt tcgatctaca ggatagctgg 1200 agttccgagg aggtctctat catcgcaaga gtactaccga agaatatata tcagtagatg 1260 ggaaaacatg gttgttgtcc caattttcga tctggtcgaa tcaacgcgag agttggtcaa 1320 gaaagacctg tttgtagaga aacaattcat ggacaagtgt ttggattaca tagctaggtt 1380 atctgaccag cagctgacca taagcaatgt taaatcatac ttgagttcaa ataattgggt 1440 cttattcata aacggggcgg ccgtgaagaa caagcaaagt gtagattctc gagatttaca 1500 gttgttggct caaactttgc tagtgaagga acaagtggcg agacctgtca tgagggagtt 1560 gcgtgaagca attctgactg agacgaaacc tatcacgtca ttgactgatg tgctgggttt 1620 aatatcaaga aaactgtgga agcagtttgc taacaagatc gcagtcggcg gattcgttgg 1680 catggttggt actctaattg gattctatcc aaagaaggta ctaacctggg cgaaggacac 1740 accaaatggt ccagaactat gttacgagaa ctcgcacaaa accaaggtga tagtatttct 1800 gagtgttgtg tatgccattg gaggaatcac gcttatgcgt cgagacatcc gagatggact 1860 ggtgaaaaaa ctatgtgata tgtttgatat caaacggggg gcccatgtct tagacgttga 1920 gaatccgtgc cgctattatg aaatcaacga tttctttagc agtctgtatt cggcatctga 1980 gtccggtgag accgttttac cagatttatc cgaggtaaaa gccaagtctg ataagctatt 2040 gcagcagaag aaagaaatcg ctgacgagtt tctaagtgca aaattctcta actattctgg 2100 cagttcggtg agaacttctc caccatcggt ggtcggttca tctcgaagcg gactgggtct 2160 gttgttggaa gacagtaacg tgctgaccca agctagagtt ggagtttcaa gaaaggtaga 2220 cgatgaggag atcatggagc agtttctgag tggtcttatt gacactgaag cagaaattga 2280 cgaggttgtt ccagcctttt cagctgaatg tgaaagaggg gaaacaagcg gtacaaaggt 2340 gttgtgtaaa cctttaacgc caccaggatt tgagaacgtg ttgccagctg tcaaaccttt 2400 ggtcagcaaa ggaaaaacgg tcaaacgtgt cgattacttc caagtgatgg gaggtgagag 2460 attaccaaaa aggccggttg tcagtggaga cgattctgtg gacgctagaa gagagtttct 2520 gtactactta gatgcggaga gagtcgctca aaatgatgaa attatgtctc tgtatcgtga 2580 ctattcgaga ggagttattc gaactggagg tcagaattac ccgcacggac tgggagtgtg 2640 ggatgtggag atgaagaact ggtgcatacg tccagtggtc actgaacatg cttatgtgtt 2700 ccaaccagac aaacgtatgg atgattggtc gggatactta gaagtggctg tttgggaacg 2760 aggtatgttg gtcaacgact tcgcggtcga aaggatgagt gattatgtca tagtttgcga 2820 tcagacgtat ctttgcaata acaggttgat cttggacaat ttaagtgccc tggatctagg 2880 accagttaac tgttcttttg aattagttga cggtgtacct ggttgtggta agtcgacaat 2940 gattgtcaac tcagctaatc cttgtgtcga tgtggttctc tctactggga gagcagcaac 3000 cgacgacttg atcgagagat tcgcgagcaa aggttttcca tgcaaattga aaaggagagt 3060 gaagacggtt gattcttttt tgatgcattg tgttgatggt tctttaaccg gagacgtgtt 3120 gcatttcgat gaagctctca tggcccatgc tggtatggtg tacttttgcg ctcagatagc 3180 tggtgctaaa cgatgtatct gtcaaggaga tcagaatcaa atttctttca agcctagggt 3240 atctcaagtt gatttgaggt tttctagtct ggtcggaaag tttgacattg ttacagaaaa 3300 aagagaaact tacagaagtc cagcagatgt ggctgccgta ttgaacaagt actatactgg 3360 agatgtcaga acacataacg cgactgctaa ttcgatgacg gtgaggaaga ttgtgtctaa 3420 agaacaggtt tctttgaagc ctggtgctca gtacataact ttccttcagt ctgagaagaa 3480 ggagttggta aatttgttgg cattgaggaa agtggcagct aaagtgagta cagtacacga 3540 gtcgcaagga gagacattca aagatgtagt cctagtcagg acgaaaccta cggatgactc 3600 aatcgctaga ggtcgggagt acttaatcgt ggcgttgtcg cgtcacacac aatcacttgt 3660 gtatgaaact gtgaaagagg acgatgtaag caaagagatc agggaaagtg ccgcgcttac 3720 gaaggcggct ttggcaagat tttttgttac tgagaccgtc ttatgacggt ttcggtctag 3780 gtttgatgtc tttagacatc atgaagggcc ttgcgccgtt ccagattcag gtacgattac 3840 ggacttggag atgtggtacg acgctttgtt tccgggaaat tcgttaagag actcaagcct 3900 agacgggtat ttggtggcaa cgactgattg caatttgcga ttagacaatg ttacgatcaa 3960 aagtggaaac tggaaagaca agtttgctga aaaagaaacg tttctgaaac cggttattcg 4020 tactgctatg cctgacaaaa ggaagactac tcagttggag agtttgttag cattgcagaa 4080 aaggaaccaa gcggcacccg atctacaaga aaatgtgcac gcaacagttc taatcgaaga 4140 gacgatgaag aagttgaaat ctgttgtcta cgatgtggga aaaattcggg ctgatcctat 4200 tgtcaataga gctcaaatgg agagatggtg gagaaatcaa agcacagcgg tacaggctaa 4260 ggtagtagca gatgtgagag agttacatga aatagactat tcgtcttaca tgtatatgat 4320 caaatctgac gtgaaaccta agactgattt aacaccgcaa tttgaatact cagctctaca 4380 gactgttgtg tatcacgaga agttgatcaa ctcgttgttc ggtccaattt tcaaagaaat 4440 taatgaacgc aagttggatg ctatgcaacc acattttgtg ttcaacacga gaatgacatc 4500 gagtgattta aacgatcgag tgaagttctt aaatacggaa gcggcttacg actttgttga 4560 gatagacatg tctaaattcg acaagtcggc aaatcgcttc catttacaac tgcagctgga 4620 gatttacagg ttatttgggc tagatgagtg ggcggccttc ctttgggagg tgtcgcacac 4680 tcaaactact gtgagagata ttcaaaatgg tatgatggcg catatttggt accaacaaaa 4740 gagtggagat gctgatactt ataatgcaaa ttcagataga acactgtgtg cactcttgtc 4800 tgaattacca ttggagaaag cagtcatggt tacatatgga ggagatgact cactgattgc 4860 gtttcctaga ggaacgcagt ttgttgatcc gtgtccaaag ttggctacta agtggaattt 4920 cgagtgcaag atttttaagt acgatgtccc aatgttttgt gggaagttct tgcttaagac 4980 gtcatcgtgt tacgagttcg tgccagatcc ggtaaaagtt ctgacgaagt tggggaaaaa 5040 gagtataaag gatgtgcaac atttagccga gatctacatc tcgctgaatg attccaatag 5100 agctcttggg aactacatgg tggtatccaa actgtccgag tctgtttcag accggtattt 5160 gtacaaaggt gattctgttc atgcgctttg tgcgctatgg aagcatatta agagttttac 5220 agctctgtgt acattattcc gagacgaaaa cgataaggaa ttgaacccgg ctaaggttga 5280 ttggaagaag gcacagagag ctgtgtcaaa cttttacgac tggtaatatg gaagacaagt 5340 cattggtcac cttgaagaag aagactttcg aagtctcaaa attctcaaat ctaggggcca 5400 ttgaattgtt tgtggacggt aggaggaaga gaccgaagta ttttcacaga agaagagaaa 5460 ctgtcctaaa tcatgttggt gggaagaaga gtgaacacaa gttagacgtt tttgaccaaa 5520 gggattacaa aatgattaaa tcttacgcgt ttctaaagat agtaggtgta caactagttg 5580 taacatcaca tctacctgca gatacgcctg ggttcattca aatcgatctg ttggattcga 5640 gacttactga gaaaagaaag agaggaaaga ctattcagag attcaaagct cgagcttgcg 5700 ataactgttc agttgcgcag tacaaggttg aatacagtat ttccacacag gagaacgtac 5760 ttgatgtctg gaaggtgggt tgtatttctg agggcgttcc ggtctgtgac ggtacatacc 5820 ctttcagtat cgaagtgtcg ctaatatggg ttgctactga ttcgactagg cgcctcaatg 5880 tggaagaact gaacagttcg gattacattg aaggcgattt taccgatcaa gaggttttcg 5940 gtgagttcat gtctttgaaa caagtggaga tgaagacgat tgaggcgaag tacgatggtc 6000 cttacagacc agctactact agacctaagt cattattgtc aagtgaagat gttaagagag 6060 cgtctaataa gaaaaactcg tcttaatgca taaagaaatt tattgtcaat atgacgtgtg 6120 tactcaaggg ttgtgtgaat gaagtcactg ttcttggtca cgagacgtgt agtatcggtc 6180 atgctaacaa attgcgaaag caagttgctg acatggttgg tgtcacacgt aggtgtgcgg 6240 aaaataattg tggatggttt gtctgtgttg ttatcaatga ttttactttt gatgtgtata 6300 attgttgtgg ccgtagtcac cttgaaaagt gtcgtaaacg tgttgaaaca agaaatcgag 6360 aaatttggaa acaaattcga cgaaatcaag ctgaaaacat gtctgcgaca gctaaaaagt 6420 ctcataattc gaagacctct aagaagaaat tcaaagagga cagagaattt gggacaccaa 6480 aaagattttt aagagatgat gttcctttcg ggattgatcg tttgtttgct ttttgatttt 6540 attttatatt gttatctgtt tctgtgtata gactgtttga gattggcgct tggccgactc 6600 attgtcttac cataggggaa cggactttgt ttgtgttgtt attttatttg tattttatta 6660 aaattctcaa tgatctgaaa aggcctcgag gctaagagat tattgggggg tgagtaagta 6720 cttttaaagt gatgatggtt acaaaggcaa aaggggtaaa acccctcgcc tacgtaagcg 6780 ttattacgcc c 6791 //