ID D00637; SV 1; linear; genomic RNA; STD; VRL; 6362 BP. XX AC D00637; XX DT 19-NOV-1990 (Rel. 25, Created) DT 14-DEC-2007 (Rel. 94, Last updated, Version 10) XX DE Kennedya yellow mosaic virus genomic RNA, complete genome. XX KW . XX OS Kennedya yellow mosaic virus OC Viruses; Riboviria; Tymovirales; Tymoviridae; Tymovirus. XX RN [1] RP 6283-6361 RA van Belkum A., Bingkun J., Rietveld K., Pleij C.W., Bosch L.; RT "Structural similarities among valine-accepting tRNA-like structures in RT tymoviral RNAs and elongator tRNAs"; RL Biochemistry 26:1144-1151(1987). XX RN [2] RP 1-6362 RX PUBMED; 2324710. RA Ding S., Keese P., Gibbs A.; RT "The nucleotide sequence of the genomic RNA of Kennedya yellow mosaic RT tymovirus-Jervis Bay isolate: relationships with potex- and carlaviruses"; RL J. Gen. Virol. 71:925-931(1990). XX RN [3] RP 5666-5713 RX DOI; 10.1093/nar/18.5.1181. RX PUBMED; 2320413. RA Ding S., Howe J., Keese P., Mackenzie A., Meek D., Osorio-Keese M., RA Skotnicki M., Srifah P., Torronen M., Gibbs A.; RT "The tymobox, a sequence shared by most tymoviruses: its use in molecular RT studies of tymoviruses"; RL Nucleic Acids Res. 18(5):1181-1187(1990). XX DR MD5; c95f2aa855481dd674b94034194a5a10. DR RFAM; RF00233; Tymo_tRNA-like. XX CC These data kindly submitted in computer readable form by: CC Shou-wei Ding CC Molecular & Evolutionary Systematics CC Research School of Biological Sciences CC Australian National University CC GPO Box 475 CC Canberra, A.C.T., 2601 CC Australia CC The 3'-terminal sequence (6261-6362 nt) of the genome reported CC in can be folded into a CC five-stem secondary structure, so-called tRNA-like structure. XX FH Key Location/Qualifiers FH FT source 1..6362 FT /organism="Kennedya yellow mosaic virus" FT /isolate="Jervis Bay" FT /mol_type="genomic RNA" FT /db_xref="taxon:12158" FT CDS 79..2340 FT /codon_start=1 FT /note="ORF for overlapping protein" FT /db_xref="InterPro:IPR004935" FT /db_xref="UniProtKB/TrEMBL:O56971" FT /protein_id="BAA00531.1" FT /translation="MSNGFPTSSRCSSVDFTQGPLLAPSPRVGSRLLNGLPPNLPLDGP FT TRPPTLPSQIGNPDQLLRKFPPPPPSAQDAGNPPTLHPLDASLHPAFICPLHEASKIHE FT APKEEQVLPTSPQLPPDSHRFSAFSFNLSPPPKHPFRVHARCSDVLPTRTDPSSVSPSS FT AVDQPLLLSCDPTRIPLHPPLPHARPLHLHPERSNPPLHPRGTLRRFIQPAHNSPLLAE FT NQLHPLPKSQPLHHNSGILGTSPFHTDTKRSPPPRSEAASSQSSSILPLPRPGNRPGVL FT PGPKVRGAPSSNLPLPTPQAPPRARERLQRSLHLHASRQNAPRLRPRRLRSDPIQQTRT FT QVGHPQCVGQPTNLRAAQLPSPTKRGVPRSPQPTPENEAVLLTALAPPRRHSRSWPLLP FT FPPSSLPEVVFASSKGKVHLRLSTQPPSSPQTSSSPPPPSPRTDASGIQTPLASPPSKR FT KEKSLPHPSHQPPSHSKRNLRRHSALPLLLPIHPTKTTQPHPAVPQPTAGPTPHPPPTK FT KIPLHPPKSQERHPSPPPDVFHDCQPSSPTSHVVGYRRLLGSGISLPFKLAFWRRRSPN FT PARHLPPPPPPRKLHSELDSNSLSRSSSFSLSPLCSLPPSPSPSEQLPTVSAPPTPSPI FT PATPLPGSRHPSPIRPTNPRRTTPCSSNHRTQTREFQPKQPQPKLLGRFKPPTEEFLQR FT QSPRSQQTYAYLLKYYTPQPQPPSPIRIDSLTLSERWAAELFRSPSPSRSYQHHPFSSP FT " FT CDS 86..5710 FT /codon_start=1 FT /note="ORF for replicase protein" FT /db_xref="GOA:P36304" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR008043" FT /db_xref="InterPro:IPR027351" FT /db_xref="UniProtKB/Swiss-Prot:P36304" FT /protein_id="BAA00532.1" FT /translation="MAFQLALDALASTSHKDPSLHPVLESVHDSLTDSLQTYPWMVPQD FT LQPFLLKSGIPINSFGSSPHPHPAHKTLETHLLFTHWMHLCTQPSSVLFMKPQKFMKLQ FT RKNKFFQHLHNYRLTPTDSVRFPSTSPHLPNTPFVFMHDALMYYQPEQILHLFHQVPQL FT TNLFCSLVTPPESHFTHLSLMPDLYTFTLKGQTLHYTPEGHSAGSYNQPITALSWLKIN FT SILSPNLNLSITILESWGPLHSILIQRGLPLPDPKLLVRSLPPFSRSPDPETDLVSFQV FT PKSVELPQATFLSQPLRHRLVPESVYNALFTYTRAVRTLRVSDPAGFVRTQSNKPEHKW FT VTPSAWDNLQTFALLNCPLRPNVVYHVLLNPLQKMKLYFSQHWRRLGVIAAPGLFCLSL FT LLRSQKWSLPLPKAKSISVFRRNLLLPPKPHRPPLLPHPEQMLQEFKLPWHRPPPKGKR FT NPFLTLLINLLHIPREICAGIRRYPSYYQSIQPKPLNPIQQFRNQLLAQLHTLPLPKKF FT LSILPRARKDIPLLPRMSFTTVNLPLQPPMWLAIGASLVPELAFLLSWLSGDVDLQTQH FT DIYHHHLHPENFTLSWTRTPYLALAPSPFLPYAHSPLPPLPVNSSPLFPPPPPLPPSQP FT PLSQGPATQAPSAQPTPGEPLLAPPTTELKPESSNPNNPNPSSSAGSNPPPKSSSSDNP FT PAPNKPTPTSSSTTPPSPNLPLQFGSIHSPFLSDGQLNYSALPPPQDPTNTTLSLLPEP FT KPPTEVQSPLMADPTCVGPAVSFSSLYPRDFFPNTASFLTRLRLSPPTPLPMPKNNCLL FT TAVAPSLHINPHRLWTSLQEVLPDSLLSNSEIDSVGMSTDLLTALSHLFNFQAVVHSER FT GDILFGLQSAKTVIHIYHTNGPPAHYSPPPKIIGSNSPPSSQQHPLEQAALRFKYQGSH FT LPFSSFHSFTTSVQHAKNLISNMKNGFDGVMSTIEPSIRHQPGHSPREKFIALDAMIDL FT ARPKTVSMFHLAGFAGCGKTKPLQSLLSTRPFHSFRVSTPTTELRNEWKKDMNLPASQA FT FRFCTWESSLLKQTKILVIDEIYKLPRGYLDLCILADPCLELVIILGDPLQGEYHSTSP FT HSSNHQLQSETTRLLPFIDHYCWWTYRVPSHIADLFSVPSFNRSEGHYQMAVRTADSYT FT PGHFNLVNSVATANAVIQLGFPATTISASQGVTHHNRVTILLDKHSRLLSPSNTLVALT FT RSTVGVEFLGDIGSLSGTNNSSDMFSRAIYRQPINLSSSFPRIFHLLPLLNKPISRRST FT RLIGSHSPIFHNPRLTNIHLPPHIPTSYSQDFVVSNPIFQGQADPRLDTHFLPPTRLPL FT QSELLPAQLSQTTKPTDSFTNNTPFTPVYPGENFENLAAFFLPAHDPELKEVTRRDQTS FT AQFPWFDRPFSLSCQPSSLIAAKHSPSQDPTLLPFSIPKRLRFRKSDNPHVLSAIDVLL FT GNQLFFNLCKAYRRNPTHVGPFNPALFAECIALNDYAQLSSKTQATLVANHSRSDPDWR FT HTAVKIFAKSQHKVNDASIFGNWKACQTLALMHDFVILSLGPVKKYQRIFDALDRPPHL FT YTHCGKSPADLSAWCQTHLTGQIKLTNDYTAFDQSQHGESVILEALKMKRLSIPSHLIQ FT LHVHLKTNVATQFGPLTCMRLTGEPGTYDDNSDYNLAVIHSQFDMKDIPVMVSGDDSLI FT DRQPPLAQSWEATKRLLHLRFKTEKTTHPLFCGYYTGSAGAIRNPLALFSKLMIAIDDE FT AIHDRRLSYLTEFSTGHQLGDALWTLLPESTQIYQSACFDYFCRHSPPHEKALLSSFEL FT PDSVISKISSSTKWLSKNAFYALPSKIRKAVIASRHSSSFPENPDVSQLEFELLQSFQF FT " FT misc_feature 5678..5693 FT /note="tymobox" FT misc_feature 5702..5705 FT /note="initiation box" FT misc_feature 5703 FT /note="virion protein mRNA start site" FT CDS 5711..6277 FT /codon_start=1 FT /note="ORF for virion protein" FT /db_xref="GOA:P36303" FT /db_xref="InterPro:IPR000574" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/Swiss-Prot:P36303" FT /protein_id="BAA00533.1" FT /translation="MATNHVLASQLPVNTKSSEIPLQSGTPPPTIIYPFQIEMASLGTA FT DASDSISIASNSLLASVTTLYRHAKLTSLKATIHPTGQAPAFPTTVALAWVPYNSTATS FT AQILSVYGGQMFCIGGSINSLSPIDVPCNLTNVNPIIKDSVTYSDTPKLLLYSIAQETA FT PTLATCSVTITGTLTLHSPLLQATA" FT variation 6285 FT /replace="t" FT /citation=[1] FT variation 6320..6321 FT /replace="" FT /citation=[1] FT variation 6338 FT /replace="tc" FT /citation=[1] FT variation 6342..6343 FT /replace="ct" FT /citation=[1] FT variation 6349 FT /replace="cg" FT /citation=[1] XX SQ Sequence 6362 BP; 1433 A; 2508 C; 958 G; 1463 T; 0 other; gtaacattac cagatcagcc ctcttaacag acaactgatc tttcctcaat taatctgtca 60 tctagtttgt gaaaactgat gtcaaatggc tttccaacta gctctcgatg ctctagcgtc 120 gacttcacac aaggacccct ccttgcaccc agtcctagag tcggttcacg actccttaac 180 ggactccctc caaacctacc cctggatggt cccacaagac ctccaaccct tccttctcaa 240 atcgggaatc ccgatcaact ccttcggaag ttccccccac ccccacccag cgcacaagac 300 gctggaaacc cacctactct tcacccactg gatgcatctt tgcacccagc cttcatctgt 360 cctcttcatg aagcctcaaa aattcatgaa gctccaaagg aagaacaagt tcttccaaca 420 tctccacaac taccgcctga ctcccaccga ttcagtgcgt tttccttcaa cctctcccca 480 cctcccaaac acccctttcg tgttcatgca cgatgctctg atgtactacc aacccgaaca 540 gatccttcat ctgtttcacc aagttccgca gttgaccaac ctcttctgct ctcttgtgac 600 cccaccagaa tcccacttca cccacctctc cctcatgccc gacctctaca ccttcaccct 660 gaaaggtcaa accctccatt acaccccaga gggacactcc gccggttcat acaaccagcc 720 cataacagcc ctctcctggc tgaaaatcaa ctccatcctc tccccaaatc tcaacctctc 780 catcacaatt ctggaatcct ggggacctct ccattccata ctgatacaaa gaggtctccc 840 cctcccagat ccgaagctgc tagttcgcag tcttcctcca ttctcccgct cccccgaccc 900 ggaaaccgac ctggtgtcct tccaggtccc aaagtccgtg gagctccctc aagcaacctt 960 cctctcccaa cccctcaggc accgcctcgt gccagagagc gtctacaacg ctctcttcac 1020 ctacacgcga gccgtcagaa cgctccgcgt ctccgacccc gcaggcttcg ttcggaccca 1080 atccaacaaa cccgaacaca agtgggtcac ccccagtgcg tgggacaacc tacaaacctt 1140 cgcgctgctc aactgccctc tccgaccaaa cgtggtgtac cacgttctcc tcaacccact 1200 ccagaaaatg aagctgtact tctcacagca ctggcgccgc ctcggcgtca tagccgctcc 1260 tggcctcttc tgcctttccc tccttcttcg ctcccagaag tggtctttgc ctcttccaaa 1320 ggcaaagtcc atctccgtct ttcgacgcaa cctccttctt ccccccaaac ctcatcgtcc 1380 ccccctcctc cctcacccag aacagatgct tcaggaattc aaactcccct ggcatcgccc 1440 ccctccaaaa ggaaagagaa atcccttcct cacccttctc atcaacctcc ttcacattcc 1500 aagagaaatc tgcgccggca ttcggcgcta cccctcttac taccaatcca tccaaccaaa 1560 accactcaac cccatccagc agttccgcaa ccaactgctg gcccaactcc acaccctccc 1620 cctaccaaaa aaattcctct ccatcctccc aagagccagg aaagacatcc ctctcctccc 1680 ccggatgtct ttcacgactg tcaaccttcc tctccaacct cccatgtggt tggctatcgg 1740 cgcctccttg gttccggaat tagccttcct tttaagctgg ctttctggag acgtcgatct 1800 ccaaacccag cacgacatct accaccacca cctccacccc gaaaacttca ctctgagctg 1860 gactcgaact ccttatctcg ctctagctcc ttctcccttt ctcccctatg ctcactcccc 1920 ccttccccct ctcccagtga acagctcccc actgtttccg ccccccccac cccttccccc 1980 atcccagcca cccctctccc agggtcccgc cacccaagcc ccatccgccc aaccaacccc 2040 cggcgaacca ctccttgctc ctccaaccac cgaactcaaa ccagagagtt ccaacccaaa 2100 caaccccaac ccaagctcct cggcaggttc aaacccccca ccgaagagtt cctccagcga 2160 caatcccccc gctcccaaca aacctacgcc tacctcctca agtactacac cccccagccc 2220 caacctccct ctccaattcg gatcgattca ctcacccttt ctgagcgatg ggcagctgaa 2280 ttattccgct ctccctcccc ctcaagatcc taccaacacc accctttctc ttctccctga 2340 accaaagccg ccaaccgaag ttcagtcccc cctaatggcg gatccgactt gcgtcggccc 2400 cgctgtttcc ttttccagcc tctacccaag agacttcttc cccaacaccg cctctttcct 2460 caccagactc agactttctc cacccactcc ccttccaatg cccaagaaca actgccttct 2520 caccgcagtc gccccttccc tccatataaa ccctcaccgt ctctggactt ccctccagga 2580 agtcctccca gattccctcc tctccaactc tgagatagac tcagtcggca tgtccaccga 2640 tcttctcaca gctctctccc acctcttcaa cttccaagcc gtcgtccaca gtgaacgtgg 2700 tgacatcctc tttggccttc agtccgccaa gactgtcatc cacatctacc acaccaacgg 2760 cccccccgct cattactccc ccccccccaa aatcatcggc tcgaactccc ctccttcaag 2820 ccaacaacat cccttggaac aagctgctct tcgcttcaag taccaaggct cccaccttcc 2880 tttctcttcc ttccactcct tcaccacctc ggttcaacac gccaagaacc tcatttctaa 2940 catgaaaaat ggttttgacg gcgtcatgtc aacaatcgaa ccgagcatca ggcatcaacc 3000 tggccactcc cccagagaaa aattcattgc acttgatgca atgatagatc tggccagacc 3060 caaaaccgtc tccatgttcc acttggccgg ctttgccggc tgtggaaaga ccaaaccact 3120 ccaatccctc ctctccactc gacctttcca ttcattccgc gtctctactc ccaccactga 3180 gctgcgaaac gaatggaaaa aagacatgaa cctccccgcc tcccaggcct tccgattctg 3240 cacctgggaa tcttctctcc tcaaacagac caagattctc gtcatagacg agatctataa 3300 gctcccccgt ggttacctcg acctctgcat tttggcagac ccctgtcttg aactggtcat 3360 cattctcggc gaccctctac aaggcgagta ccactccact tcccctcact cttctaacca 3420 tcagctgcag tccgagacca cccgacttct ccccttcatt gatcactact gttggtggac 3480 ttatcgtgtc ccctctcaca tagctgatct tttctccgtc ccaagcttca atcgaagcga 3540 gggacattac caaatggccg tccgcacagc agactcctac acccccggcc atttcaatct 3600 tgtcaacagc gttgccacag ccaacgccgt cattcaactt ggcttccctg caaccaccat 3660 cagcgccagt caaggagtca ctcaccacaa ccgagtgacc attttgctag acaagcactc 3720 tcgtcttctc tcccccagca acaccttggt tgccctcacc cgctccacag tcggagtcga 3780 gtttcttggt gacattggct ctttgtcagg caccaacaac tcatccgaca tgttctccag 3840 ggccatatac cgacagccca tcaacctctc ttcttctttc ccaagaattt tccaccttct 3900 ccctcttctg aacaaaccaa tttcccggag atccacccgc ctcatagggt ctcattcacc 3960 catcttccac aaccctaggc tcaccaacat ccatcttccc ccccacatcc ctacatccta 4020 ctctcaagac ttcgtcgtct ccaaccctat tttccagggc caggccgacc cccgtcttga 4080 cacccacttc ctccctccaa cccgtcttcc tcttcagtcc gagcttctcc cagctcaatt 4140 gagtcagact accaaaccca ctgactcttt caccaacaac acccctttca ccccggtcta 4200 ccctggcgaa aactttgaaa atctcgccgc cttcttcctc cccgctcacg accccgagtt 4260 aaaggaagtg accaggcgcg accaaacaag cgcccaattc ccttggttcg accgcccttt 4320 ctccctttcc tgtcagccct cctctctcat cgcagcaaaa cactcccctt cccaagaccc 4380 cactttgctg cctttctcaa ttccaaaaag actccgattc cggaagtctg acaaccccca 4440 cgtcctttcc gccatcgacg tcttgctagg caaccaactt ttcttcaatc tttgcaaggc 4500 ttaccgtcgt aaccccaccc acgtaggtcc ctttaacccg gctctgtttg ctgagtgcat 4560 cgccctcaac gattacgccc agctctcctc aaaaacccaa gccactctcg tggccaacca 4620 ctcccgttct gaccccgact ggcgccacac agcagtcaaa atttttgcga agtcccaaca 4680 taaagtcaac gacgcctcta tctttggcaa ctggaaagct tgtcaaactc tggctctcat 4740 gcacgacttc gtaattctca gcctaggccc agttaaaaaa tatcaacgca tctttgatgc 4800 tcttgaccgg cccccccacc tttacaccca ctgtggaaaa agcccagccg acctctccgc 4860 ttggtgccaa acccacctca caggtcaaat taagctaacc aacgactaca cagcttttga 4920 ccagtcccag catggagagt cagtaatctt agaagccctc aaaatgaaac gtctctccat 4980 tccttctcac ctcatccaac tgcacgttca cctcaaaacg aacgttgcaa cgcagttcgg 5040 ccctctgacc tgcatgcgcc tcactggcga acctggcacc tacgacgaca actcagacta 5100 caaccttgct gtcatccact ctcagtttga catgaaggac atacccgtca tggtgtctgg 5160 ggatgactct ctcatcgacc gtcaaccccc tttagctcag tcttgggaag caaccaaacg 5220 tcttctccat ctgcgattca agactgagaa gaccacccac cctctcttct gcgggtacta 5280 cactggctct gccggtgcca tccgtaatcc tctcgctctt ttttccaaac tcatgatcgc 5340 catcgacgat gaagcgatcc acgaccgccg cctaagttac cttacagaat tctccacagg 5400 ccatcaacta ggcgacgccc tctggactct tcttccagaa tccacccaaa tttaccagtc 5460 ggcatgtttt gactacttct gccgtcattc tccccctcat gaaaaggctc ttctatcatc 5520 ctttgaactg cctgactctg tcatctccaa aatctcttcc tccaccaagt ggctctcaaa 5580 gaacgctttc tatgctctgc cttcaaaaat acgcaaagcc gtgatcgcct cccgccactc 5640 ttcctccttc ccggaaaacc ctgacgtctc ccaactagag tttgaattgc ttcaatcctt 5700 tcaattctag atggccacca atcacgtcct cgcttcccaa ctcccagtga acaccaagtc 5760 ctctgaaatt cctcttcaga gtggcactcc accccccaca ataatctacc ctttccaaat 5820 cgagatggcc agccttggca cggccgatgc ttctgattcc atcagcatcg cctccaactc 5880 tctcctcgcc tccgtaacca ccttgtaccg gcatgccaaa ttgacctccc tcaaagctac 5940 catccaccca accggccaag ccccagcctt cccaaccacc gttgccctgg cctgggttcc 6000 ctacaactcc accgccacct ctgctcagat tctctccgtc tacggcggcc agatgttctg 6060 catcggcggc tccatcaact ctctctcccc aatcgacgtt ccctgtaacc tcaccaacgt 6120 caaccccatc atcaaagact cagtcactta ctctgacacc cccaagctcc tcctctattc 6180 catcgcccag gagacagctc ccaccctcgc tacctgttcc gtaaccatca ccggaaccct 6240 cactcttcat tctcctctcc ttcaggccac agcctgattc aggtcgccag tgcgacaccc 6300 gttcccacac aacgggcatt ggggtgcaac tcccccgtcc atcctggacg tcaccaggac 6360 ca 6362 //