GenBank-Updates@genbank.bio.net (03/07/91)
LOCUS MTYCGA 6362 bp ss-RNA VRL 07-MAR-1991 DEFINITION Kennedya yellow mosaic virus genome, complete sequence. ACCESSION D00637 KEYWORDS complete genome; overlapping protein; replicase protein; virion protein. SOURCE Kennedya yellow mosaic virus, Jervis Bay isolate, cDNA to viral RNA. ORGANISM Kennedya yellow mosaic virus Viridae; ss-RNA nonenveloped viruses; Isometric ss-RNA viruses; Tymovirus. REFERENCE 1 (sites) AUTHORS van Belkum,A., Bingkun,J., Rietveld,K., Pleij,C.W. and Bosch,L. TITLE Structural similarities among valine-accepting tRNA-like structures in tymoviral RNAs and elongator tRNAs JOURNAL Biochemistry 26, 1144-1151 (1987) STANDARD full staff_review REFERENCE 2 (bases 1 to 6362) AUTHORS Ding,S., Keese,P. and Gibbs,A. TITLE The nucleotide sequence of the genomic RNA of kennedya yellow mosaic tymovirus-Jervis Bay isolate: relationships with potex- and carlaviruses JOURNAL J. Gen. Virol. 71, 925-931 (1990) STANDARD full staff_review REFERENCE 3 (bases 5666 to 5713) AUTHORS Ding,S., Howe,J., Keese,P., Mackenzie,A., Meek,D., Osorio-Keese,M., Skotnicki,M., Srifah,P., Torronen,M. and Gibbs,A. TITLE The tymobox, a sequence shared by most tymoviruses: its use in molecular studies of tymoviruses JOURNAL Nucleic Acids Res. 18, 1181-1187 (1990) STANDARD full staff_review COMMENT [Biochemistry 26, 1144-1151 (1987)] sites. These data kindly submitted in computer readable form by: Shou-wei Ding Molecular & Evolutionary Systematics Research School of Biological Sciences Australian National University GPO Box 475 Canberra, A.C.T., 2601 Australia Phone: +61-62-49-4211 Email: shouwei@RSBS.ANU.OZ.AU Fax: +61-62-49-4437 Telex: AA62219 The 3'-terminal sequence (6261-6362 nt) of the genome reported in [J. Gen. Virol. 71, 925-931 (1990)] can be folded into a five-stem secondary structure, so-called tRNA-like structure. FEATURES Location/Qualifiers CDS 79..2340 /note="ORF for overlapping protein" CDS 86..5710 /note="ORF for replicase protein" misc_signal 5678..5693 /note="tymobox" misc_signal 5702..5705 /note="initiation box" misc_feature 5703..5703 /note="virion protein mRNA start site" CDS 5711..6277 /note="ORF for virion protein" variation 6285..6285 /note="c in [J. Gen. Virol. 71, 925-931 (1990)]; t in [Biochemistry 26, 1144-1151 (1987)]" variation 6320..6321 /note="tg in [J. Gen. Virol. 71, 925-931 (1990)]; deletion in [Biochemistry 26, 1144-1151 (1987)]" variation 6338..6338 /note="t in [J. Gen. Virol. 71, 925-931 (1990)]; tc in [Biochemistry 26, 1144-1151 (1987)]" variation 6342..6343 /note="tc in [J. Gen. Virol. 71, 925-931 (1990)]; ct in [Biochemistry 26, 1144-1151 (1987)]" variation 6349..6349 /note="c in [J. Gen. Virol. 71, 925-931 (1990)]; cg in [Biochemistry 26, 1144-1151 (1987)]" BASE COUNT 1433 a 2508 c 958 g 1463 t ORIGIN 5' end of viral genome. 1 gtaacattac cagatcagcc ctcttaacag acaactgatc tttcctcaat taatctgtca 61 tctagtttgt gaaaactgat gtcaaatggc tttccaacta gctctcgatg ctctagcgtc 121 gacttcacac aaggacccct ccttgcaccc agtcctagag tcggttcacg actccttaac 181 ggactccctc caaacctacc cctggatggt cccacaagac ctccaaccct tccttctcaa 241 atcgggaatc ccgatcaact ccttcggaag ttccccccac ccccacccag cgcacaagac 301 gctggaaacc cacctactct tcacccactg gatgcatctt tgcacccagc cttcatctgt 361 cctcttcatg aagcctcaaa aattcatgaa gctccaaagg aagaacaagt tcttccaaca 421 tctccacaac taccgcctga ctcccaccga ttcagtgcgt tttccttcaa cctctcccca 481 cctcccaaac acccctttcg tgttcatgca cgatgctctg atgtactacc aacccgaaca 541 gatccttcat ctgtttcacc aagttccgca gttgaccaac ctcttctgct ctcttgtgac 601 cccaccagaa tcccacttca cccacctctc cctcatgccc gacctctaca ccttcaccct 661 gaaaggtcaa accctccatt acaccccaga gggacactcc gccggttcat acaaccagcc 721 cataacagcc ctctcctggc tgaaaatcaa ctccatcctc tccccaaatc tcaacctctc 781 catcacaatt ctggaatcct ggggacctct ccattccata ctgatacaaa gaggtctccc 841 cctcccagat ccgaagctgc tagttcgcag tcttcctcca ttctcccgct cccccgaccc 901 ggaaaccgac ctggtgtcct tccaggtccc aaagtccgtg gagctccctc aagcaacctt 961 cctctcccaa cccctcaggc accgcctcgt gccagagagc gtctacaacg ctctcttcac 1021 ctacacgcga gccgtcagaa cgctccgcgt ctccgacccc gcaggcttcg ttcggaccca 1081 atccaacaaa cccgaacaca agtgggtcac ccccagtgcg tgggacaacc tacaaacctt 1141 cgcgctgctc aactgccctc tccgaccaaa cgtggtgtac cacgttctcc tcaacccact 1201 ccagaaaatg aagctgtact tctcacagca ctggcgccgc ctcggcgtca tagccgctcc 1261 tggcctcttc tgcctttccc tccttcttcg ctcccagaag tggtctttgc ctcttccaaa 1321 ggcaaagtcc atctccgtct ttcgacgcaa cctccttctt ccccccaaac ctcatcgtcc 1381 ccccctcctc cctcacccag aacagatgct tcaggaattc aaactcccct ggcatcgccc 1441 ccctccaaaa ggaaagagaa atcccttcct cacccttctc atcaacctcc ttcacattcc 1501 aagagaaatc tgcgccggca ttcggcgcta cccctcttac taccaatcca tccaaccaaa 1561 accactcaac cccatccagc agttccgcaa ccaactgctg gcccaactcc acaccctccc 1621 cctaccaaaa aaattcctct ccatcctccc aagagccagg aaagacatcc ctctcctccc 1681 ccggatgtct ttcacgactg tcaaccttcc tctccaacct cccatgtggt tggctatcgg 1741 cgcctccttg gttccggaat tagccttcct tttaagctgg ctttctggag acgtcgatct 1801 ccaaacccag cacgacatct accaccacca cctccacccc gaaaacttca ctctgagctg 1861 gactcgaact ccttatctcg ctctagctcc ttctcccttt ctcccctatg ctcactcccc 1921 ccttccccct ctcccagtga acagctcccc actgtttccg ccccccccac cccttccccc 1981 atcccagcca cccctctccc agggtcccgc cacccaagcc ccatccgccc aaccaacccc 2041 cggcgaacca ctccttgctc ctccaaccac cgaactcaaa ccagagagtt ccaacccaaa 2101 caaccccaac ccaagctcct cggcaggttc aaacccccca ccgaagagtt cctccagcga 2161 caatcccccc gctcccaaca aacctacgcc tacctcctca agtactacac cccccagccc 2221 caacctccct ctccaattcg gatcgattca ctcacccttt ctgagcgatg ggcagctgaa 2281 ttattccgct ctccctcccc ctcaagatcc taccaacacc accctttctc ttctccctga 2341 accaaagccg ccaaccgaag ttcagtcccc cctaatggcg gatccgactt gcgtcggccc 2401 cgctgtttcc ttttccagcc tctacccaag agacttcttc cccaacaccg cctctttcct 2461 caccagactc agactttctc cacccactcc ccttccaatg cccaagaaca actgccttct 2521 caccgcagtc gccccttccc tccatataaa ccctcaccgt ctctggactt ccctccagga 2581 agtcctccca gattccctcc tctccaactc tgagatagac tcagtcggca tgtccaccga 2641 tcttctcaca gctctctccc acctcttcaa cttccaagcc gtcgtccaca gtgaacgtgg 2701 tgacatcctc tttggccttc agtccgccaa gactgtcatc cacatctacc acaccaacgg 2761 cccccccgct cattactccc ccccccccaa aatcatcggc tcgaactccc ctccttcaag 2821 ccaacaacat cccttggaac aagctgctct tcgcttcaag taccaaggct cccaccttcc 2881 tttctcttcc ttccactcct tcaccacctc ggttcaacac gccaagaacc tcatttctaa 2941 catgaaaaat ggttttgacg gcgtcatgtc aacaatcgaa ccgagcatca ggcatcaacc 3001 tggccactcc cccagagaaa aattcattgc acttgatgca atgatagatc tggccagacc 3061 caaaaccgtc tccatgttcc acttggccgg ctttgccggc tgtggaaaga ccaaaccact 3121 ccaatccctc ctctccactc gacctttcca ttcattccgc gtctctactc ccaccactga 3181 gctgcgaaac gaatggaaaa aagacatgaa cctccccgcc tcccaggcct tccgattctg 3241 cacctgggaa tcttctctcc tcaaacagac caagattctc gtcatagacg agatctataa 3301 gctcccccgt ggttacctcg acctctgcat tttggcagac ccctgtcttg aactggtcat 3361 cattctcggc gaccctctac aaggcgagta ccactccact tcccctcact cttctaacca 3421 tcagctgcag tccgagacca cccgacttct ccccttcatt gatcactact gttggtggac 3481 ttatcgtgtc ccctctcaca tagctgatct tttctccgtc ccaagcttca atcgaagcga 3541 gggacattac caaatggccg tccgcacagc agactcctac acccccggcc atttcaatct 3601 tgtcaacagc gttgccacag ccaacgccgt cattcaactt ggcttccctg caaccaccat 3661 cagcgccagt caaggagtca ctcaccacaa ccgagtgacc attttgctag acaagcactc 3721 tcgtcttctc tcccccagca acaccttggt tgccctcacc cgctccacag tcggagtcga 3781 gtttcttggt gacattggct ctttgtcagg caccaacaac tcatccgaca tgttctccag 3841 ggccatatac cgacagccca tcaacctctc ttcttctttc ccaagaattt tccaccttct 3901 ccctcttctg aacaaaccaa tttcccggag atccacccgc ctcatagggt ctcattcacc 3961 catcttccac aaccctaggc tcaccaacat ccatcttccc ccccacatcc ctacatccta 4021 ctctcaagac ttcgtcgtct ccaaccctat tttccagggc caggccgacc cccgtcttga 4081 cacccacttc ctccctccaa cccgtcttcc tcttcagtcc gagcttctcc cagctcaatt 4141 gagtcagact accaaaccca ctgactcttt caccaacaac acccctttca ccccggtcta 4201 ccctggcgaa aactttgaaa atctcgccgc cttcttcctc cccgctcacg accccgagtt 4261 aaaggaagtg accaggcgcg accaaacaag cgcccaattc ccttggttcg accgcccttt 4321 ctccctttcc tgtcagccct cctctctcat cgcagcaaaa cactcccctt cccaagaccc 4381 cactttgctg cctttctcaa ttccaaaaag actccgattc cggaagtctg acaaccccca 4441 cgtcctttcc gccatcgacg tcttgctagg caaccaactt ttcttcaatc tttgcaaggc 4501 ttaccgtcgt aaccccaccc acgtaggtcc ctttaacccg gctctgtttg ctgagtgcat 4561 cgccctcaac gattacgccc agctctcctc aaaaacccaa gccactctcg tggccaacca 4621 ctcccgttct gaccccgact ggcgccacac agcagtcaaa atttttgcga agtcccaaca 4681 taaagtcaac gacgcctcta tctttggcaa ctggaaagct tgtcaaactc tggctctcat 4741 gcacgacttc gtaattctca gcctaggccc agttaaaaaa tatcaacgca tctttgatgc 4801 tcttgaccgg cccccccacc tttacaccca ctgtggaaaa agcccagccg acctctccgc 4861 ttggtgccaa acccacctca caggtcaaat taagctaacc aacgactaca cagcttttga 4921 ccagtcccag catggagagt cagtaatctt agaagccctc aaaatgaaac gtctctccat 4981 tccttctcac ctcatccaac tgcacgttca cctcaaaacg aacgttgcaa cgcagttcgg 5041 ccctctgacc tgcatgcgcc tcactggcga acctggcacc tacgacgaca actcagacta 5101 caaccttgct gtcatccact ctcagtttga catgaaggac atacccgtca tggtgtctgg 5161 ggatgactct ctcatcgacc gtcaaccccc tttagctcag tcttgggaag caaccaaacg 5221 tcttctccat ctgcgattca agactgagaa gaccacccac cctctcttct gcgggtacta 5281 cactggctct gccggtgcca tccgtaatcc tctcgctctt ttttccaaac tcatgatcgc 5341 catcgacgat gaagcgatcc acgaccgccg cctaagttac cttacagaat tctccacagg 5401 ccatcaacta ggcgacgccc tctggactct tcttccagaa tccacccaaa tttaccagtc 5461 ggcatgtttt gactacttct gccgtcattc tccccctcat gaaaaggctc ttctatcatc 5521 ctttgaactg cctgactctg tcatctccaa aatctcttcc tccaccaagt ggctctcaaa 5581 gaacgctttc tatgctctgc cttcaaaaat acgcaaagcc gtgatcgcct cccgccactc 5641 ttcctccttc ccggaaaacc ctgacgtctc ccaactagag tttgaattgc ttcaatcctt 5701 tcaattctag atggccacca atcacgtcct cgcttcccaa ctcccagtga acaccaagtc 5761 ctctgaaatt cctcttcaga gtggcactcc accccccaca ataatctacc ctttccaaat 5821 cgagatggcc agccttggca cggccgatgc ttctgattcc atcagcatcg cctccaactc 5881 tctcctcgcc tccgtaacca ccttgtaccg gcatgccaaa ttgacctccc tcaaagctac 5941 catccaccca accggccaag ccccagcctt cccaaccacc gttgccctgg cctgggttcc 6001 ctacaactcc accgccacct ctgctcagat tctctccgtc tacggcggcc agatgttctg 6061 catcggcggc tccatcaact ctctctcccc aatcgacgtt ccctgtaacc tcaccaacgt 6121 caaccccatc atcaaagact cagtcactta ctctgacacc cccaagctcc tcctctattc 6181 catcgcccag gagacagctc ccaccctcgc tacctgttcc gtaaccatca ccggaaccct 6241 cactcttcat tctcctctcc ttcaggccac agcctgattc aggtcgccag tgcgacaccc 6301 gttcccacac aacgggcatt ggggtgcaac tcccccgtcc atcctggacg tcaccaggac 6361 ca //