ID L25299; SV 1; linear; genomic RNA; STD; VRL; 5723 BP. XX AC L25299; XX DT 02-NOV-1993 (Rel. 37, Created) DT 14-NOV-2006 (Rel. 89, Last updated, Version 5) XX DE Cereal yellow dwarf virus - RPV complete genome. XX KW coat protein; complete genome; fusion protein. XX OS Cereal yellow dwarf virus RPV OC Viruses; Riboviria; Luteoviridae; Polerovirus. XX RN [1] RP 1-5723 RX PUBMED; 1840612. RA Vincent J.R., Lister R.M., Larkins B.A.; RT "Nucleotide sequence analysis and genomic organization of the NY-RPV RT isolate of barley yellow dwarf virus"; RL J. Gen. Virol. 72(Pt 10):2347-2355(1991). XX RN [2] RP 1-5723 RA Beckett R.J., Vincent J.R., Lister R.M., Miller W.A.L.; RT "Completion of the nucleotide sequence of the genomic RNA of barley yellow RT dwarf virus, RPV serotype"; RL Unpublished. XX DR MD5; fad4621d385114a3c638f47492b23cb2. DR EuropePMC; PMC112128; 10864632. DR EuropePMC; PMC1641740; 16928757. DR EuropePMC; PMC2583970; 18937850. DR EuropePMC; PMC3784903; 24426276. DR EuropePMC; PMC4422679; 25946037. DR RFAM; RF01074; RF_site1. XX FH Key Location/Qualifiers FH FT source 1..5723 FT /organism="Cereal yellow dwarf virus RPV" FT /isolate="NY" FT /mol_type="genomic RNA" FT /db_xref="taxon:2170100" FT CDS 173..943 FT /codon_start=1 FT /standard_name="29K protein" FT /note="label:ORF1" FT /note="putative" FT /db_xref="GOA:Q89458" FT /db_xref="InterPro:IPR006755" FT /db_xref="UniProtKB/TrEMBL:Q89458" FT /citation=[1] FT /protein_id="AAA42867.1" FT /translation="MFIAQPCGRVLVFDVASHTPSFFTRYSVELSLRALDPLFTRAVTD FT FRYTQNEIDLFCVSLGFLLPILLTGESYSWRGHLNLPLSYTELLVRWGLAVGYFPAFSA FT DGDIRQNPELRIDLSTMSTRSFYEQFLLRYNTSGLAKAIVGQQECFQSGMESFKRFLHY FT RLTCFESCLPRPRWESPLAPGPYLDRAFEATLLGRMVGHNQLLFTGLSSDITRYYNELV FT VEGVPVAFWDAAGITLHHAGEEYFPNSYIQKILQ" FT CDS 324..2288 FT /codon_start=1 FT /standard_name="71K protein" FT /note="label:ORF2" FT /note="probably expressed as a fusion with ORF3 via a FT translational frameshift.; putative" FT /db_xref="GOA:Q89645" FT /db_xref="InterPro:IPR000382" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR018019" FT /db_xref="UniProtKB/TrEMBL:Q89645" FT /citation=[1] FT /protein_id="AAA42868.1" FT /translation="MKSIYFVCLLAFCCQFSSQENLTLGAVTLTSPFLTPNYLFDGGSQ FT WGTSLPSPLMVTFDRTQNSASTCPPCQPALSTSSSYSDIIQVGWQKLSLDSKSAFKAAW FT SLLKDSCTTASRALKAAFHDLVGKALWLLVLIWTGLLRQLFSAVWSAITNYSLPVCLLI FT SLGIITSWLWKACRWLFGTLPALLCITLVKNIFRILTFKRFFNEKTVSGYDSYSIPSTP FT PKRSVIMMRRQNKEHIGYANCIRLFDGRNAIVTVAHNIEEGCSFYSSRTSGSIPITEFR FT VIFESKTMDIAILVGPINWESILGCKGVHFTTADRLAECPAALYLLDSDGQWRSNSAKI FT CGHFDNFAQVLSNTKVGHSGAGYFYGKTLVGLHKGHPGKDFNFNLMAPLPGIPGLTSPQ FT YVVESDPPQGLVFPEEVTESIEAAIKEATMYKNVFANRGRGAFKSKSGINWEDIEDESG FT NGKAAASAVTNAAAANKVIATPGVAKSQKKTAVPSSPKAPQPPAASQPTSTTGSRTPIC FT PIATATSPDTAVPTGPSQQEIMNNIMNLLVQRIDMSKIEKSIVDQVANQALKKPRGKRG FT SKKRPAAGKSSSPTSTPGTYQHPNKKSQASNRLGNSPPSTTRAPAANQNGGENSVPNTL FT SWVRKLPVSGGPKSGHPLN" FT CDS <1658..3559 FT /codon_start=1 FT /product="fusion protein" FT /function="putative replicase" FT /note="label:ORF3" FT /note="Probably expressed as a fusion protein from ORF2 via FT a translational frameshift. ORF3 starts after preceding FT stop codon, not at AUG.; putative" FT /db_xref="GOA:Q65863" FT /db_xref="InterPro:IPR001795" FT /db_xref="InterPro:IPR007094" FT /db_xref="UniProtKB/TrEMBL:Q65863" FT /citation=[1] FT /protein_id="AAA42866.1" FT /translation="KRHQLGRHRRRVGKREGGGVRRNKRSSGKQGYRHPRRRQVPKEDC FT CSFFAEGTAAPRCIPTHQHNWEQNSYMSNCYCNIPGHGCAYWTIAARNHEQHNESAGPE FT DRYVEDREIDSGPSRESSSEETTRQAWLKETARSWQKFFADIYTWDVSTSKQEVPGFEQ FT VGKFSPQYYPRPRSESEWGRKLCAEHPLLGEKTAGFGWPQVGASAELTSLRLQAARWLE FT RSESAKIPSDAARENVINRTVQAYSNCKTNTPRCTRGELSWETFKIDFLEAIKSLQLDA FT GVGLPMITAGLPTHRGWVEDPDRLPVLAQLTFDRLLTMSKASLEARSPEQLVKENLCDP FT IRLFVKQEPHKQSKLDEGRYRLIMSVSLIDQLVARVLFQRQNKSEIALWSAIPSKPGFG FT LSTEDQVSKFMDVLAGNVGASPEEVCDNWRDLLVPTDCSGFDWSVSDWMLADDMEVRNR FT LTIDCNELTRHLRAVWLQGISNSVLCLSDGTMLAQRVPGVQKSGSYNTSSTNSRVRVMA FT AYHCGASWAIAMGDDALEAPDTDLSKYKDLGFKVEVSGELEFCSRIFKTPNLAIPVNEN FT KMLYRLIHGYNPECGNFEVVQNYLNAAVSVLHELRHDRELCLKLQEWLISDVTTKLN" FT misc_RNA 1694..1700 FT /product="shifty heptanucleotide" FT /function="proposed frameshift site" FT /note="frameshift site identified by comparison with PLRV FT and BWYV; putative" FT /citation=[2] FT CDS 3745..4359 FT /codon_start=1 FT /standard_name="22K protein" FT /function="coat protein" FT /note="label:ORF4" FT /note="Thought to be expressed as a fusion protein with 43K FT via stop codon read-through." FT /db_xref="GOA:P27578" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/Swiss-Prot:P27578" FT /citation=[1] FT /experiment="experimental evidence, no additional details FT recorded" FT /protein_id="AAA42869.1" FT /translation="MSTVVLRSNGNGSRRRRQRVARRRPAARTQPVVVVASNGPARRGR FT RRRPVGPRRGRTPRSGGGSRGETFVFSKDSLAGNSSGSITFGPSLSEYPAFQNGVLKAY FT HEYKITNCVLQFVSEASSTAAGSISYELDPHCKASSLASTINKFTITKTGARSFPAKMI FT NGLEWHPSDEDQFRILYKGNGASSVAGSFKITLRVQLQNPK" FT CDS 3770..4231 FT /codon_start=1 FT /standard_name="17K protein" FT /function="putative nucleic acid-binding protein" FT /note="label:ORF5" FT /note="Function is based on homology to PLRV 17K protein FT which binds single-stranded nucleic acids. See Tacke et FT al., (1991) J. Gen. Virol. 72, 2035-2038.; putative" FT /db_xref="GOA:P27579" FT /db_xref="InterPro:IPR001964" FT /db_xref="UniProtKB/Swiss-Prot:P27579" FT /citation=[1] FT /protein_id="AAA42870.1" FT /translation="MAMVRADADRESLGEGLLQERSQWLWSLPTAQPGAEDADDQLVLG FT EEELQDLEEEAVARHSFSQRIHSRATPLEVSPSGRLYQSIRHSRMEYSRPTMNIRSQIV FT SYSSSARPLPQQPAPSLTSWTPIAKHLHSHQQSISSQSPKLVRGASQRR" FT CDS <4360..5556 FT /codon_start=1 FT /standard_name="read-through protein" FT /function="possibly aphid transmission" FT /note="label:ORF6" FT /note="Probably expressed as a C-terminal fusion to the FT coat protein via read-through of the coat protein stop FT codon.; putative" FT /db_xref="GOA:Q65862" FT /db_xref="InterPro:IPR002929" FT /db_xref="InterPro:IPR011050" FT /db_xref="UniProtKB/TrEMBL:Q65862" FT /citation=[2] FT /protein_id="AAA42865.1" FT /translation="VDAEPGPSPGPSPDPPPPPSPSPEPAPAKEERFIVYSGVAHTIIS FT AQSTDDSIIVRDIPDQRFRYVENENFYWFQIAAQWYSNTNTKAVPMFVFPVPIGEWSVE FT ISTEGYQATSSTTDPNKGRIDGLIAYDNSSEGWNIGAGSNVTITNNKADNSWKYGHPDL FT EINSCHFNQNQVLEKDGIISFHVKATEKEANFFLVAPPVQKTSKYNYAVSYGAWTDRDM FT EFGLITVTLDEKRGSGSPTRKSLRAGHAGVTTTTDLVALPEMENSGIETSETPSAPVTS FT SKAPLPTVSDSESEDDPLSAAPDVGFGGTRLLIDTDIKTIPDPDVADAFVNSAHVGVDP FT WAEVRAFKRAQRPPRGPSSVASSSLSGGSLRGSLRPKTEDPKDSSKSKSRKWSLGSLR" XX SQ Sequence 5723 BP; 1459 A; 1519 C; 1361 G; 1384 T; 0 other; acaaagatta ccgaggggtg tcttcaacag ttcagacgct caggccttta acgctttcag 60 ccttcaaagc ttaagctcac tgttcccgcg ctgtttcgac gcttccagct cacagcccat 120 aaaaccccct cctcccgctc tagcgatcaa ctcgcgtgtt cgttattaac gcatgttcat 180 cgcccaacct tgcgggcgag ttcttgtgtt cgacgtcgcc tcccacacgc catcgttctt 240 cactcgttat agtgttgaac tctcgctccg tgctctagat ccactcttca cgcgagcagt 300 aacagatttc cgatacaccc aaaatgaaat cgatttattt tgtgtgtctc ttggctttct 360 gttgccaatt ctcctcacag gagaatctta ctcttggcgc ggtcacctta acctccccct 420 ttcttacacc gaactacttg ttcgatgggg gctcgcagtg gggtacttcc ctgccttctc 480 cgctgatggt gacattcgac agaacccaga actccgcatc gacctgtcca ccatgtcaac 540 ccgctctttc tacgagcagt tcctactcag atataataca agtgggttgg caaaagctat 600 cgttggacag caagagtgct ttcaaagcgg catggagtct tttaaaagat tcctgcacta 660 ccgcctcacg tgctttgaaa gctgccttcc acgacctcgt tgggaaagcc ctttggctcc 720 tggtccttat ctggacaggg cttttgaggc aactcttctc ggccgtatgg tcggccataa 780 ccaactactc tttaccggtt tgtcttctga tatcactagg tattataacg agttggttgt 840 ggaaggcgtg ccggtggctt tttgggacgc tgccggcatt actttgcatc acgctggtga 900 agaatatttt ccgaattctt acattcaaaa gattcttcaa tgagaaaact gtctcaggtt 960 atgacagtta ttcgattccc agcacccctc cgaagcggag cgtcatcatg atgcgacgcc 1020 aaaataagga gcacattgga tatgcgaact gtattcgtct tttcgacgga cggaacgcaa 1080 ttgtcacagt tgctcacaat atagaggagg gttgctcttt ctattcctca cggactagtg 1140 gttccatccc aatcactgaa tttcgcgtta tctttgaaag caaaaccatg gatatcgcca 1200 ttctggtggg acccatcaat tgggaatcga ttctcggatg caaaggagtc cactttacca 1260 ccgctgaccg cttagcagaa tgtccagcgg ctctttatct tcttgatagc gatggtcagt 1320 ggcgctcaaa ctcggcgaag atttgtggtc atttcgacaa cttcgcccaa gtcttgtcca 1380 acactaaagt cggtcactcc ggtgccggtt acttctatgg caagactctc gttggcctcc 1440 ataaaggcca tcctggcaaa gatttcaatt ttaatctgat ggctcctttg ccaggaatac 1500 ccggcttgac ctccccgcag tacgtcgtgg aatccgaccc cccccaggga ttggttttcc 1560 ccgaagaagt cactgaatca atcgaagccg cgattaagga ggcaacaatg tacaagaatg 1620 tcttcgccaa tagaggacgt ggcgccttta aatctaaaag cggcatcaac tgggaagaca 1680 tcgaagacga gtcgggaaac gggaaggcgg cggcgtccgc cgtaacaaac gcagcagcgg 1740 caaacaaggt tatcgccacc cccggcgtcg ccaagtccca aaagaagact gctgttcctt 1800 cttcgccgaa ggcaccgcag ccccccgctg catcccaacc caccagcaca actgggagca 1860 gaactcctat atgtccaatt gctactgcaa catccccgga cacggctgtg cctactggac 1920 catcgcagca agaaatcatg aacaacataa tgaatctgct ggtccagagg atcgatatgt 1980 cgaagatcga gaaatcgata gtggaccaag tcgcgaatca agctctgaag aaaccacgcg 2040 gcaagcgtgg ctcaaagaaa cggcccgcag ctggcaaaag ttcttcgccg acatctacac 2100 ctgggacgta tcaacatcca aacaagaagt cccaggcttc gaacaggttg ggaaattctc 2160 cccccagtac tacccgcgcc cccgcagcga atcagaatgg gggagaaaac tctgtgccga 2220 acaccctctc ttgggtgaga aaactgccgg tttcgggtgg ccccaagtcg gggcatccgc 2280 tgaactgaca tctcttcggc tgcaagcagc tcgctggctc gaacgttccg agtcagctaa 2340 aattccatca gatgctgcta gagagaacgt gatcaatcgc accgtacagg cgtactcgaa 2400 ttgcaaaacc aatacgccga ggtgcacacg aggtgagtta agttgggaaa cgttcaaaat 2460 tgacttcctt gaagccatca aatcgctcca acttgacgct ggcgtcggat taccgatgat 2520 cactgcgggg ctccccaccc atcgtgggtg ggttgaagac ccagatcgtt tgccagtgtt 2580 agctcagctt acctttgacc gcctacttac gatgtcaaag gcaagcttgg aagctcgctc 2640 cccggagcaa ctcgtgaagg agaatctctg tgatcctatt cgtctctttg taaaacaaga 2700 gccacataaa cagagtaagc ttgatgaggg acgttaccgc ctcatcatgt cagtctcctt 2760 gattgatcaa ttggtagccc gggttttgtt tcaaagacaa aacaaatccg aaatcgcgtt 2820 gtggagcgcg attccgtcaa aacccggttt tggattatcc accgaggacc aagtttcaaa 2880 attcatggat gtcctcgccg ggaacgttgg tgcgtctccc gaagaggtct gcgacaattg 2940 gcgcgacctg ttggttccta cggactgttc cggttttgac tggtcagtct ccgattggat 3000 gctcgcggat gacatggagg tgagaaatcg cctaacaatc gactgcaacg agctcaccag 3060 acaccttagg gctgtttggc ttcagggcat atcaaactcg gttttatgcc tgtcggatgg 3120 aaccatgtta gctcaacgag tacccggcgt gcagaaaagt ggttcgtaca acacttcgtc 3180 cacaaactca cgcgttcggg tcatggctgc ctatcactgt ggcgcctcgt gggctatcgc 3240 tatgggtgat gatgccctgg aagctccaga cacagacttg tcaaaatata aagatctggg 3300 cttcaaagtc gaggttagcg gagagttgga attctgctcg cgcattttca agacccctaa 3360 cctcgccatt ccggttaatg aaaacaaaat gttgtaccgc ttgatccacg ggtacaatcc 3420 ggaatgtggc aattttgagg tggttcaaaa ctatctcaat gcagctgtct cagtgctgca 3480 tgagctccga catgatcggg agctttgcct aaaacttcag gagtggttga tttctgacgt 3540 caccacaaaa ctaaactgag cacaaaacta gccggacaaa cgtaagttgc aagtgccgga 3600 agtcaagtct tacacacaag cccaacattg attttcattt gttagcggga tttgcccttg 3660 gatttatatc ctcaatcccc atttcagttg ttggtgttta tctagtctac cttaaggttt 3720 cgacccacat tcgtgaaatt gttaatgagt acggtcgtcc ttagatccaa tggcaatggt 3780 tcgcgcagac gcagacagag agtcgctcgg cgaaggcctg ctgcaagaac gcagccagtg 3840 gttgtggtcg cttccaacgg cccagccagg cgcggaagac gccgacgacc agttggtcct 3900 cggcgaggaa gaactccaag atctggagga ggaagccgtg gcgagacatt cgttttctca 3960 aaggattcac tcgcgggcaa ctcctctgga agtatcacct tcgggccgtc tctatcagag 4020 tatccggcat tccagaatgg agtactcaag gcctaccatg aatataagat cacaaattgt 4080 gtcttacagt tcgtcagcga ggcctcttcc acagcagccg gctccatctc ttacgagttg 4140 gacccccatt gcaaagcatc ttcactcgca tcaacaatca ataagttcac aatcaccaaa 4200 actggtgcgc ggagcttccc agcgaagatg atcaacgggt tagagtggca cccctcagat 4260 gaggatcagt tccgaattct ttacaaaggg aacggtgctt cttctgtggc tgggtctttt 4320 aagatcactc ttagagtcca gctacaaaac ccaaaatagg tagacgcgga acccggtccc 4380 agtccaggac catcacccga cccccccccc ccaccttcac cgtccccaga acctgctcct 4440 gctaaggagg aacgatttat cgtctattca ggggtggctc acacaatcat cagtgcccaa 4500 agcactgatg attctatcat agttagagat atcccagacc aacggtttag atacgttgag 4560 aacgaaaact tctactggtt tcagatagct gctcaatggt actcaaatac gaacacaaaa 4620 gcagttccga tgtttgtctt tccagtcccc atcggggaat ggtcagtcga aatatcaact 4680 gagggatatc aagctacgtc tagtaccacg gatcctaaca agggccgcat tgacgggctc 4740 atagcttatg ataactcaag tgaagggtgg aatatcgggg ctggaagtaa cgttaccatc 4800 acgaacaaca aagctgacaa tagttggaaa tacggtcatc ctgatctgga aatcaactct 4860 tgtcacttca accagaatca agttttggag aaagatggta ttatttcttt ccatgtcaag 4920 gctacagaga aggaagctaa tttcttctta gtcgcccctc cagtccagaa aacctcgaag 4980 tataactacg ctgtctcata tggagcgtgg acggacagag acatggaatt cggattgatt 5040 acagtcacgt tagatgagaa acgtggctcg ggttccccca ctcgcaaaag cttacgcgct 5100 ggacacgcgg gagtaacgac caccactgat ttggtggcgt taccggagat ggaaaactcc 5160 ggtatagaaa catctgaaac cccgtcagct ccggtcacca gctcaaaagc accgttgcca 5220 actgtctcgg attcggagtc agaagacgat ccgttatcag ccgcaccaga tgtaggcttt 5280 ggcggaactc gtcttttgat tgatactgat atcaaaacaa tacccgatcc ggacgttgct 5340 gatgccttcg tgaacagcgc tcacgtgggt gtggatccat gggcagaagt tcgagcgttt 5400 aagagagctc agcgtcctcc ccgtggaccg tcatcggttg ctagcagcag cctctctgga 5460 ggttcgctgc gtggaagcct cagaccgaaa actgaggatc cgaaagattc atccaaatct 5520 aaatctagaa aatggtctct cggaagtctg cgatgactat aaactaaggc gaaggaaaat 5580 gccttaaatc acccgtcaag cgacgttaaa aggaggatta agaccctccc cccttcctgg 5640 ttcaacaacc ttgttctagg ctaggttctt gtctttaaaa gaagaagcta cttgagagat 5700 tccgatctct tgggagcttt ggt 5723 //