ID EF521840; SV 1; linear; genomic RNA; STD; VRL; 5675 BP. XX AC EF521840; XX DT 24-APR-2007 (Rel. 91, Created) DT 24-APR-2007 (Rel. 91, Last updated, Version 1) XX DE Barley yellow dwarf virus - PAV isolate 048, complete genome. XX KW . XX OS Barley yellow dwarf virus PAV OC Viruses; Riboviria; Luteoviridae; Luteovirus. XX RN [1] RP 1-5675 RA Beckett R.J., Miller W.A.; RT "BYDV/CYDV Global Sequencing Project"; RL Unpublished. XX RN [2] RP 1-5675 RA Beckett R.J., Miller W.A.; RT ; RL Submitted (27-MAR-2007) to the INSDC. RL Plant Pathology, Iowa State University, 470 Bessey Hall, Ames, IA 50011, RL USA XX DR MD5; f1d54c1111ea8501f418ff43ec51b02c. DR EuropePMC; PMC4422679; 25946037. DR RFAM; RF00434; BTE. DR RFAM; RF01508; BYDV_5_UTR. XX FH Key Location/Qualifiers FH FT source 1..5675 FT /organism="Barley yellow dwarf virus PAV" FT /isolate="048" FT /serotype="PAV" FT /mol_type="genomic RNA" FT /country="USA:Oregon" FT /db_xref="taxon:2169986" FT primer_bind 1..19 FT /note="derived from viral specific primer used for RT-PCR" FT CDS join(142..1158,1158..2744) FT /codon_start=1 FT /ribosomal_slippage FT /product="RNA-dependent RNA polymerase" FT /note="RdRp; P1-P2 fusion created by -1 ribosomal FT frameshift" FT /db_xref="GOA:A5A2X2" FT /db_xref="InterPro:IPR002166" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2X2" FT /protein_id="ABP68749.1" FT /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFKA FT HDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKSGVTEAWTDF FT FTKSRGGVYAPLSCEPTRQELEVKSEKLERLLEEQHQFEVRAAKKYIKEKGRGFINCWN FT DLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKEVVKE FT KNGEDEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLNADELSLATIARYVE FT NVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVLDSVGFL FT EGLCTASGFESPFPILGLPEIAVTDGARLRKVSSNIRYLSQTHLGLVYKAPNASLHNAL FT VAVERRVFTVGKGDKAIYPPRPEHDIFTDTMDYFQKSIIEEVGYCKTYPAQLLANSYSA FT GKRAMYHKAIASLKTVPYHQKDANVQAFLKKEKHWMTKDIAPRLICPRSKRYNIILGTR FT LKFNEKKIMHAIDSVFGSPTVLSGYDNFKQGRIIAKKWQKFACPVAIGVDASRFDQHVS FT EQALKWEHGIYNGIFGDNELALALEHQITNNIKMFVEDKMLRFKVRGHRMSGDINTSMG FT NKLIMCGMMHAYFKKLGVEAELCNNGDDCVIITDRANEKLFDGMYDHFLQYGFNMVTER FT PVYELEQLEFCQSKPVSINGKYRMVRRPDSIGKDSTTLLSMLNQSDVKSYMSAVAQCGL FT VLNAGVPILESFYKCLYRSSGYKKVSEEFIKNVISYGTDERLQGRRTYNETPITNHSRM FT SYWESFGVDPKIQQIVERYYDGLTVSAQLQSVKVTTPHLQSILLSIPENHSQNEY" FT CDS 142..1161 FT /codon_start=1 FT /product="P1" FT /note="ORF1" FT /db_xref="GOA:A5A2X3" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2X3" FT /protein_id="ABP68750.1" FT /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFKA FT HDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKSGVTEAWTDF FT FTKSRGGVYAPLSCEPTRQELEVKSEKLERLLEEQHQFEVRAAKKYIKEKGRGFINCWN FT DLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKEVVKE FT KNGEDEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLNADELSLATIARYVE FT NVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVLDSVGF" FT CDS 2858..4813 FT /codon_start=1 FT /transl_except=(pos:3458..3460,aa:OTHER) FT /product="aphid transmission protein" FT /note="P3-P5 fusion created by ribosomal read-through of FT the ORF3 stop codon" FT /db_xref="GOA:A5A2X4" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR002929" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2X4" FT /protein_id="ABP68751.1" FT /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTAGAIFIELDTACKQSALGSYINSFTISKTASKTFRSEAINGKEF FT QESTIDQFWMLYKANGTTTDTAGQFIITMSVSLMTAKXVDSSTPEPKPAPEPTPTPQPT FT PAPQPAPEPTPAPVPKRFFEYIGTPTGTISTRENTDSISVSKLGGQSMQYIENEKCETK FT VIDSFWSTNNNVSAQAAFVYPVPEGSYSVNISCEGFQSVDHIGGNEDGYWIGLIAYSNS FT SGDNWGVGNYKGCSFKNFLATNTWRPGHKDLKLNDCQFTDGQIVERDAVMSFHVEATGK FT DASFYLMAPKTMKTDKYNYVVSYGGYTNKRMEFGTISVTCDESDVEAERITRHAETPIR FT SKHILVSERYAEPLPTIVNQGLCDVKTPEQEQTLVDEDDRQTVSTESDIALQEYEAATA FT EIPDAEEDVLPSKEQLSSKPMDTSGNLIPKPKEPEVLGTYQGQNIYPEDVPPMARQKLR FT EAANAPSTLLYERRTPKKSSNFLSRLVQANRSPTTPSAPSVSTTSNMTREQLREYTRIR FT NSSGITAAKAYKAQFQ" FT CDS 2858..3460 FT /codon_start=1 FT /product="coat protein" FT /note="ORF3; P3" FT /db_xref="GOA:A5A2X5" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2X5" FT /protein_id="ABP68752.1" FT /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTAGAIFIELDTACKQSALGSYINSFTISKTASKTFRSEAINGKEF FT QESTIDQFWMLYKANGTTTDTAGQFIITMSVSLMTAK" FT CDS 2901..3362 FT /codon_start=1 FT /product="movement protein" FT /note="P4; ORF4 translated via a leaky scanning mechanism" FT /db_xref="InterPro:IPR001964" FT /db_xref="UniProtKB/TrEMBL:A5A2X6" FT /protein_id="ABP68753.1" FT /translation="MAQEGGAVEQFGQWLWSNPIEQDPDDEMVDAREEEGQILYLDQQA FT GLRYSYSQLTTLKPTPPGQSNSAPVYRNAQRFQTEYSSPTIVTRSQVSELSLSHTRPPL FT RQALSLLSSTPRASNQPWVATLIPSPSARPPPRPSGQRQLMGRNSRNQR" FT CDS 4920..5048 FT /codon_start=1 FT /product="P6" FT /note="ORF6; highly variable sequence" FT /db_xref="InterPro:IPR009426" FT /db_xref="UniProtKB/TrEMBL:A5A2X7" FT /protein_id="ABP68754.1" FT /translation="MEDLHVIAVCILALTVLSGVGAVLSCCRWCCNSPFPPSRASV" FT primer_bind complement(5660..5675) FT /note="derived from viral specific primer used for RT-PCR" XX SQ Sequence 5675 BP; 1674 A; 1364 C; 1386 G; 1251 T; 0 other; agtgaagatt gaccatctca caaaagctgt tacgtgcttg taacacacta cgcgcccgtt 60 ttgtattcgg gaagcagttg cgaaaacggt ccccttattg cctgacaagc taagggccac 120 ccttcttacc ccaccgccac catgtttttc gaaatactaa taggcgctag cgctaaggcg 180 gtcaaagact tcatcagcca ttgttactct agactaaaat ctatatacta ctctttcaaa 240 cgatggctga tggagatatc tgggcaattt aaggcccatg acgcctttgt caacatgtgc 300 tttgggcaca tggctgacat tgaggacttc gaggcggaac tcgctgaaga gttcgctgag 360 agggaggatg aggtggaaga ggcgaggagc ctcttgaaac tgctggtcgc ccaaaaatct 420 aaatctgggg tgaccgaggc ttggaccgac ttcttcacga agtcgagagg tggtgtttat 480 gcaccacttt cctgcgagcc taccaggcag gaactagaag tcaagagcga gaagctcgag 540 cggcttctag aagaacagca ccagttcgag gtgcgcgcgg ccaaaaaata catcaaagag 600 aaaggccgag gcttcatcaa ctgttggaac gacttgagaa gtcgtctcag gttggtgaag 660 gacgtcaagg acgaggcgaa ggataacgcc agagctgctg ccaagattgg agcagaaatg 720 ttcgcccccg ttgacgtgca ggacctctac agtttcacag aggtcaagaa ggtggagacc 780 ggcctcatga aggaggtcgt gaaagagaaa aacggcgaag atgagaaaca cctcgaaccc 840 atcatggaag aggtgagatc cattaaggac accgccgaag ccagggacgc cgcctccact 900 tggataacag agacagttaa gctgaagaac tcaacgctta acgcagatga actgtctcta 960 gccaccatcg cccgctacgt tgaaaacgta ggggataaat tcaaactcga cattgctagt 1020 aaaacatatc ttaagcaagt cgcatcgatg tctgtaccaa ttccaaccaa caaagacatc 1080 aaattgaaga tggtgctgca gagtcctgaa gcacgtgcca ggcgggaacg catggacgtg 1140 cttgactctg tgggttttta gaggggctct gtaccgcctc tggttttgag agcccattcc 1200 ctattctcgg gctaccagag atcgcggtca cagacggagc ccggctccgt aaggttagta 1260 gtaatattag ataccttagc caaacccatc taggtcttgt atataaggca ccaaatgcct 1320 ccctgcacaa cgcgcttgtg gcagtggaga gaagagtttt tacagtagga aagggggaca 1380 aagcaatcta ccccccccgc cctgagcacg acattttcac tgacacgatg gattactttc 1440 aaaaatccat tatagaagag gtgggatact gtaaaacata tccagcgcaa ctcctggcta 1500 atagctatag cgcgggaaag agggccatgt atcacaaagc cattgcatcc ttgaaaactg 1560 tcccttatca tcagaaggat gccaatgtgc aagctttcct gaagaaggaa aaacattgga 1620 tgaccaagga catcgccccc cgattgattt gcccccgcag taagcggtac aatatcatcc 1680 taggaactcg tttgaaattc aacgagaaga agatcatgca cgccatcgat agtgtgtttg 1740 gatcccccac tgtgctttct ggttatgata acttcaaaca aggaagaatc atagccaaga 1800 agtggcaaaa gtttgcatgc cccgtcgcca tcggcgtgga tgctagccgc tttgaccagc 1860 atgtgtcaga gcaggcgctt aagtgggaac acgggatata caatggaatc ttcggagaca 1920 acgaactggc tcttgcactt gaacatcaaa ttaccaacaa catcaagatg tttgttgaag 1980 acaaaatgct taggttcaag gtaagaggcc acagaatgtc cggtgacatt aataccagca 2040 tgggaaacaa gctcataatg tgcggcatga tgcacgcata tttcaagaag ctgggtgttg 2100 aagctgaact atgcaacaac ggagacgact gtgtcatcat cactgacaga gccaatgaga 2160 agctcttcga tggcatgtac gaccatttcc tccagtatgg cttcaacatg gtgaccgaaa 2220 gaccagttta cgaactggaa caattggagt tttgccagtc aaaaccggtc tctattaatg 2280 gaaagtatag aatggtcaga aggcccgata gcataggcaa agatagcaca acactactga 2340 gcatgctcaa tcaatccgac gtcaagagct acatgtcggc tgtcgctcag tgtggtttgg 2400 tgctcaacgc tggagtaccc atacttgaaa gtttctataa atgcctatat agaagctcgg 2460 ggtacaaaaa agtgagtgag gaatttatta aaaacgtcat atcgtatgga acagatgaga 2520 gactacaagg tagacgtacc tataacgaaa cacctatcac aaaccacagt agaatgtcct 2580 actgggaatc attcggagtt gaccctaaga tacagcaaat cgtcgagagg tactacgacg 2640 gtcttacggt aagtgcccaa ctccagagtg tgaaggtgac gactccacat ctgcaatcaa 2700 tactgctttc cataccggaa aaccactcac aaaacgaata ttaattacca aatcttagct 2760 gggtttggga tagggtttat agttagtata ccctgtacat tagctctcgc gtactttatt 2820 tacaataaag tttcagacac cactagagag gtggtgaatg aattcagtag gccgtagagg 2880 acctagacgc gcaaatcaaa atggcacaag aaggaggcgc cgtagaacag ttcggccagt 2940 ggttgtggtc caacccaatc gagcaggacc cagacgacga aatggtcgac gcaagggaag 3000 aggaggggca aatcctgtat ttagaccaac aggcgggact gaggtattcg tattctcagt 3060 tgacaacctt aaagccaact cctccggggc aatcaaattc ggccccagtc tatcgcaatg 3120 cccagcgctt tcagacggaa tactcaagtc ctaccatcgt tacaagatca caagtatccg 3180 agttgagttt aagtcacacg cgtccgccac tacggcaggc gctatcttta ttgagctcga 3240 caccgcgtgc aagcaatcag ccctgggtag ctacattaat tccttcacca tcagcaagac 3300 cgcctccaag accttccggt cagaggcaat taatgggaag gaattccagg aatcaacgat 3360 agaccaattt tggatgctct acaaggccaa tggaaccacc actgacacgg caggacaatt 3420 tatcattacg atgagtgtca gtttgatgac ggccaaatag gtagactcct caacaccgga 3480 accaaaacct gcaccggaac caacaccaac cccccagcca acgccggctc cgcagcccgc 3540 acctgaacca actcctgcac ctgttcccaa aagattcttc gagtatatcg gaactcctac 3600 cggtacaatc tcgactagag agaacactga cagtatatct gtcagcaagc tcggtggaca 3660 gtcgatgcag tatattgaga atgagaagtg tgaaacgaaa gtcatagatt ccttttggag 3720 cactaacaat aacgtttctg cgcaagcagc tttcgtttat ccagtgccag agggatcata 3780 cagcgttaac atttcgtgcg aaggctttca gtcagttgac cacatcggtg gcaacgagga 3840 cggctattgg attggtttaa ttgcctactc caattcgtct ggcgataatt ggggagttgg 3900 caactacaaa gggtgcagtt ttaagaattt cttggcaacc aacacttgga gaccaggcca 3960 caaagatctc aagttgaatg attgccagtt cacagatgga caaatagttg aaagggacgc 4020 cgtgatgtct ttccacgtag aagcaacagg caaggacgcc agcttctacc tcatggctcc 4080 caaaacaatg aaaactgaca aatacaacta tgttgtctca tatggagggt acacaaacaa 4140 gcgaatggaa ttcggtacca tatctgtgac atgtgatgaa tccgatgttg aggcagaacg 4200 aataacaagg cacgctgaaa cgcccatacg ttctaaacac attcttgtgt ctgagcggta 4260 tgcggaacca ttgcccacca tagtcaacca aggcttgtgt gatgtgaaaa ctcccgagca 4320 agaacaaaca ctggtggatg aagatgacag acaaactgtt tctactgaat ctgatatagc 4380 actccaggag tatgaggctg caacagctga gattccggat gctgaagagg acgttttgcc 4440 ctccaaggaa cagttgtctt caaaaccaat ggatacgtct ggtaatttaa taccaaaacc 4500 caaggaacct gaagtacttg ggacatacca aggacagaat atttatcctg aagacgtacc 4560 tccgatggcg cggcagaaat tgagagaagc cgcgaacgcg ccttccacgc tactctatga 4620 aagaagaacc ccaaagaaga gtagtaactt tttatctaga cttgtacaag cgaataggtc 4680 ccctactact ccctctgccc catccgtgtc aactacttca aacatgacaa gggagcagct 4740 ccgggagtac actagaatta gaaattccag cggaatcaca gcagcaaagg cgtacaaggc 4800 gcaattccag tgaagacaac accactagca caaatcggat cctgggaaac aggcagaact 4860 tcggttcata agctcgggta ggctgtcaac ctaccgccgt atcgtattgt gtttggccga 4920 tggaggatct tcacgttatc gccgtttgta ttcttgcctt gactgtgctc tctggggtag 4980 gcgctgtttt gagttgctgc cgttggtgct gcaactctcc ttttcctccc tcccgcgctt 5040 ctgtttaagc aaaagactct cgatctgtgc gagagacaat caaaaatatc gagggagctt 5100 cggctcagtg aggggattaa cgaaccccag taatggctgg tcctggcgga cataaataac 5160 ccgctatagg acgaagtggt agccaccact gatcaaacgg caaacatgct tctgtgttat 5220 acactgcccc ggagcctacc gggtcaacaa ggctatccca ccaactcgat gaaatgagag 5280 tggagtgggc ggagtgggtg acttcgtgat gtacacccga tcgtcaggat tgaagacgtt 5340 aaaactcgcc gacctagtgc aagtcgttaa actgactcgg gtggatacac cacacccggc 5400 caggcatgca ggcataccca cgatacgaaa cgtgggtctc ctggagccac tacctgtgat 5460 gcaaggtagg gtatgagtct tagcaagctc tgtgccagga gatggacata aaccatagca 5520 atcctgtatg tattgtcact ggtaaatcat aggtgaaccg tgccacgggc ctgcctaccg 5580 aaaggaaaag cagtatccaa cacagcaatg tgttgggggt tacaccctgc ggggtactct 5640 taacgctgac actcgaaaga gcagttcggc aaccc 5675 //