ID EF521829; SV 1; linear; genomic RNA; STD; VRL; 5666 BP. XX AC EF521829; 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 005PAV, complete genome. XX KW . XX OS Barley yellow dwarf virus PAV OC Viruses; Riboviria; Luteoviridae; Luteovirus. XX RN [1] RP 1-5666 RA Beckett R.J., Miller W.A.; RT "BYDV/CYDV Global Sequencing Project"; RL Unpublished. XX RN [2] RP 1-5666 RA 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; 7f35aef38e9f223041399acfb5c7f1af. DR EuropePMC; PMC4422679; 25946037. DR RFAM; RF00434; BTE. DR RFAM; RF01508; BYDV_5_UTR. XX FH Key Location/Qualifiers FH FT source 1..5666 FT /organism="Barley yellow dwarf virus PAV" FT /host="Bromus secalinus" FT /isolate="005PAV" FT /serotype="PAV" FT /mol_type="genomic RNA" FT /country="USA:Missouri" FT /collected_by="Laura Sweets" 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:A5A2Q6" FT /db_xref="InterPro:IPR002166" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2Q6" FT /protein_id="ABP68684.1" FT /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFKA FT HDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKTGVTEAWTDF FT FTKSRGGVYAPLSCEPTRQELEAKSEKLERLLEEQHQFEVRAAKKYIKEKGRGFINCWN FT DLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKEVVKE FT RNGEEEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLNADELSLATIARYVE FT NVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVLDSVGFL FT EGLCTASGFESPFPILGLPEIAVTDGARLRKVSSNIRYLSQTHLGLVYKAPNASLHNAL FT VAVERRVFTVGKGDKAIYPPRPEHDIFTDTMDYFQKSIIEEVGYCRTYPAQLLANSYSA FT GKRAMYHKAIASLRTVPYHQKDANVQAFLKKEKHWMTKDIAPRLICPRSKRYNIILGTR FT LKFNEKKIMHAIDSVFGSPTVLSGYDNFKQGRIIAKKWQKFACPVAIGVDASRFDQHVS FT EQALKWEHGIYNGIFGDSELALALEHQITNNIKMFVEDKMLRFKVRGHRMSGDINTSMG FT NKLIMCGMMHAYFKKLGVEAELCNNGDDCVIITDRANEKLFDGMYDHFLQYGFNMVTEK FT PVYELEQLEFCQSKPVSINGKYRMVRRPDSIGKDSTTLLSMLNQSDVKSYMSAVAQCGL FT VLNAGVPILESFYKCLYRSSGYKKVSEEFIKNVISYGTDERLQGRRTYNETPITNHSRM FT SYWESFGVDPKIQQIVERYYDGLTVSAQLQSVKVTTPHLQSILLSIPENHSQNEY" FT CDS 142..1161 FT /codon_start=1 FT /product="P1" FT /note="ORF1" FT /db_xref="GOA:A5A2Q7" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2Q7" FT /protein_id="ABP68683.1" FT /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFKA FT HDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKTGVTEAWTDF FT FTKSRGGVYAPLSCEPTRQELEAKSEKLERLLEEQHQFEVRAAKKYIKEKGRGFINCWN FT DLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKEVVKE FT RNGEEEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLNADELSLATIARYVE FT NVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVLDSVGF" FT CDS 2858..4810 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:A5A2Q8" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR002929" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2Q8" FT /protein_id="ABP68687.1" FT /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGSEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTAGAIFIELDTACKQSALGSYINSFTISRTASKVFRAEAINGKEF FT QESTIDQFWMLYKANGTTTDTAGQFIITMSVSLMTAKXVDSSTSEPKPAPEPTPIPQPT FT PAPQPAPEPTPAPVPKRFFEYIGTPTGTISTRENSDSISVSKLGGQSMQYIENEKCETK FT VIDSFWSTNNNVSAQAAFVYPVPEGSYSVNISCEGFQSVDHIGGNEDGYWIGLIAYSNS FT SGDNWGVGNYKGCSFKNFLATNTWRPGHKDLKLNDCQFTDGQIVERDAVMSFHVEATGT FT DACFYLMAPKTMKTDKYNYVVSYGGYTNKRMEFGTISVTCDESDVEAERITRHAETPIR FT SKHILVSEQYEQPLPTVIDQGLCDVQTPEQEQTLVDEEDKQTVSTEPDIALMEYEAATA FT EIPDAEEDVLPSKEQLSSKPVDTSGNKIPKPKEPEVLGTYQGQNIYPEDVPPIARQKLR FT EAAKAPSTLLYEKTPKKSNNFLTRFVEANRSPTTPAAPTVSTASNMTREQLAEYTRIRK FT SLGLTAAKEYKAQFQ" FT CDS 2858..3460 FT /codon_start=1 FT /product="coat protein" FT /note="ORF3; P3" FT /db_xref="GOA:A5A2Q9" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2Q9" FT /protein_id="ABP68685.1" FT /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGSEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTAGAIFIELDTACKQSALGSYINSFTISRTASKVFRAEAINGKEF 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:A5A2R0" FT /protein_id="ABP68686.1" FT /translation="MAQEGGAVEQFGQWLWSNPIEQDPDDEMVDAREEEGQILYLDQQA FT GLRYSYSQSTTLKPTLPGQSNSAPVYRNAQRFQTEYLSPTTVTRSQVSVLSLSHTRPQL FT RPALSLLNSTPRASNQPWVATLIPSQSAGPPQRSSEPKRLTGRNSRNQR" FT CDS 4917..5042 FT /codon_start=1 FT /product="P6" FT /note="ORF6; highly variable sequence" FT /db_xref="GOA:A5A2Q5" FT /db_xref="InterPro:IPR009426" FT /db_xref="UniProtKB/TrEMBL:A5A2Q5" FT /protein_id="ABP68688.1" FT /translation="MDDLHVIAVCIFALTVLTGLGAVIGCCAGCLLPPPSFRSSV" FT primer_bind complement(5651..5666) FT /note="derived from viral specific primer used for RT-PCR" XX SQ Sequence 5666 BP; 1671 A; 1363 C; 1388 G; 1244 T; 0 other; agtgaagatt gaccatctca caaaagctgt tacgtgcttg taacacacta cacactcgtt 60 ttgtgttcga ggagtagttg caacaacggt ccccttattg cctgacaagc tgagggccac 120 ccttctgtcc ccaccgccat catgtttttc gaaatactta taggagctag cgctaaggcg 180 gtcaaagact tcatcagcca ttgttactct cgtttgaaat ctatatatta ttctttcaaa 240 cgatggctga tggagatatc tgggcagttt aaggcccatg acgcctttgt caacatgtgt 300 ttcgggcaca tggctgacat tgaggacttc gaggcagagc tcgctgagga gtttgccgag 360 agggaggatg aggtggaaga ggcaaggagc ctcttgaaac tgctggtcgc ccaaaaatct 420 aaaactgggg tgaccgaggc ttggaccgac ttctttacga agtcgagagg tggcgtctat 480 gcgccacttt cctgcgagcc taccaggcag gaactagaag ctaagagcga gaagctcgaa 540 agacttctag aggaacagca ccaattcgag gtgcgagcgg ccaagaaata catcaaggaa 600 aagggccgcg gcttcatcaa ctgctggaac gacttgcgaa gtcgtctcag gctggtgaag 660 gacgtcaagg atgaggcgaa ggacaacgcc agagctgctg ccaagattgg agcagaaatg 720 ttcgccccag ttgacgtaca ggacctctac agctttacag aggtcaagaa ggtggagacc 780 ggcctcatga aggaggtcgt gaaagaaaga aacggtgaag aagagaaaca cctcgagccc 840 atcatggaag aggtgagatc tatcaaggat accgccgaag ccagggacgc cgcctccacc 900 tggataacag agacagttaa gctgaagaac tcaacgctta acgccgatga attgtctctg 960 gccaccatcg cccgctacgt tgaaaacgta ggggacaaat tcaaactcga cattgccagc 1020 aagacatatc taaagcaagt cgcatcgatg tctgtgccaa ttccaactaa caaggacatc 1080 aaattgaaga tggtgctgca gagtcctgaa gcacgtgcca ggcgggaacg catggacgtg 1140 cttgactctg tgggttttta gaggggctct gtaccgcctc tggttttgag agcccattcc 1200 caattctcgg gctgccagag attgcggtca cagacggggc ccggctccgt aaggttagta 1260 gtaatattag ataccttagc caaacccacc taggtcttgt atataaggca ccaaatgcct 1320 ccctgcacaa cgcgcttgta gcagtggaga gaagagtttt tacagtagga aagggggaca 1380 aagcaatcta ccccccccgc ccagagcatg atattttcac tgatacgatg gattacttcc 1440 aaaaatccat catagaagag gtgggatact gtagaacata tccagcgcaa ctcctggcta 1500 acagctatag cgcaggaaag agggccatgt atcacaaagc cattgcatca ctgaggactg 1560 tcccttatca tcagaaggat gccaatgtgc aagctttcct gaaaaaggaa aaacattgga 1620 tgaccaagga catcgccccc cgattgattt gcccccgcag caagcggtac aacatcatcc 1680 taggaactcg tttgaaattc aacgagaaga agatcatgca cgctatagat agtgtgtttg 1740 gatcccccac tgtgctttct ggctatgaca actttaaaca aggaagaatc atagccaaga 1800 agtggcaaaa gtttgcatgc cccgtcgcta tcggcgtgga tgctagccgc tttgaccaac 1860 acgtgtcaga gcaggcgctt aagtgggaac acgggatata caatggaatc ttcggagaca 1920 gcgaactggc tcttgcactt gaacaccaaa ttaccaacaa catcaagatg tttgttgaag 1980 ataaaatgct taggttcaag gtaagaggcc acagaatgtc cggtgacatt aataccagca 2040 tgggaaataa gctcataatg tgcggcatga tgcatgcata tttcaagaag ctgggtgttg 2100 aagctgaact ttgtaacaac ggagacgact gtgtcatcat cactgataga gccaatgaga 2160 agctctttga tggcatgtac gaccatttcc tccagtatgg cttcaacatg gtgaccgaaa 2220 aaccagttta cgaactggaa caattggagt tttgccagtc aaaaccggtc tctattaatg 2280 gaaagtatag aatggtcaga aggcccgata gcataggcaa agatagcaca acactactga 2340 gcatgctcaa tcaatccgac gtcaagagct acatgtcggc tgttgctcag tgtggcctgg 2400 tgctcaacgc tggagtaccc atacttgaaa gtttctataa atgcctatat agaagctcgg 2460 ggtacaagaa agtgagtgag gaattcatca aaaacgttat atcgtatgga acagatgaga 2520 gactacaagg tagacgtacc tataatgaaa cacctatcac aaaccacagt agaatgtcct 2580 actgggaatc attcggagtt gaccctaaga tacagcaaat cgtcgagagg tactacgacg 2640 gtcttacggt aagtgcccaa ctccagagcg tgaaggtgac gactccacat ctgcaatcaa 2700 tactactttc cataccggaa aaccactcac aaaacgaata ttaattacca gatcttagct 2760 gggtttggga tagggttcat agttagtata ccctgtacat tagctctcgc gtactttatt 2820 tataataaag tttcagacac cactagagag gtggtgaatg aattcagtag gccgtagagg 2880 acctagacgc gcaaatcaaa atggcacaag aaggaggcgc cgtagaacag ttcggccagt 2940 ggttgtggtc caacccaatc gagcaggacc cagacgacga aatggtcgac gcaagggaag 3000 aggaggggca aatcctgtat ttagaccaac aggcgggtct gaggtattcg tattctcagt 3060 cgacaacctt aaagccaact cttccggggc aatcaaattc ggccccagtc tatcgcaatg 3120 cccagcgctt tcagacggaa tacttaagtc ctaccaccgt tacaagatca caagtatccg 3180 tgttgagttt aagtcacacg cgtccgcaac tacggccggc gctatcttta ttgaactcga 3240 caccgcgtgc aagcaatcag ccctgggtag ctacattaat tccttcacaa tcagcaggac 3300 cgcctcaaag gtcttcagag ccgaagcgat taacgggaag gaattccagg aatcaacgat 3360 agaccagttt tggatgctct acaaggccaa tggaaccacc actgacacgg caggacaatt 3420 catcatcacg atgagtgtca gtttgatgac ggccaaatag gtagactcct caacatcgga 3480 accgaaacct gcaccagaac ctacaccaat cccacagcct acaccagctc cacagcccgc 3540 acccgaaccg actcctgcac ctgtccccaa aagattcttt gagtatatcg gcactccaac 3600 cggtacaatc tcaacaagag agaactctga cagtatttct gtcagcaaac ttggtgggca 3660 gtcaatgcag tacatagaga acgagaagtg tgaaacaaag gtcattgact ccttctggag 3720 cactaacaac aacgtgtctg cacaggcagc cttcgtttat ccagtgccag aaggatcata 3780 cagtgtgaac atttcgtgcg aaggctttca atccgttgac cacataggag gcaacgagga 3840 tggttattgg attggtttaa ttgcctactc caattcgtca ggagacaatt ggggggtagg 3900 caactacaaa gggtgcagtt tcaagaactt cttggcaacc aatacttgga gaccaggcca 3960 taaggatctc aagttgaacg attgccagtt cacagatgga caaatagttg agagggatgc 4020 cgtgatgtct ttccatgtgg aagcaacagg tactgatgcc tgtttctatc tcatggctcc 4080 caaaacaatg aaaactgaca aatacaacta tgttgtctca tatggagggt acacaaacaa 4140 acggatggaa tttggtacca tatctgtgac atgtgatgaa tccgatgttg aggcagaacg 4200 cataacaagg cacgctgaaa cacctatacg ttccaaacac attcttgtgt ctgaacagta 4260 cgagcaacct ttacccaccg taatcgatca gggcttgtgt gatgtgcaaa ctcccgagca 4320 agaacaaaca ctggtggatg aagaagacaa acagactgtt tccacagaac ctgatatagc 4380 actcatggaa tatgaagctg caacagccga aattccggat gctgaagagg atgttttgcc 4440 ctccaaggaa cagctgtctt ctaaaccggt ggacacgtcc ggcaacaaaa tacctaagcc 4500 caaggaacct gaagtacttg gaacatacca gggacagaat atttaccctg aagacgtgcc 4560 accaattgcg cggcaaaaac tacgtgaagc cgcaaaagca ccctccacat tactctacga 4620 gaaaactccc aagaagagca acaatttctt gactcgtttt gtggaggcga ataggtcccc 4680 tacaactcca gctgccccaa cagtgtcaac tgcatccaac atgacaaggg aacagcttgc 4740 ggagtatact agaattagga aatcccttgg actcacagca gcgaaggaat acaaggcgca 4800 atttcagtga aggcaacacc actagcacaa atcggatcct gggaaacagg cagaactacg 4860 gttcataagc tcgggtaggc cgtcaaccta ccgccgtatc gtattgtgtt tggccgatgg 4920 atgacctcca cgttatcgcc gtttgtattt ttgctctaac tgtgttgaca gggttaggcg 4980 cggtgatcgg ctgttgtgcc ggttgccttc tcccccctcc ctccttccgc tcttctgttt 5040 aagcaaaaat ctctcggtct gtgcgagaga aactcaaaaa tatcggggga gctccggctc 5100 agtgagggga ttaacgaccc ccagtaaagg ctggtcttgg cggacttgaa taacccgcta 5160 taggacgaag tggtaaccgc cactgatcaa atggtgaaca tgcttctgtg ttgtacactg 5220 ccccggagcc caccgggtta acaaggctat tccaccagct cgatgaaatg agagtggagt 5280 ggacggagtg ggtgacttcg atatgtacac ccgatcgtca ggattgaaga cgttaaaact 5340 caacgaccta gtgcaagtcg ttaaactgac tagggtggat acaccacacc cggcctaact 5400 tgtaggcata cccacgatac gaaacgtggg tctcttggag ccactacctg tgatgcaagg 5460 tagggtatga gtcttagcaa gctctgtgcc aggagatgga cataaaccat agcaatcctg 5520 caagtcatct tggcgaacca taggtgaacc gtgccacggg cctgcctacc gaaaggaaaa 5580 gcagtatcca acacagcaat gtgttggggg ttacaccctt cggggtactc ttaacgctga 5640 tactcgaaag agcagttcgg caaccc 5666 //