ID EF521838; SV 1; linear; genomic RNA; STD; VRL; 5666 BP. XX AC EF521838; 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 047, 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 XX RN [1] RP 1-5666 RA Beckett R.J., Miller W.A.; RT "BYDV/CYDV Global Sequencing Project"; RL Unpublished.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 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; 44a80b972fdfa8b618f8f22b0994ea4a. 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 /isolate="047" FT /serotype="PAV" FT /mol_type="genomic RNA" FT /country="USA:New York" 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:A5A2W0" FT /db_xref="InterPro:IPR002166" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2W0" FT /protein_id="ABP68737.1" FT /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFKA FT HDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKTGVTEAWTDF FT FTKSRGGVYAPLSCEPTRQELEAKSEKLERLLEEQHQFEVRAAKKYIKEKGRGFINCWN FT DLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKEVVKE FT RNGEEEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLNADELSLATIARYVE FT NVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVLDSVGFL FT EGLCTASGFESPFPILGLPEIAVTDGARLRKVSSNIRYLSQTHLGLVYKAPNASLHNAL FT VAVERRVFTVGKGDKAIYPPRPEHDIFTDTMDYFQKSIIEEVGHCRTYPAQLLANSYSA 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="ABP68738.1" 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:A5A2W2" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR002929" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2W2" FT /protein_id="ABP68739.1" FT /translation="MNSVGRRGPRRANQNGPRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTAGAIFIELDTACKQSALGSYINSFTISRTASKVFRAEAINGKEF FT QESTIDQFWMLYKANGTTTDTAGQFIITMSVSLMTAKXVDSSTPEPKPAPGPTPTPQPT FT PAPQPAPEPTPAPVPKRFFEYIGTPTGTISTRENSDSISVSKLGGQLMQYIENEKCETK FT VIDSFWSTNNNVSAQAAFVYPVPEGSYSVNISCEGFQSVDHIGGNEDGYWIGLIAYSNS FT SGDNWGVGNYKGCSFKNFLATNTWRPGHKDLKLNDCQFTDGQIVERDAVMSFHVEATGT FT DACFYLMAPKTMKTDKYNYVVSYGGYTNKRMEFGTISVTCDESDVEAERITRHAETPIR FT SKHILVSEQYEQPLPTIIDQGLCDVQTPEQEQTLVDEEDKQTVSTEPDIALMEYEAATA FT EIPDAEEDVLPSKEQLSSKPVDTSGNKIPKPKEPEVLGTYQGQNIYPEDVPPIARQKLR FT DAANAPSTLLYERTPKKSNNFLTRFMEANRSPTTPAAPTVSTVSNMTREQLAEYTRIRK FT SLGLTAAKEYKAQFQ" FT CDS 2858..3460 FT /codon_start=1 FT /product="coat protein" FT /note="ORF3; P3" FT /db_xref="GOA:Q2V8U3" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:Q2V8U3" FT /protein_id="ABP68740.1" FT /translation="MNSVGRRGPRRANQNGPRRRRRRTVRPVVVVQPNRAGPRRRNGRR FT KGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRYKI 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:A5A2W4" FT /protein_id="ABP68741.1" FT /translation="MAQEGGAVEQFGQWLWSNPIEQDPDDEMVDAREEEGQILYLDQQA FT GLRYSYSQSTTLKPTLPGQSNSVPVYRNAQRFQTEYLSPTTVTRSQVSVLSLSHTRPQL FT RPALSLLNSTPRANNQPWVATLIPSQSAGPPQRSSEPKRLTGRNSRNQR" 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="ABP68742.1" 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; 1666 A; 1376 C; 1388 G; 1236 T; 0 other; agtgaagatt gaccatctca caaaagctgt tacgtgcttg taacacacta cacactcgtt 60 ttgtattcga gaagtagttg caacaacggt ccccttattg cctgacaagc tgagggccac 120 ccttctatcc ccaccgccat catgtttttc gaaatactta taggagctag cgctaaggcg 180 gtcaaagact tcatcagtca ttgttactct cgtttaaaat ctatatatta ctcttttaaa 240 cgatggctga tggagatatc tgggcagttt aaggcccatg acgcctttgt caacatgtgc 300 ttcgggcaca tggctgacat tgaagacttc gaggcagagc tcgctgagga gtttgccgag 360 agggaggatg aggtggaaga ggcaaggagc ctcttgaaac tgctggtcgc ccaaaaatct 420 aaaaccgggg tgaccgaggc ttggaccgac ttctttacga agtcgagagg tggcgtctat 480 gcgccacttt cctgcgagcc taccaggcag gagctagaag ccaagagcga gaagctcgaa 540 agacttctag aagaacagca ccaattcgag gtgcgagcgg ccaagaaata tatcaaggaa 600 aagggccgcg gcttcatcaa ctgctggaac gacttgcgaa gtcgtctcag gctggtgaag 660 gacgtcaagg acgaggcgaa ggacaatgcc agagctgctg ccaagatcgg agcagaaatg 720 ttcgcccccg ttgacgtgca ggacctctac agttttacgg aggtcaagaa ggtggagacc 780 ggcctcatga aggaggtcgt gaaagagaga aacggcgaag aagagaaaca cctcgagccc 840 atcatggaag aggtgagatc tatcaaggat accgccgaag ccagggacgc cgcctccacc 900 tggattacag agacagttaa gctgaagaac tcaacgctca acgcagatga attgtctctg 960 gccaccatcg cccgctacgt tgaaaacgta ggggataagt tcaaactcga cattgctagc 1020 aaaacatatt taaagcaagt cgcatcgatg tctgtaccaa ttccaactaa caaggacatc 1080 aaattgaaga tggtgctgca gagtcctgaa gcacgtgcca ggcgggaacg catggacgtg 1140 cttgactctg tgggttttta gaggggctct gtaccgcctc tggttttgag agcccattcc 1200 ctattctcgg gctgccagag attgcggtca cagacggagc ccggctccgt aaggttagta 1260 gtaatattag ataccttagc caaacccacc taggtcttgt atataaggca ccaaatgcct 1320 ccctgcacaa tgcgcttgta gcagtggaga gaagagtttt tacagtagga aagggggaca 1380 aagcaatcta ccccccccgc ccagagcatg acattttcac tgatacgatg gattacttcc 1440 aaaaatccat tatagaagag gtgggacact gtagaacata tccagcgcaa ctcctggcta 1500 acagctatag cgcaggaaag agggccatgt atcacaaagc cattgcatca ttgaggactg 1560 tcccttatca tcagaaggat gccaatgtgc aagctttcct gaagaaggaa aaacattgga 1620 tgaccaagga catcgccccc cgattgattt gcccccgcag caagcggtac aatatcatcc 1680 taggaactcg tttgaaattc aacgagaaga agatcatgca cgctattgat agtgtgttcg 1740 gatcccccac tgtgctttct ggctatgaca actttaaaca aggaagaatc atagccaaga 1800 agtggcaaaa gtttgcatgc cccgtcgcca tcggcgtgga tgctagccgc tttgaccaac 1860 acgtgtcaga gcaggcgctt aagtgggaac acgggatata caatgggatc ttcggagaca 1920 gcgaactggc tcttgcactt gaacaccaaa ttaccaacaa catcaagatg tttgttgaag 1980 ataaaatgct caggtttaag gtaagaggcc acagaatgtc cggcgacatt aataccagca 2040 tgggaaataa gctcataatg tgcggcatga tgcacgcata tttcaagaag ctgggtgttg 2100 aagctgaact ttgcaacaac ggagacgact gtgtcatcat cactgataga gccaatgaaa 2160 agctctttga tggcatgtac gaccatttcc tccagtatgg cttcaacatg gtgaccgaaa 2220 aaccagttta cgaactggag 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 gaatttatta aaaacgtcat atcgtatgga acagatgaga 2520 gactacaagg cagacgtacc tataatgaaa cacccatcac aaaccacagt agaatgtcct 2580 actgggaatc attcggagtt gaccctaaga tacagcaaat cgtcgagagg tactacgacg 2640 gtcttacggt aagtgcccaa ctccagagcg tgaaggtgac gactccacat ctgcaatcaa 2700 tactactttc cataccggaa aaccactcac aaaacgaata ttaattacca aatcttagct 2760 gggtttggga tagggttcat agttagtata ccctgtacat tagctctcgc gtactttatt 2820 tacaataaag tttcagacac cactagagag gtggtgaatg aattcagtag gccgtagagg 2880 acctagacgc gcaaatcaaa atggcccaag aaggaggcgc cgtagaacag ttcggccagt 2940 ggttgtggtc caacccaatc gagcaggacc cagacgacga aatggtcgac gcaagggaag 3000 aggaggggca aatcctgtat ttagaccaac aggcgggact gaggtattcg tattctcagt 3060 cgacaacctt aaagccaact cttccggggc aatcaaattc ggtcccagtc tatcgcaatg 3120 cccagcgctt tcagacggaa tacttaagtc ctaccaccgt tacaagatca caagtatccg 3180 tgttgagttt aagtcacacg cgtccgcaac tacggccggc gctatcttta ttgaactcga 3240 caccgcgtgc aaacaatcag ccctgggtag ctacattaat tccttcacaa tcagcaggac 3300 cgcctcaaag gtcttcagag ccgaagcgat taacgggaag gaattccagg aatcaacgat 3360 agaccagttt tggatgctct acaaggccaa tggaaccacc actgacacgg caggacaatt 3420 cattatcacg atgagtgtca gtttgatgac ggccaaatag gtagactcct caacaccgga 3480 accgaaacct gcaccaggac ccacaccaac cccacagcca acgccagctc cacagcccgc 3540 acccgaaccg actcctgcac cagtccccaa aagattcttt gagtatatcg gcactccaac 3600 cggtacaatc tcaacaagag agaactctga cagtatttct gtcagcaagc tcggtggaca 3660 gttgatgcag tacatagaga atgagaagtg tgaaacaaag gtcattgact ccttctggag 3720 cactaacaac aacgtgtctg cacaggcagc cttcgtttat ccagtgccag aggggtcata 3780 cagtgtgaac atttcgtgcg aaggctttca atccgttgac cacataggag gcaacgagga 3840 tggctattgg attggtttaa tcgcctactc caactcgtca ggagacaatt ggggggtagg 3900 caattacaaa gggtgcagtt tcaagaactt cttggcaacc aatacttgga gaccaggcca 3960 taaggatctc aagttgaacg attgccagtt cacagatgga caaatagttg aaagggatgc 4020 cgtgatgtct ttccatgtgg aagcaacagg tactgacgcc tgtttctatc tcatggctcc 4080 caaaacaatg aaaactgaca aatacaacta tgttgtctca tatggagggt acacaaacaa 4140 acgaatggaa tttggtacca tatctgtgac atgtgatgaa tccgatgttg aggcagaacg 4200 cataacaagg cacgctgaaa cacccatacg ttccaaacac attcttgtgt ccgaacagta 4260 tgagcaacct ttacccacca taatcgatca aggcttgtgt gatgtgcaaa ctcccgagca 4320 agaacaaaca ctggtggatg aagaagacaa acagactgtt tccacagaac ctgatatagc 4380 actcatggaa tatgaagctg caacagccga aattccggat gctgaagagg atgttttgcc 4440 ctccaaggaa cagctgtctt ctaaaccggt tgacacgtcc ggcaacaaga tacctaagcc 4500 caaggaacct gaagtacttg gaacatacca gggacagaat atttaccctg aagacgtgcc 4560 accaattgct cggcaaaaac tacgtgacgc cgcgaatgca ccctccacat tactctacga 4620 gaggactccc aagaagagca acaatttctt gactcgtttt atggaggcaa ataggtcccc 4680 tactactcca gctgccccaa cagtgtcaac tgtatcaaac atgacaaggg aacagcttgc 4740 ggagtacact agaattagga aatcccttgg actcacagca gcgaaggaat acaaggcgca 4800 atttcagtga aggcagcacc actagcacaa atcggatcct gggaaacagg cagaactacg 4860 gttcataagc tcgggtaggc cgtcaaccta ccgccgtatc gtattgcgct tggccgatgg 4920 atgacctcca cgttatcgcc gtttgtattt ttgctctaac tgtgttgaca gggttaggcg 4980 cggtgatcgg ctgttgcgcc ggttgccttc tcccccctcc ctccttccgc tcttctgttt 5040 aagcaaaaaa tctctcggtc tgtgcgagag aaactcaaaa atatcgggga gcttcggctc 5100 agtgagggga ttaacgaccc ccagtaatgg ctggtcttgg cggacttgaa taacccgcta 5160 taagacgaag tggttaccgc cactgatcaa atggtgaaca tgcttctgtg ttgtacactg 5220 ccccggagcc aaccgggtca acaaggctat tccaccagct cgatgagatg agagtggagt 5280 ggacggagtg ggtgacttcg agatgtacac ccgatcgtca ggattgaaga cgttaaaact 5340 cgacgaccta gtgcaagtcg ttaaactgac tagggtggat acaccacacc cggcctaact 5400 tgtgggcata 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 cactcgaaag agcagttcgg caaccc 5666 //