ID EF521828; SV 1; linear; genomic RNA; STD; VRL; 5679 BP. XX AC EF521828; 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 0109, complete genome. XX KW . XX OS Barley yellow dwarf virus PAV OC Viruses; Riboviria; Luteoviridae; Luteovirus. XX RN [1] RP 1-5679 RA Beckett R.J., Miller W.A.; RT "BYDV/CYDV Global Sequencing Project"; RL Unpublished. XX RN [2] RP 1-5679 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; f801b3bffb0e926e588a4f65ea747bc8. DR EuropePMC; PMC4422679; 25946037. DR RFAM; RF00434; BTE. DR RFAM; RF01508; BYDV_5_UTR. XX FH Key Location/Qualifiers FH FT source 1..5679 FT /organism="Barley yellow dwarf virus PAV" FT /host="barley" FT /isolate="0109" FT /serotype="PAV" FT /mol_type="genomic RNA" FT /country="USA:Iowa" FT /collected_by="W.A. Miller" FT /db_xref="taxon:2169986" FT primer_bind 1..30 FT /note="derived from viral specific primer used for RT-PCR" FT CDS join(143..1162,1162..2748) 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:A5A2Q0" FT /db_xref="InterPro:IPR002166" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2Q0" FT /protein_id="ABP68677.1" FT /translation="MLLFELLIGASVKAVKDFISHCYSRLKSIYYAFKRWLLEISGQFK FT AHDAFVNMCFGHIADIEDFEAELAEEFAVKEEEIEEARSLMRLLTAQRAKSGVAEAWTD FT FFVKSRGGVYAPLSCEPSKAELEVKADKLERLLEDMHKFEVQAAKKYIKEKGRGFINCW FT NDLRSRLKLVKEVRDEAKDNIKAASKIGVEFSAPTNIQDLYTFTKVEKVETGLIKEVTK FT MVQGEETKHMEPITEDMRSIKDTAEDREAASKWITEVVKLKNSTLSADELSMATIARYV FT ENIGEKYKLDIASKTYLKQCAMMSVPIPTQKDIKMKMVIQSPAARAARERVAVLDSQGF FT LEGLCASSGFESPFSLLGLPEIKVTDGARLRKISSNIRYLTQTHLGLVYKAPNASLHNA FT LVAVERRVFTVGKGDKAIYPPHPEHDIFTETMDYFAESVIDKVGHCKTYTPQQLALSYS FT AGKRAQYFKAVESLKKEPYQMKDSNVQAFLKKEKHWMTKAIAPRLICPRSKRYNIILGT FT RLKFNEKKIMHAIDSVFGSPTVLSGYDSFTQGEIIAEKWQKFASPVAIGVDASRFDQHV FT SEQALKWEHGIYNGIFGDIELATALEHQLVNNIKMFVEDKMLTFKVRGHRMSGDINTSM FT GNKLIMCGMMHAYFKMLGVEAELCNNGDDCVIITERANEKLFDGMYDHFLKYGFNMVTE FT APVYELGELEFCQSKPVRIDGKYRMVRRPDCIGKDSCTLLSMLNEADVKSYMSAVAQCG FT LVLNAGVPILESFYRCLYRSSGYKKVSEEYIKNVISYGTDERLQGRRTFKETPITNDNR FT MSYWESFGVDPKIQQLVERYFDGLTVSAQLQRVKVTSPHLQSILLSIPENNSQNEY" FT CDS 143..1165 FT /codon_start=1 FT /product="P1" FT /note="ORF1" FT /db_xref="GOA:A5A2Q1" FT /db_xref="InterPro:IPR013674" FT /db_xref="UniProtKB/TrEMBL:A5A2Q1" FT /protein_id="ABP68678.1" FT /translation="MLLFELLIGASVKAVKDFISHCYSRLKSIYYAFKRWLLEISGQFK FT AHDAFVNMCFGHIADIEDFEAELAEEFAVKEEEIEEARSLMRLLTAQRAKSGVAEAWTD FT FFVKSRGGVYAPLSCEPSKAELEVKADKLERLLEDMHKFEVQAAKKYIKEKGRGFINCW FT NDLRSRLKLVKEVRDEAKDNIKAASKIGVEFSAPTNIQDLYTFTKVEKVETGLIKEVTK FT MVQGEETKHMEPITEDMRSIKDTAEDREAASKWITEVVKLKNSTLSADELSMATIARYV FT ENIGEKYKLDIASKTYLKQCAMMSVPIPTQKDIKMKMVIQSPAARAARERVAVLDSQGF FT " FT CDS 2862..4820 FT /codon_start=1 FT /transl_except=(pos:3462..3464,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:A5A2Q2" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR002929" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:A5A2Q2" FT /protein_id="ABP68679.1" FT /translation="MNSVGRRGPRRANQNGPRRRRRRAIRPVVVVQPNRAGPRRRNGRR FT AGRRGPDSIPGSAGRTEVFIFSVDNLKANSSGTIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTSGAIFVELDTACKQSALGSYINSFTISKTASKSFRAEAINGKDF FT QESTIDQFWLLYKANGTTTDTAGQFIIRINVSMLTPKXVDSSTPEPKPAPEPEPTPTPG FT PTPAPQPTPEPTPAPAPKRFFEYVGTPTGTISTRENSDSISVSKLGGQSMQYIENEKCE FT TKVIDSFWSTNNNVSAQAAFVYPVPEGSYSVNISCEGFQSVDHIGGNEDGYWIGLIAYS FT NSSGDNWGVGNYRGCSFKNFLATNTWRPGHKDLKLNDCQFTDGQIVERDAVMSFHVEAT FT GNDACFYLMAPKTMKTDKYNYVVSYGGYTNKRMEFGTISVTCDESDVEAKRITRHAETP FT IRYKHILVSERYEEPLPTITDQGLCDVKTPEQEQTLVDEEDRQTVSTEPDIALQEYEAA FT TAEIPDAEEDVLPSKEQLSSKPLDTSGNIIPKSKEPEVLGTYQGQNIYPEDVPPLARQR FT LREAAKAPSTLLYERTSKKSNNFLTRFMEANRSPTTPAAPTVSTTSNMTREQLAEYTRI FT RKSLGLTAAKEYKAQFQ" FT CDS 2862..3464 FT /codon_start=1 FT /product="coat protein" FT /note="ORF3; P3" FT /db_xref="GOA:Q80R06" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:Q80R06" FT /protein_id="ABP68680.1" FT /translation="MNSVGRRGPRRANQNGPRRRRRRAIRPVVVVQPNRAGPRRRNGRR FT AGRRGPDSIPGSAGRTEVFIFSVDNLKANSSGTIKFGPSLSQCPALSDGILKSYHRYKI FT TSIRVEFKSHASATTSGAIFVELDTACKQSALGSYINSFTISKTASKSFRAEAINGKDF FT QESTIDQFWLLYKANGTTTDTAGQFIIRINVSMLTPK" FT CDS 2905..3366 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:A5A2Q4" FT /protein_id="ABP68681.1" FT /translation="MAQEGGAVEQFGQWLWSNPIEQDPDDEMVDAQEEEGQILYLDQQA FT GLRYSYSQSTTLKPTLPGQSNSAPVYRNAQRFQTEYLSPTTVTRSQVSVLSLSHTRPPL FT RRALSLLNSTPRASNQPWVATLIPSPSAKLPPNPSEPRRLMGRTSKNQR" FT CDS 4927..5052 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="ABP68682.1" FT /translation="MDDLHVIAVCIFALTVLTGLGAVIGCCAGCLLPPPSFRSSV" FT primer_bind complement(5653..5679) FT /note="derived from viral specific primer used for RT-PCR" XX SQ Sequence 5679 BP; 1646 A; 1400 C; 1364 G; 1269 T; 0 other; agtgaaggtt gaccacctac acaaaaagac tttgtgcttg aagtctacag ctcacctgtt 60 ttgtattcag gacgttgtct gcaacaacgg tcaacagtac gcccgacacc gtactgccac 120 ctccctatcc ccccccgcca acatgcttct ttttgaactt ttgatcggag ctagcgtcaa 180 agctgttaag gacttcatca gccactgcta ttcacgactt aaaagcatat attatgcttt 240 caaaagatgg ctgttggaaa tatccgggca atttaaggcc catgacgctt ttgtcaacat 300 gtgctttggg cacatcgctg acatcgaaga cttcgaggct gaactcgctg aagagttcgc 360 cgtgaaggag gaagagatcg aggaggcaag aagcctcatg cgactgctca ccgcccaacg 420 agccaaatct ggggtggcgg aggcttggac cgacttcttc gtgaagtcga gaggcggggt 480 ttatgccccg ctttcctgcg agccttccaa agcagagctt gaggtcaaag ccgacaagct 540 cgaaagacta cttgaggaca tgcacaaatt cgaagtgcaa gcggcaaaaa aatatataaa 600 agaaaaaggc cgcgggttca tcaactgctg gaacgatctc cgttccagac tcaagttagt 660 caaggaggta agagacgagg ccaaagacaa catcaaggcc gcctccaaaa tcggcgtgga 720 attctccgca cccaccaaca tccaggacct atacaccttc acaaaggttg aaaaggtcga 780 gactggcctc ataaaggagg tcacaaagat ggtgcaaggg gaggaaacca agcacatgga 840 gcctatcact gaggatatgc gctccattaa ggacacggcg gaagaccgag aggccgcctc 900 caagtggata acggaggtgg ttaaattgaa aaattcaacc ctgtctgccg acgaactgtc 960 catggccacc atcgcccggt atgtggaaaa tatcggagaa aaatacaaac tcgacattgc 1020 ttccaaaaca tatcttaagc aatgtgcaat gatgtctgtt ccaattccca ctcaaaaaga 1080 catcaaaatg aagatggtga tccagagccc tgcggcacga gctgcgcgtg agcgcgtagc 1140 tgtgcttgat tcccagggtt tttagagggg ctctgtgcct cctccggttt tgaaagtccc 1200 ttttctctat taggactgcc ggagattaag gtcacagacg gagcccgttt acgtaagatt 1260 agtagtaata ttaggtacct aactcaaacc cacctcggct tggtttacaa agccccaaac 1320 gcctccctgc acaatgcctt ggttgcagtg gagagaagag tgtttacagt tggtaagggg 1380 gacaaagcta tctacccccc ccacccagag catgatattt tcactgagac tatggactac 1440 ttcgccgagt ccgtaattga caaggtggga cactgtaaga cttacactcc acagcagcta 1500 gctcttagct atagcgcagg gaaaagagcc caatacttca aagccgtcga gtcacttaag 1560 aaagaacctt accaaatgaa ggactcgaat gttcaggcat tcctcaagaa ggagaagcat 1620 tggatgacca aagccatcgc ccctcgcctg atctgccccc gctccaagcg gtataatatc 1680 atccttggaa ctcgcttgaa attcaacgag aagaagatca tgcacgctat cgatagtgtg 1740 tttggatccc ccactgtgct ttccggctat gatagcttca ctcagggtga aattatagcc 1800 gaaaagtggc aaaagtttgc atcacccgtc gccatcggtg ttgatgctag ccgctttgac 1860 cagcatgtgt cagagcaggc gcttaagtgg gaacacggga tatacaatgg catatttggc 1920 gacattgaat tggccaccgc tctcgaacat cagcttgtaa ataacatcaa aatgttcgtt 1980 gaggataaaa tgcttacatt taaggtgaga ggccatagga tgtccgggga cataaacacc 2040 agcatgggaa acaaactcat aatgtgcggc atgatgcatg catactttaa aatgctgggt 2100 gttgaagctg agttgtgcaa caacggagac gactgtgtca tcatcactga gagagccaat 2160 gagaagctct ttgatggcat gtacgaccat ttcttgaaat acggcttcaa catggtgacg 2220 gaagccccag tttatgaact cggggaactc gaattttgtc aatcaaaacc cgtcagaata 2280 gatggtaagt acagaatggt aaggagacca gactgtattg gaaaagatag ctgcacactt 2340 ttgagcatgt tgaatgaggc tgacgtcaag agttacatgt cagctgtggc tcagtgtgga 2400 ctcgttttga atgcgggtgt gcccattttg gaaagcttct accgctgcct gtacagaagc 2460 tctgggtaca agaaagtgag tgaggaatac atcaaaaacg tcatatcata tggaacagat 2520 gaacgccttc aaggtagacg taccttcaag gagacaccta tcacaaacga caatcgaatg 2580 tcgtactggg aatcattcgg agttgaccct aagatacaac aactcgtcga gcggtacttc 2640 gacggtctta cggtaagtgc ccaactccag agagtgaagg tgacatctcc acatctgcaa 2700 tcaatcctcc tctccattcc ggagaacaac tcgcaaaacg aatattaatt accaaatctt 2760 agccgggttt gggatagggt ttatagtaag tattccctgt acattagctc tcacgtactt 2820 tatttacaat aaagtttcag acaccactag agaggtggtg aatgaattca gtaggccgta 2880 gaggacctag acgagcaaat caaaatggcc caagaaggcg gcgccgtaga gcaattcggc 2940 cagtggttgt ggtccaaccc aatcgagcag gacccagacg acgaaatggt cgacgcgcag 3000 gaagaagagg gccagattct atacctggat cagcaggcag gactgaggta ttcatattct 3060 cagtcgacaa ccttaaagcc aactcttccg ggacaatcaa attcggcccc agtctatcgc 3120 aatgcccagc gctttcagac ggaatactta agtcctacca ccgttacaag atcacaagta 3180 tccgtgttga gtttaagtca cacgcgtccg ccactacgtc gggcgctatc tttgttgaac 3240 tcgacaccgc gtgcaagcaa tcagccctgg gtagctacat taattccttc accatcagca 3300 aaactgcctc caaatccttc agagccgagg cgattaatgg gaaggacttc caagaatcaa 3360 cgatagacca gttctggcta ctatacaagg caaatgggac aactactgac actgctggac 3420 aatttataat aaggataaat gtcagtatgc tgactcccaa ataggtagac tcctcaacac 3480 cggaaccgaa accagcacca gaaccagaac caactccaac accagggccc acaccagcgc 3540 cgcagcctac acctgagccc actcctgcac cagcccccaa gagattcttt gagtatgtcg 3600 gaactccaac cggcacaatc tcaactagag agaattctga cagcatctct gtcagcaaac 3660 ttggtgggca gtcgatgcag tacatagaga atgagaaatg tgagacaaaa gtcattgact 3720 ctttctggag cactaacaac aacgtatctg cccaggcagc attcgtttat ccagtgccag 3780 aaggttcata cagcgtcaac atttcgtgtg aaggctttca atccgttgac cacatcggtg 3840 gtaacgagga tgggtactgg attggtctta tagcctactc caattcatca ggcgacaatt 3900 ggggagtagg taattataga gggtgcagtt tcaaaaactt cttggcaacc aatacttgga 3960 gacctggcca caaagatctc aagttgaacg attgccagtt cacagatgga cagatagttg 4020 aaagggacgc cgtgatgtct tttcacgtag aagcaacagg caatgatgcc tgtttctatc 4080 tcatggctcc caaaacaatg aaaactgaca aatacaacta tgttgtctca tatggagggt 4140 acacaaacaa acgaatggaa tttggtacca tatctgtgac atgcgatgaa tccgatgttg 4200 aggcaaaacg cataacaagg cacgctgaaa ctcccatccg ctacaagcac atccttgtgt 4260 ccgagcggta tgaggagcca ttgcccacca taaccgatca aggcttgtgt gatgtgaaaa 4320 ctcccgagca agaacaaaca ttggtggatg aagaagacag acaaactgtt tccactgaac 4380 ctgatatagc actccaggaa tacgaagctg ccacagctga aattcctgat gctgaagagg 4440 atgttttgcc ctccaaggaa cagctgtcct ctaagccatt ggacacgtct ggcaatataa 4500 tacccaaatc caaggaacct gaagtacttg gaacatacca gggccagaac atttaccctg 4560 aagacgtgcc accgctagcg cggcagagat tgcgcgaagc cgcgaaagca ccctccacgt 4620 tgctatatga gcgaacgtcg aagaagagca acaacttctt gactcgtttt atggaggcga 4680 ataggtcccc taccactccc gctgccccaa cagtgtcaac tacatcaaac atgacaaggg 4740 aacagcttgc ggagtacact agaattagga aatcccttgg actcacagca gctaaggaat 4800 acaaggcgca atttcagtga aggtaccacc actagcacaa atcggatcct ggtaaacagg 4860 cagaactacg gttcataagc tcgggtaggc cgtcaaccta ccgccgtatc gtattgtgtt 4920 tggccgatgg atgacctcca tgttatcgcc gtttgtattt ttgctctaac tgtgttgaca 4980 gggttaggcg cggtgatcgg ctgttgcgcc ggttgccttc tcccccctcc ctccttccgc 5040 tcttctgttt aagcaaaaat ctctcggtct gtgcgagaga aactcaaaaa tatcggggag 5100 cttcggctca gtgaggggat taacgacccc cagcaatggc tggtcttggc ggacatgaat 5160 aacccgctat gagacgaagt ggtaaccgcc actgatcaaa aggtaaacat gcttctgtgt 5220 tgtacactgc cccggggcct accgggtcaa caaggctatc ccaccaactc aatgaaatga 5280 gagtggagtg ggcggagtgg gtgacttcgt gatgtacacc cgatcgtcag gattgaagac 5340 gttaaaactc gacgacctag tgcaagtcgt taaactgact cgggtggata caccacaccc 5400 gaccaggcat gcaggcatac ccacgatacg aaacgtgggt ttcttggagc cactacctgt 5460 gatgcaaggt agggtatgag tcttagcaag ctctgtgcca ggaaatggac ataaaccata 5520 gcaatcctgc acatgtttgt cactggtgaa tcataggtga acgtgccact ggcctgttgc 5580 aagcaatcta gctctgcttg caacagtatc ccttagaagc aattctttgg ggggactgga 5640 ttctgactgc cggcactcga aagagaagcc cggcatccc 5679 //