LOCUS EU332333 5660 bp RNA linear VRL 06-JUL-2011 DEFINITION Barley yellow dwarf virus-PAV isolate 06KM25 RNA-dependent RNA polymerase, P1, aphid transmission protein, coat protein, movement protein, and P6 genes, complete cds. ACCESSION EU332333 VERSION EU332333.1 KEYWORDS . SOURCE Barley yellow dwarf virus-PAV ORGANISM Barley yellow dwarf virus-PAV Viruses; ssRNA viruses; ssRNA positive-strand viruses, no DNA stage; Luteoviridae; Luteovirus. REFERENCE 1 (bases 1 to 5660) AUTHORS Wu,B., Blanchard-Letort,A., Liu,Y., Zhou,G., Wang,X. and Elena,S.F. TITLE Dynamics of molecular evolution and phylogeography of Barley yellow dwarf virus-PAV JOURNAL PLoS ONE 6 (2), E16896 (2011) PUBMED 21326861 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 5660) AUTHORS Liu,S., Wang,X., Liu,Y. and Zhou,G. TITLE Population genetic diversity of BYDV-PAV from China JOURNAL Unpublished REFERENCE 3 (bases 1 to 5660) AUTHORS Liu,S., Wang,X., Liu,Y. and Zhou,G. TITLE Direct Submission JOURNAL Submitted (07-DEC-2007) Plant Pathology, Institute of Plant Protection, Chinese Acadamy of Agricultural Sciences, West Yuanmingyuan Road No.2, Beijing 100094, China FEATURES Location/Qualifiers source 1..5660 /mol_type="genomic RNA" /country="China:Kunming" /host="oat" /db_xref="taxon:12040" /isolate="06KM25" /serotype="PAV" /organism="Barley yellow dwarf virus-PAV" CDS join(140..1156,1156..2742) /ribosomal_slippage /codon_start=1 /protein_id="ABY73697.1" /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFK AHDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKTGVTEAWI DFFLKSRGGVYAPPSCEPTRQELEVKSEKLEKLLEEQHQFEVRAAKKYVKEKGRGFIN CWNDLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKE VVKERNGEEEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLSADELSLATI ARYVENVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVL DSVGFLEGLCTASGFESPFPILGLPEIAVTDGARLRKVSSNIRYLSQTHLGLVYKAPN ASLHNALVAVERRVFTVGKGDKAIYPPRPEHDIFTDTMDYFQKSIIEEVGYCKTYPAQ LLANSYSAGKRAMYHKAIASLKTVPYHQKDANVQAFLKKEKHWMTKDIAPRLICPRSK RYNIILGTRLKFNEKKIMHAIDSVFGSPTVLSGYDNFKQGRIIAKKWQKFACPVAIGV DASRFDQHVSEQALKWEHGIYNGIFGDSELALALEHQITNNIKMFVEDKMLRFRVRGH RMSGDINTSMGNKLIMCGMMHAYFKKLGVEAELCNNGDDCVIITDRANEKLFDGMYDH FLQYGFNMVTEKPVYELEQLEFCQSKPVSINGKYRMVRRPDSIGKDSTTLLSMLNQSD VKSYMSAVAQCGLVLNAGVPILESFYKCLYRSSGYKKVSEEFIKNVISYGTDERLQGR RTFEDTPITNHSRMSYWESFGVDPKIQQIVERYYDNLTVSAQLQSVKVTTPHLQSILL SIPENHSQNDY" /product="RNA-dependent RNA polymerase" /note="RdRp; P1-P2 fusion created by -1 ribosomal frameshift" CDS 140..1159 /codon_start=1 /protein_id="ABY73698.1" /translation="MFFEILIGASAKAVKDFISHCYSRLKSIYYSFKRWLMEISGQFK AHDAFVNMCFGHMADIEDFEAELAEEFAEREDEVEEARSLLKLLVAQKSKTGVTEAWI DFFLKSRGGVYAPPSCEPTRQELEVKSEKLEKLLEEQHQFEVRAAKKYVKEKGRGFIN CWNDLRSRLRLVKDVKDEAKDNARAAAKIGAEMFAPVDVQDLYSFTEVKKVETGLMKE VVKERNGEEEKHLEPIMEEVRSIKDTAEARDAASTWITETVKLKNSTLSADELSLATI ARYVENVGDKFKLDIASKTYLKQVASMSVPIPTNKDIKLKMVLQSPEARARRERMDVL DSVGF" /product="P1" /note="ORF1" CDS 2856..4808 /codon_start=1 /protein_id="ABY73702.1" /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGR RKGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRY KITSIRVEFKSHASATTAGAIFVELDTACKQSALASYINSFTISRTASKVFRAEAING KEFQESTIDQFWMLYKANGTTTDTAGQFIITMSVHLMTAKXVDSSTPEPKPAPEPTPT PQPTPAPQPAPEPTPAPAPKRFFEYIGIPTGTISTRENSDSISVSKLGGQSMQYIENE KCETKVIDSFWSTNNYVSAQAAFVYPVPEGSYSVNISCEGFQSVDHIGGNEDGYWIGL IAYSNSSGDNWGVGNYKGCSFKNFLATNTWRPGHKDLKLNDCQFTDGQIVERDAVMSF HVEATGTDACFYLMAPKTMKTDKYNYVVSYGGYTNKRMEFGTISVTCDESDVEAERIT RHAKTPIRSKHILVSEQYEQPLPTIIDQGLCDVQTPEQEQTLVDEEDKQTVSTEPDIA LMEYEAATAEIPDAEEDVLPSKEQLSSKPVDTSGNKIPKPKEPEVLGTYQGQNIYPED VPPIARQKLREAANAPSTLLYEKTPKKSNNFLTRFVDANRSPTTPAAPTVSTVSNMTR EQLAEYTRIRKSLGLTAAKEYKAQFQ" /product="aphid transmission protein" /transl_except=(pos:3456..3458,aa:OTHER) /note="P3-P5 fusion created by ribosomal read-through of the ORF3 stop codon" CDS 2856..3458 /codon_start=1 /protein_id="ABY73699.1" /translation="MNSVGRRGPRRANQNGTRRRRRRTVRPVVVVQPNRAGPRRRNGR RKGRGGANPVFRPTGGTEVFVFSVDNLKANSSGAIKFGPSLSQCPALSDGILKSYHRY KITSIRVEFKSHASATTAGAIFVELDTACKQSALASYINSFTISRTASKVFRAEAING KEFQESTIDQFWMLYKANGTTTDTAGQFIITMSVHLMTAK" /product="coat protein" /note="ORF3; P3" CDS 2899..3360 /codon_start=1 /protein_id="ABY73700.1" /translation="MAQEGGAVEQFGQWLWSNPIEQDPDDEMVDAREEEGQILYLDQQ AGLRYSYSQSTTLKPTLPGQSNSALVYRNAQRFQTEYLSPTTVTRSQVSVLSLSHTRP QLRPALSLLNSTPRANNQPWLATLIPSQSAGPPQRSSEPKRLTGRNSRNQR" /product="movement protein" /note="P4; ORF4 translated via a leaky scanning mechanism" CDS 4915..5040 /codon_start=1 /protein_id="ABY73701.1" /translation="MDDLHVIAVCIFALTVLTGLGAVIGCCAGCLLPPPSFRSSV" /product="P6" /note="ORF6; highly variable sequence" ORIGIN 1 tgaagattga ccatctcaca aaagctgcta cgtgcttgta gcacactaca cactcgtttt 61 gtattcgaga agtagttgca acaacggttc ccttattgcc tgacaagcta agggccaccc 121 ttctatcccc accgccatca tgttcttcga aatacttata ggagctagcg ctaaggcggt 181 aaaagacttc atcagtcatt gttactctcg tttgaaatca atatattatt cttttaaacg 241 atggctgatg gagatatctg ggcagtttaa ggcccatgac gcctttgtca acatgtgctt 301 cgggcacatg gctgacattg aggacttcga ggcagagctc gctgaggagt ttgcagagag 361 ggaggatgag gtggaagagg caagaagcct cttgaaactg ctggtcgccc aaaaatctaa 421 aactggggtg accgaggctt ggatcgactt cttcttgaag tcgagaggtg gcgtctatgc 481 gccaccttcc tgcgagccta ccaggcagga gctagaagtc aagagcgaga agctcgaaaa 541 acttctagaa gaacagcacc aattcgaggt gcgagcggcc aagaaatacg ttaaggaaaa 601 gggccgcggc ttcatcaact gctggaacga cttgcgaagt cgtctcaggc tggtgaagga 661 cgtcaaggac gaggcgaagg acaacgctag agctgctgcc aagatcggag cagaaatgtt 721 cgcccccgtt gacgtgcaag acctatacag ctttacagag gtcaagaagg tggagaccgg 781 cctcatgaaa gaggtcgtga aagagagaaa cggcgaagaa gagaaacacc tcgagcccat 841 catggaagag gtgaggtcca tcaaagatac cgccgaagcc agggacgctg cctccacctg 901 gataacagag acagttaagc tgaagaactc tacgcttagc gcagatgaat tgtctctggc 961 caccatcgcc cgttacgttg aaaacgtagg ggacaaattc aaactcgaca ttgctagcaa 1021 gacatatcta aagcaagtcg catcgatgtc tgtgccaatt ccaactaaca aggacattaa 1081 attaaagatg gtgctgcaga gtcctgaagc acgtgccagg cgggaacgca tggacgtgct 1141 tgactctgtg ggtttttaga ggggctctgt accgcctctg gttttgagag cccattcccc 1201 attctcgggc tgccagagat tgcggtcaca gacggagccc ggctccgtaa ggttagtagt 1261 aatattagat acctcagcca aacccaccta ggtcttgtat ataaggcgcc aaatgcctcc 1321 ctgcacaatg cgcttgtagc agtggagaga agagttttta cagtaggaaa gggggacaaa 1381 gcaatctacc ccccccgccc agagcatgac attttcactg atacaatgga ttacttccaa 1441 aaatccatta tagaagaggt gggatactgc aagacatatc cagcgcaact cctggctaac 1501 agctatagcg caggaaaaag ggccatgtat cacaaagcca ttgcatcttt gaaaactgtc 1561 ccatatcatc agaaggatgc aaatgtacaa gctttcctga agaaggaaaa acattggatg 1621 accaaggaca tcgccccccg attgatttgc ccccgcagca agcggtataa catcatccta 1681 ggaactcgtt taaaattcaa cgagaagaag atcatgcacg ctatcgatag tgtgttcgga 1741 tcccccactg tactttctgg ctatgacaac tttaaacaag gaagaatcat agccaagaag 1801 tggcaaaagt ttgcatgccc cgtcgccatc ggcgtggatg ctagccgctt tgaccaacac 1861 gtgtcagagc aggcgcttaa gtgggaacac gggatataca atgggatctt cggagacagc 1921 gaactggctc ttgcacttga acaccaaatc accaacaaca tcaagatgtt tgttgaagat 1981 aaaatgctta ggttcagggt gagaggccat agaatgtccg gtgacattaa taccagcatg 2041 ggaaacaagc tcataatgtg cggcatgatg catgcatatt tcaagaagct gggtgttgaa 2101 gctgaacttt gcaacaacgg agacgattgt gtcatcatca ctgatagagc caatgagaag 2161 ctctttgacg gcatgtacga ccatttcctc cagtatggct tcaacatggt gactgaaaaa 2221 ccagtttacg aactggagca attggagttt tgccagtcaa aaccggtctc tattaatgga 2281 aagtatagaa tggtaagaag gcccgatagc ataggcaaag acagcacaac actactgagc 2341 atgctcaacc aatccgacgt caagagctac atgtcggctg tggctcagtg tggtttggtg 2401 cttaacgctg gagtacccat acttgaaagt ttctataaat gcctatatag aagctcaggg 2461 tacaagaaag tgagtgagga attcatcaaa aacgtcattt cgtatggaac agatgagaga 2521 ttacaaggta gacgtacctt tgaagacaca cctatcacta atcatagtag gatgtcctac 2581 tgggaatcat tcggagttga ccctaagata caacaaattg tcgagcggta ctacgacaat 2641 cttacggtga gtgcccaact ccagagtgtg aaggtgacta ctccacatct gcaatcaata 2701 ctactttcca taccggaaaa ccactcacaa aacgactact aattaccaaa tcttagctgg 2761 gtttggaata gggtttatag tttctattcc ctgtacatta gctctctcct actttatcta 2821 taataaagtt tctgacacca ctagggaggt ggtgaatgaa ttcagtaggc cgtagaggac 2881 ctagacgcgc aaatcaaaat ggcacaagaa ggaggcgccg tagaacagtt cggccagtgg 2941 ttgtggtcca acccaatcga gcaggaccca gacgacgaaa tggtcgacgc aagggaagag 3001 gaggggcaaa tcctgtattt agaccaacag gcgggactga ggtattcgta ttctcagtcg 3061 acaaccttaa agccaactct tccggggcaa tcaaattcgg ccctagtcta tcgcaatgcc 3121 cagcgctttc agacggaata cttaagtcct accaccgtta caagatcaca agtatccgtg 3181 ttgagtttaa gtcacacgcg tccgcaacta cggccggcgc tatctttgtt gaactcgaca 3241 ccgcgtgcaa acaatcagcc ctggctagct acattaattc cttcacaatc agcaggaccg 3301 cctcaaaggt cttcagagcc gaagcgatta acgggaagga attccaggaa tcaacgatag 3361 accagttttg gatgctctac aaggccaatg gaaccaccac tgacacggca ggacaattca 3421 ttatcacgat gagtgtccac ttgatgacgg ccaaataggt agactcctca acaccggaac 3481 cgaaacctgc accagaacct acaccaaccc cgcagccaac gccagctcca cagcccgcac 3541 ccgaaccgac tcctgcacca gcccctaaaa gattctttga gtatatcggc attccaaccg 3601 gtacaatctc aacaagagaa aactctgata gtatttctgt cagcaagctc ggtgggcaat 3661 cgatgcaata catagagaat gagaagtgtg aaacaaaggt cattgactcc ttctggagca 3721 ctaacaacta cgtgtctgca caggcagcct tcgtttaccc agtgccagaa ggatcataca 3781 gtgtgaacat ttcgtgcgaa ggcttccaat ccgttgacca cataggaggc aacgaggatg 3841 gttattggat tggtttaatt gcctactcca attcgtcagg agacaattgg ggggtaggca 3901 actacaaagg gtgcagtttc aagaacttct tggcaaccaa tacttggaga ccaggccata 3961 aggatctcaa gttgaacgat tgccagttca cagatggaca aatagttgag agggatgccg 4021 tgatgtcttt ccatgtggaa gcgacaggta ctgacgcctg tttctatctc atggctccca 4081 aaacaatgaa aactgacaaa tacaactatg ttgtctcgta tggagggtac acaaacaaaa 4141 ggatggaatt tggtaccata tctgtgacat gtgatgaatc cgatgttgag gcagaacgca 4201 taacaaggca cgctaaaaca cccatacgtt ccaaacatat tcttgtgtct gaacagtatg 4261 agcagccttt acccaccata atcgatcaag gcttgtgtga tgtgcaaact cccgagcaag 4321 aacaaacact ggtggatgaa gaagacaaac agactgtttc cacagaacct gatatagcac 4381 tcatggaata tgaagctgca acagccgaaa ttccagatgc tgaagaggat gttttgccct 4441 ccaaggaaca gctgtcttct aaaccggtgg acacatccgg caacaaaata ccaaaaccca 4501 aggaacctga agtacttgga acataccagg gacaaaatat ttaccctgaa gacgtgccac 4561 caattgcgcg gcagaagcta cgcgaagccg caaatgcacc ctccacatta ctctacgaga 4621 aaactcccaa gaagagcaac aatttcttga ctcgttttgt ggatgcgaat aggtccccta 4681 caactccagc tgccccaaca gtgtcaactg tatcaaacat gacaagggaa cagcttgcgg 4741 agtacactag aattaggaaa tcccttggac tcacagcagc gaaggaatac aaggcgcaat 4801 ttcagtgaag gtaacaccac tagcacaaat cggatcctgg gaaacaggca gaactacggt 4861 tcataagctc gggtaggccg tcaacctacc gccgtatcgt attgtgtttg gccgatggat 4921 gacctccacg ttatcgccgt ttgtattttt gctctaactg tgttgacagg gttaggcgcg 4981 gtgatcggct gttgtgccgg ttgccttctc ccccctccct ccttccgctc ttctgtttaa 5041 gcaaaatctc tcggtctgtg cgagagaaac tcaaaaatat cggggagctt cagctcagtg 5101 aggggattaa cgacccccag taaaggctgg tcttggcgga cttgaataac ccgctataag 5161 acggagtggt aaccgccact gatcaaatgg tgaacatgct tctgtgttgt acactgcccc 5221 ggagcctacc gggttaacaa agctatccca ccagctcaat gaaatgagag cggagtgggc 5281 ggagtgggtg acttcgagat gtacacccga tcgtcaggat tgaagacgtt aaaactcgac 5341 gacctagtgc aagtcgttaa actgactagg gtggatacac cacacccggc ctaacttgta 5401 ggcataccca cgatacgaaa cgtgggtctc ttggagccac cgcctgtgat gcaaggtggg 5461 gtatgagtct tagcaagctc tgtgccagga gatggacaaa ccatagcaat cctgcaagtc 5521 atcttggcga accataggtg aaccgtgcca cgggcctgcc taccgaaagg aaaagcagta 5581 tccgacacag caatgtgttg ggggttacac ccttcggggt actcttaacg ctgacactcg 5641 aaagagcagt tcggcaaccc //