ID KC921392; SV 1; linear; genomic RNA; STD; VRL; 5612 BP. XX AC KC921392; XX DT 13-JUN-2013 (Rel. 117, Created) DT 01-AUG-2013 (Rel. 117, Last updated, Version 3) XX DE Maize yellow dwarf virus-RMV, complete genome. XX KW . XX OS Maize yellow dwarf virus RMV OC Viruses; Riboviria; Luteoviridae; Polerovirus. XX RN [1] RP 1-5612 RX DOI; 10.3389/fmicb.2013.00205. RX PUBMED; 23888156. RA Krueger E.N., Beckett R.J., Gray S.M., Miller W.A.; RT "The complete nucleotide sequence of the genome of Barley yellow dwarf RT virus-RMV reveals it to be a new Polerovirus distantly related to other RT yellow dwarf viruses"; RL Front Microbiol. 4:205-205(2013). XX RN [2] RP 1-5612 RA Krueger E.N., Beckett R.J., Gray S.M., Miller W.A.; RT ; RL Submitted (18-APR-2013) to the INSDC. RL Plant Pathology and Microbiology Department, Iowa State University, 470 RL Bessey Hall, Ames, IA 50011, USA XX DR MD5; 4baa3d0b28e18937d30547f73d537ffa. DR EuropePMC; PMC3719023; 23888156. DR EuropePMC; PMC4422679; 25946037. XX CC ##Assembly-Data-START## CC Assembly Method :: Vector NTI v. 2007; Phred, Phrap, Consed CC v. 2007 CC Sequencing Technology :: Sanger dideoxy sequencing CC ##Assembly-Data-END## XX FH Key Location/Qualifiers FH FT source 1..5612 FT /organism="Maize yellow dwarf virus RMV" FT /host="Triticum aestivum" FT /strain="RMV MTFE87" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="1987" FT /note="former name = Barley yellow dwarf virus-RMV" FT /db_xref="taxon:2170101" FT 5'UTR 1..54 FT CDS 55..840 FT /codon_start=1 FT /product="PO protein" FT /note="putative viral suppressor of silencing" FT /db_xref="UniProtKB/TrEMBL:R9U4P1" FT /protein_id="AGN49059.1" FT /translation="MRCEIHFDGTLTFAEIPRDLTIRLLEFQTALRTIACCVLNQRYDA FT ETLVRSAFTILPLMLRELPFTWEFPSAVHAAFAKHALRTAGRIPPPMELIFHGDTPKHM FT YRDFLYRVVTRDIAASLQRSHENFICGYKRFQLRLESVCRRVELLGDTFAPKHIEELSW FT SSRTRGGRGAGARRRLPARCNLHLELLDIAALLGCYNPGMQIYVPDVIDRLSLRLYNAL FT GPAGFKDFWRVAGYDHLADWDSDIEALSGSVIQKELNLL" FT CDS join(185..1603,1603..3321) FT /codon_start=1 FT /ribosomal_slippage FT /product="P1-P2 fusion" FT /note="serine protease, VPg, and RdRP" FT /db_xref="GOA:R9U1R7" FT /db_xref="InterPro:IPR000382" FT /db_xref="InterPro:IPR001795" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:R9U1R7" FT /protein_id="AGN49061.1" FT /translation="MLKLWCALLLLFCLSCSVNSHSLGSSLVRYTPPLRSMRYVPPAEY FT LLPWNSSSMVTRQNTCIEISYTALSREILQLAYRDLTRISSVAINASNSGWKVFAEELS FT SLVTHLHQNISRSFHGLRGLAVDGVQALAGGFLLAVIYTWSYLISLLFWVVTTLVCRYT FT FQMSSIACLYVCTMLLVRLASKIFGGWPVMIISLIGTLTSKLFRALSFKKSSISFEIPT FT PGYKTVEIPQKPPKDCVLLVQHNDALNSPGGYASCVRLLNGSNALLTAKHVSTQEGDLL FT IASSRTGNRIKLSLFNTILTTKNSDVGLYQGPPGWESILGCKAADIVPVDGLSCCEASI FT YRHDGNWMRSNASLVGTEGTFVSVLSNTIEGFSGTPYFNGKSILGVHVGGNETRTNNLM FT APIPSIPGLTKHKYVFESPQLRGRLFTDEEVEKLEFEIDEAFQKAHNLIHFKSKTGRNW FT ADDEDDIHFEAPKFQGKRRTRSRPRKQNGLSHPYTLARRYFRQRHSQQGGGSVGLEDRR FT LSNRADGCSKDLGISFETPNEQQSETQAKAQNFSAYFASLYRWEVRGARSQIPGFEACG FT SLPKYYFTKQKEESEWGRLLAEGNPALASKVSGFGWPQFGPEAELKSLRLQAQRWLSRA FT EFAKIPSSEDRERVIRKTVEAYKTCQTQCPKTSQSNLLVWEDFLEDFKQAVFSLEPDAG FT VGVPFVGYDRRTHRGWIEDPTLLPVLARMTFDRLHKMSTVKFEQLTAEQLVQQGLCDPI FT RLFVKGEPHKQSKLDEGRYRLIMSVSLLDQLVARVLFQNQNKREIALWRAIPSKPGFGL FT STDAQSREFVQNLAKQCGVNTTELLANWPTYTVPTDCSGFDWSVADWMLQDDMEVRNRL FT TRNNTDLTKRLRACWLKCISNSVLCLSDGTLLAQRIAGIQKSGSYNTSSSNSRIRVMAA FT YHCGATWAMAMGDDALESVDTNLDVYKTLGFKVEVSKQLEFCSHIFEKEDLARPVNQNK FT MIYKLLHGYNPANGSSEVIQRYLDACMSVLNELRHDPETVELLYQWLVAPVQKQKV" FT CDS 185..2047 FT /codon_start=1 FT /product="P1" FT /note="serine protease, VPg" FT /db_xref="GOA:R9U353" FT /db_xref="InterPro:IPR000382" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR018019" FT /db_xref="UniProtKB/TrEMBL:R9U353" FT /protein_id="AGN49060.1" FT /translation="MLKLWCALLLLFCLSCSVNSHSLGSSLVRYTPPLRSMRYVPPAEY FT LLPWNSSSMVTRQNTCIEISYTALSREILQLAYRDLTRISSVAINASNSGWKVFAEELS FT SLVTHLHQNISRSFHGLRGLAVDGVQALAGGFLLAVIYTWSYLISLLFWVVTTLVCRYT FT FQMSSIACLYVCTMLLVRLASKIFGGWPVMIISLIGTLTSKLFRALSFKKSSISFEIPT FT PGYKTVEIPQKPPKDCVLLVQHNDALNSPGGYASCVRLLNGSNALLTAKHVSTQEGDLL FT IASSRTGNRIKLSLFNTILTTKNSDVGLYQGPPGWESILGCKAADIVPVDGLSCCEASI FT YRHDGNWMRSNASLVGTEGTFVSVLSNTIEGFSGTPYFNGKSILGVHVGGNETRTNNLM FT APIPSIPGLTKHKYVFESPQLRGRLFTDEEVEKLEFEIDEAFQKAHNLIHFKSKTGRNW FT ADDEDDIHFEAPKFQGNDARGPVRENKTVSPTPTHSPVVTSGNDTLNKVVEALVSKIDV FT SVIERMVVQKISESALKRPTNNNRKHRRKPKTSQPTLPPSTDGRYVAPARRSPASKPAD FT PSPNTTSQNKKKNQSGGGYLQRETRRWQVKSAASGGPNSDPRPN" FT CDS 3516..5456 FT /codon_start=1 FT /transl_except=(pos:4113..4115,aa:OTHER) FT /product="P3-P5" FT /note="coat protein and readthrough domain; low-frequency FT read-through of stop codon" FT /db_xref="GOA:R9U127" FT /db_xref="InterPro:IPR001517" FT /db_xref="InterPro:IPR002929" FT /db_xref="UniProtKB/TrEMBL:R9U127" FT /protein_id="AGN49063.1" FT /translation="MNLGGRRNGRRGTRLRRRVRIARTTQPMVVVAQTQRRRRIRRRGR FT PSGDTSGGPRGRGGSRETFVFSKDSIAGSASGKLTFGASLSECAAFSGGILKAYHEYKI FT TKVILEFISEAPYTAAGSIAYELDPHNKLSTLASTINKFSIVKGGKRAYTSKQIGGGVW FT RDSSEDQFAILYKGSGNSSVAGSFRITMEVHTQNPKXVDGASPAPDPTPTPTPTPTPTP FT TPTPTPVTQEAFYGYSGVPECKIQSRKNSEFIDIYSLNFVKLFYWRDEAWSSETLSAGY FT IQNDSLRATPYLLVPTKKGKYSVYIECEGFQAVKAKGGNNDGKMSGFVTYDKDQSGWQV FT YSWAGCSLSQIKVKDTGVVAHPDMKVNGCSFTKGQLIERDFICSFHLEATEDGYWALQA FT PPVEKSDDHNFIVSYGSYTEKILEWGSVSISIDEINRTEARKIPKRDKDLSQSGRLADM FT TNVPTVGVVVAATTKPDLPVEQPNQLAVVEQPTEEQQKKRATIDQWLDAVEALAPPEPE FT GLVTQVRLPTAAERGLTSQKLPLHQRGTFKDLANRDADTYSVASRGLTGGLRGTPATPQ FT VETIEENPVQVDDDSKSLVSSSSRLTGGLRLRTSYRMTTQEAKQYDEIRRSFGKARAKA FT YYDDLCKANWY" FT CDS 3516..4115 FT /codon_start=1 FT /product="P3" FT /note="coat protein" FT /db_xref="GOA:R9U4K2" FT /db_xref="InterPro:IPR001517" FT /db_xref="UniProtKB/TrEMBL:R9U4K2" FT /protein_id="AGN49062.1" FT /translation="MNLGGRRNGRRGTRLRRRVRIARTTQPMVVVAQTQRRRRIRRRGR FT PSGDTSGGPRGRGGSRETFVFSKDSIAGSASGKLTFGASLSECAAFSGGILKAYHEYKI FT TKVILEFISEAPYTAAGSIAYELDPHNKLSTLASTINKFSIVKGGKRAYTSKQIGGGVW FT RDSSEDQFAILYKGSGNSSVAGSFRITMEVHTQNPK" FT CDS 3538..4119 FT /codon_start=1 FT /product="P4" FT /note="putative movement protein" FT /db_xref="InterPro:IPR001964" FT /db_xref="UniProtKB/TrEMBL:R9U4P5" FT /protein_id="AGN49064.1" FT /translation="MDDVEHGYADAYALLAPPNQWLWSRKPSVDAASEDEDDQVETLQE FT DLEGEEARGRLSYFRRILSRAVPPESSPSGRLFLSAQHSLVEFSRPTMSIRSQKSYWSS FT SPRPLTPQPVPSLMSLIPTTSSAPSHQQSTNSRSSRVASVPIRPNKSEVEYGEIRPKTN FT LQYSTRAVETPQLPARSASRWRFIPKIRNR" FT 3'UTR 5457..5612 XX SQ Sequence 5612 BP; 1494 A; 1445 C; 1357 G; 1316 T; 0 other; acaaaagggt tctagaggga ccctttatag cactcttctt tcaccagaag tttcatgcgc 60 tgtgagattc actttgacgg gacactcacg tttgctgaaa tcccccgtga tctcacaatc 120 cgccttttag agtttcaaac agctctaaga accatcgctt gttgtgttct caaccaacga 180 tacgatgctg aaactctggt gcgctctgct tttactattc tgcctctcat gctccgtgaa 240 ctcccattca cttgggagtt ccctagtgcg gtacacgccg cctttgcgaa gcatgcgtta 300 cgtaccgccg gcagaatacc tcctcccatg gaactcatct tccatggtga cacgccaaaa 360 cacatgtata gagatttcct ataccgcgtt gtcacgagag atattgcagc tagcctacag 420 agatctcacg agaatttcat ctgtggctat aaacgcttcc aactccggct ggaaagtgtt 480 tgcagaagag ttgagctcct tggtgacaca tttgcaccaa aacatatcga ggagctttca 540 tggtcttcgc ggactcgcgg tggacggggt gcaggcgctc gcaggaggct tcctgctcgc 600 tgtaatctac acctggagct acttgatatc gctgctcttt tgggttgtta caaccctggt 660 atgcagatat acgttccaga tgtcatcgat cgcctgtctc tacgtctgta caatgctctt 720 ggtccggctg gcttcaaaga tttttggagg gtggccggtt atgatcatct cgctgattgg 780 gactctgaca tcgaagctct ttcgggctct gtcattcaaa aagagctcaa tctcctttga 840 gatccctacc ccagggtaca agacagtaga gatacctcag aaaccaccca aagattgcgt 900 cttgctggtt caacacaacg acgctctcaa ttcccctgga ggatacgcat catgtgttcg 960 actcctcaac ggaagcaatg ctttgctcac tgcaaaacat gtttccaccc aggaaggtga 1020 tttgctcatc gcttcatcca gaactggaaa caggatcaag ttgtcattgt tcaacacaat 1080 cctaaccaca aagaattccg acgtgggtct ttatcaagga cctccaggtt gggaatcaat 1140 tcttggatgt aaagctgcag acatcgtacc agtggatggg ctctcatgtt gtgaggcctc 1200 catttatagg catgatggca actggatgcg ttccaacgca tccttggtcg gaacagaagg 1260 cacttttgtc tctgttttga gcaacaccat tgagggtttt agtggaactc cctattttaa 1320 cggaaaatcc attttgggag ttcatgtggg aggcaatgaa accagaacta acaatctgat 1380 ggcccccata cccagcatcc caggcctaac aaaacacaaa tatgtgtttg aatcgccaca 1440 actcagaggc cgcctgttta cagacgagga agttgagaaa ctcgaattcg agattgatga 1500 agctttccag aaagctcata atctcataca tttcaaatct aaaacaggaa gaaactgggc 1560 tgatgatgag gatgacatcc actttgaagc tccaaagttt cagggaaacg acgcacgcgg 1620 tcccgtccgc gaaaacaaaa cggtctctcc cacccctaca cactcgcccg tcgttacttc 1680 aggcaacgac actctcaaca aggtggtgga agcgttggtc tcgaagatcg acgtctcagt 1740 aatcgagcgg atggttgttc aaaagatctc ggaatcagct ttgaaacgcc caacgaacaa 1800 caatcggaaa cacaggcgaa agcccaaaac ttctcagcct actttgcctc cctctacaga 1860 tgggaggtac gtggcgcccg ctcgcagatc cccggcttcg aagcctgcgg atccctcccc 1920 aaatactact tcacaaaaca aaaagaagaa tcagagtggg ggaggttact tgcagaggga 1980 aacccggcgc tggcaagtaa agtcagcggc ttcgggtggc cccaattcgg acccgaggcc 2040 gaattgaaga gcctgcgcct tcaggcgcag agatggctct cacgcgcgga gtttgctaaa 2100 atcccgtcat ctgaggacag ggagcgcgtg atccggaaga ctgtggaggc atacaaaact 2160 tgccaaactc aatgccccaa gacttctcaa agcaacctgc ttgtgtggga agactttctc 2220 gaagatttca aacaagcagt gttctccctc gagcccgatg ccggtgttgg tgttcctttc 2280 gtgggatacg accggcgtac gcaccgtgga tggatcgaag atccaacact tctgccagtt 2340 cttgcccgca tgaccttcga ccgattacat aagatgtcga cggttaagtt tgagcaactt 2400 acagcagaac aattggtgca acagggcttg tgtgacccga tcagactatt tgtcaagggg 2460 gaacctcaca agcagtcaaa gctcgatgaa ggccgctacc gcctcattat gagtgtttcg 2520 ttgctggatc aactggtagc ccgggttctg tttcaaaatc agaacaagag ggaaattgca 2580 ctatggcgag ccataccctc aaaacccggt tttgggttgt ctacagacgc ccaatcgcga 2640 gaatttgtgc agaatctcgc gaaacagtgt ggggtcaaca cgactgaact tttggcaaat 2700 tggccaacct acactgttcc gactgactgc tctggtttcg actggagtgt tgcggattgg 2760 atgctccagg atgatatgga ggtccgcaac cgactcactc gcaacaacac agatctcacc 2820 aagcgcttgc gcgcttgctg gttgaaatgt atatccaatt ctgtgttgtg cttgagtgat 2880 ggcactctgc tagcccagcg catagcggga atccagaaat ctggttctta caacaccagt 2940 tcgagtaact ctcgaatccg agtgatggcc gcatatcatt gcggtgctac ctgggcgatg 3000 gctatgggtg atgatgcact cgagtcagtc gacacgaacc tagacgtgta taaaacacta 3060 ggattcaaag tcgaggtctc caaacaactg gagttttgtt ctcatatctt cgagaaggaa 3120 gaccttgctc gcccggttaa ccaaaacaag atgatctaca aactcttaca tggttacaac 3180 ccggcgaacg gctcttcgga ggtgatacag cgttatcttg acgcatgtat gagcgtactc 3240 aacgagttgc gccacgaccc cgaaaccgtt gagcttctgt accagtggct ggtcgctcca 3300 gtccagaaac aaaaagttta aaacagaagc tctcaagtca gccaggcaaa ttcgagttgc 3360 aagcactgga tgacctagtc tcgatacata aaccaccacg gattacaagt tcttagccgg 3420 gatcactctc ggcctttgca tcacattccc atttataatc cttggtgtgt acaaagtcta 3480 ccgtacggtc tccaacgata caagcaaact cgctaatgaa tttgggaggc cgtagaaatg 3540 gacgacgtgg aacacggtta cgcagacgcg tacgcattgc tcgcaccacc caaccaatgg 3600 ttgtggtcgc gcaaacccag cgtagacgcc gcatccgaag acgaggacga ccaagtggag 3660 acacttcagg aggacctcga gggcgaggag gctcgcggga gactttcgta ttttcgaagg 3720 attctatcgc gggcagtgcc tccggaaagc tcaccttcgg ggcgtctctt tctgagtgcg 3780 cagcattctc tggtggaatt ctcaaggcct accatgagta taagatcaca aaagtcatac 3840 tggagttcat ctccgaggcc ccttacaccg cagccggttc catcgcttat gagcttgatc 3900 cccacaacaa gctcagcacc ctcgcatcaa caatcaacaa attctcgatc gtcaagggtg 3960 gcaagcgtgc ctatacgtcc aaacaaatcg gaggtggagt atggcgagat tcgtccgaag 4020 accaatttgc aatactctac aagggcagtg gaaactcctc agttgccggc tcgttccgca 4080 tcacgatgga ggttcatacc caaaatccga aataggtaga cggagcttcc cctgcaccag 4140 acccaacacc gacaccaacc cccactccaa cacctactcc aactccaacg cccactcctg 4200 tgactcagga agccttctac ggctattctg gtgtcccaga atgtaagatc cagtccagaa 4260 agaactcgga attcatcgat atctattcgt tgaatttcgt taaattgttc tactggagag 4320 atgaggcgtg gagctcggag accctttcgg cgggatacat acaaaatgat tcgctccgcg 4380 caacccccta ccttttggtt ccgaccaaga agggaaaata ctctgtttat atagagtgtg 4440 agggttttca agcggttaaa gctaagggtg gtaacaacga cggcaagatg agtggttttg 4500 tcacgtatga taaagatcaa agcggttggc aagtgtactc atgggctggt tgctctctct 4560 cgcagatcaa agttaaagac actggtgtcg tggctcatcc cgacatgaag gtgaatggtt 4620 gctctttcac caaaggccaa cttattgaga gagattttat ttgttcgttc catctcgaag 4680 ctacggaaga tggatattgg gctttgcaag cccccccagt agagaagtct gatgaccaca 4740 attttattgt gtcatacggt tcttacaccg aaaagattct tgaatggggt tcagtatcca 4800 tatcaataga tgagataaat cgaacagaag ctcgcaagat tccgaaaagg gataaggatc 4860 tatcacaaag tggacgtttg gccgacatga ccaacgtccc cacagtgggg gtggttgtag 4920 cagcgaccac gaaaccggac ctgccggtag aacagccaaa ccagttggct gtggtggagc 4980 aacccactga agagcaacaa aagaaaaggg cgactatcga ccaatggctc gatgccgttg 5040 aagctcttgc tcccccagaa cctgaagggt tggtgacaca ggtgagacta ccaacagcag 5100 ctgaacgagg tttgacctcg caaaagctac ctttgcacca acgtggaacc ttcaaagacc 5160 tcgccaaccg agacgctgat acatacagtg tcgcatctcg tggattgact gggggcttga 5220 gaggaactcc cgcaacacct caggttgaaa cgattgagga gaaccccgtc caagtggacg 5280 atgattccaa atctctcgtt tcaagctcgt caaggcttac aggcggtctt cgtcttagaa 5340 cttcatatcg catgaccact caagaggcca agcaatatga tgagatcaga cgaagctttg 5400 gtaaagcacg cgcaaaagcc tattatgacg atttgtgtaa ggcgaactgg tattagccca 5460 cacaccctgg tcagggtcac agaccactcg ccggagtata aacgagatag gatggcaacc 5520 tagccactcc ccttcctccc gatgggaaat agggtgagtt ccaagcccaa ggaatgagat 5580 ttcagtgcaa tttttccact gaaatctatg gt 5612 //