Dbfetch
ID HQ827780; SV 2; linear; genomic RNA; STD; VRL; 5865 BP. XX AC HQ827780; XX DT 17-JUL-2011 (Rel. 109, Created) DT 09-NOV-2012 (Rel. 114, Last updated, Version 4) XX DE Cotton leafroll dwarf virus, complete genome. XX KW . XX OS Cotton leafroll dwarf virus OC Viruses; Riboviria; Luteoviridae; Polerovirus. XX RN [1] RC Publication Status: Online-Only RP 1-5865 RX DOI; 10.1186/1471-2199-12-40. RX PUBMED; 21864377. RA Silva T.F., Romanel E.A., Andrade R.R., Farinelli L., Osteras M., RA Deluen C., Correa R.L., Schrago C.E., Vaslin M.F.; RT "Profile of small interfering RNAs from cotton plants infected with the RT polerovirus Cotton leafroll dwarf virus"; RL BMC Mol. Biol. 12(1):40-40(2011). XX RN [2] RP 1-5865 RA Andrade R.R.S., Silva T.F., Correa R.L., Castilho Y., Vaslin M.F.S.; RT ; RL Submitted (22-DEC-2010) to the INSDC. RL Virology, Federal University of Rio de Janeiro, Av. Carlos Chagas Filho, RL Rio de Janeiro, Rio de Janeiro 21941-590, Brazil XX RN [3] RC Sequence update by submitter RP 1-5865 RA Andrade R.R.S., Silva T.F., Correa R.L., Castilho Y., Vaslin M.F.S.; RT ; RL Submitted (08-NOV-2012) to the INSDC. RL Virology, Federal University of Rio de Janeiro, Av. Carlos Chagas Filho, RL Rio de Janeiro, Rio de Janeiro 21941-590, Brazil XX DR MD5; dd6edf665c3b96e7094385b2b543617a. DR EuropePMC; PMC3189115; 21864377. DR EuropePMC; PMC4007622; 24607237. DR EuropePMC; PMC4422679; 25946037. XX CC On Nov 8, 2012 this sequence version replaced gi:339779212. XX FH Key Location/Qualifiers FH FT source 1..5865 FT /organism="Cotton leafroll dwarf virus" FT /host="Gossypium hirsutum" FT /mol_type="genomic RNA" FT /country="Brazil" FT /collection_date="2007" FT /note="CLRDV" FT /db_xref="taxon:312295" FT gene 71..856 FT /gene="ORF0" FT /locus_tag="CLRDV-P0" FT CDS 71..856 FT /codon_start=1 FT /gene="ORF0" FT /locus_tag="CLRDV-P0" FT /product="P0" FT /note="putative silencing suppressor protein" FT /db_xref="GOA:G0YSW8" FT /db_xref="InterPro:IPR006755" FT /db_xref="UniProtKB/TrEMBL:G0YSW8" FT /protein_id="AEK06218.2" FT /translation="MLNLIICRISSAALIRHASASVSNNQVDFLFFLTQLPEYLTFCNS FT PELNPFHDGFNESFLLRSLLFLLPFIIRGISSSRFALPRGIRADFMALSRATKYMPTVT FT DFKGNYLVALHLPSCRATGRATRERFAIRSLVENNRLEFEYLCTRGYEYFKRFAQTLAG FT KVRECPQERWTVRPSCVGLRALAIRLMDLVPGDEPLSNRSGRRLSVLVHNLYGDGTSLS FT FWRIARFPDSSYYHFDDEGGVGLLYQSQIQQLLCEGESS" FT gene 225..2156 FT /gene="ORF1" FT /locus_tag="CLRDV-P1" FT CDS 225..2156 FT /codon_start=1 FT /gene="ORF1" FT /locus_tag="CLRDV-P1" FT /product="P1" FT /note="putative RNA dependent RNA polymerase" FT /db_xref="GOA:G0YSW9" FT /db_xref="InterPro:IPR000382" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR018019" FT /db_xref="UniProtKB/TrEMBL:G0YSW9" FT /protein_id="AEK06219.1" FT /translation="MMALMSLFSFVLFFFSFHSSSGEFLPLDSLFPVGFEQTLWPSQEP FT PSICPRLPISKATISLPCICPPAEPLAERPAKDLLFALWSKTTGSSLSISALADTNTLK FT DSLKLWREKLESAPKSAGRFALHVWAFALWQFVSWTWYLVTNHFLTVAVVVFLYLCTTC FT MVTALRFLFGGLLGFLIRHITILTMKAVWGCYTKAKSSSSYVKEKAVEGFLHFTVPQKP FT PRSSVLLVQHPDGSHVGYATCILLYNGEYGLLTAEHVWNTPGAKVVSTKGDRNKIPFSE FT FRRILSVDGGDLVILRGPPSWNSLLSTKAVPFTTQSRLEKGKTTLYSFDGEWKATNGEV FT VGTEGKFAAHLSNTSGGYSGTPLFHGKCVVGVHVGGSKLNNWNLAATIPTVSGLTSPNY FT AFETTAPQGRVFDEAAIENYESLVRLTESLVNFQPKSGKKWADYSEEEDFFVEASETLP FT LQQPVPSAPPLSPRFYPQVDASPVAAPMVPESASGNELGGADRPNKASPSATPVEQQNG FT GPSVMDRLVAELVNKISTSSIEKEVAKQVASKMPIPETPPQQPKQQRRRRKQSKTSKTT FT STPSTTGKYQPPHKRSQASKLVAPSPSSTTPNKRANRLGGSSSVQNSPNWRKKPEASGG FT LNSAPKRS" FT gene <1700..3442 FT /gene="ORF2" FT /locus_tag="CLRDV-P2" FT CDS <1700..3442 FT /codon_start=1 FT /gene="ORF2" FT /locus_tag="CLRDV-P2" FT /product="P2" FT /note="putative RNA dependent RNA polymerase" FT /db_xref="GOA:G0YSX0" FT /db_xref="InterPro:IPR001795" FT /db_xref="InterPro:IPR007094" FT /db_xref="UniProtKB/TrEMBL:G0YSX0" FT /protein_id="AEK06220.1" FT /translation="GKRTRRSRPPKQGKSICHPRRAAERWSIRNGSAGGRAGKQNFNQL FT DREGGSQTSGIQNAHSRDPSSTTQAAAAASEAIKDFQNYFHAFYNWQVPASAQEVPGFQ FT ACGTLPQFYYAKQKGKSPWGEQLCAEFPQLEEETRGFGWPQFGPQAELKSLQQQAARWL FT ERAQSAQIPSKEQRERVIQKTVEAYASCRTNRPAATARDVLSWPDFLEDLKEAVHSLEL FT DAGVGVPYVGYGLPTHRGWVEDSKLLPVLSRLVFDRLQKMSEASFESMTAEELVQAGLC FT DPIRLFVKGEPHKQAKLDEGRYRLIMSVSLVDQLVARVLFQAQNKREIALWRAIPSKPG FT FGLSTDGQTQEFLNLLANQMSTTAEDVVARWREYLVPTDCSGFDWSVADWMLHDEMEVR FT NRLTVQNNGLTRRLRACWLRCISNSVLCLSDGTLLAQRVAGVQKSGSYNTSSSNSRIRV FT MSAYHCGASWAMAMGDDALESVDTDLSVYKQLGFKVEVSGELEFCSHIFLSPTLAVPVN FT RAKMLYKLIHGYNPGSGNLEVISNYLNACFSVLNELRSDPDFVALLYSWLVTPVLPQKN FT DTED" FT gene 3630..4235 FT /gene="ORF3" FT /locus_tag="CLRDV-P3" FT CDS 3630..4235 FT /codon_start=1 FT /gene="ORF3" FT /locus_tag="CLRDV-P3" FT /product="P3" FT /note="putative capsid protein" FT /db_xref="GOA:Q4KUQ6" FT /db_xref="InterPro:IPR001517" FT /db_xref="UniProtKB/TrEMBL:Q4KUQ6" FT /protein_id="AEK06221.1" FT /translation="MNTVVGRRTINGRRRPRRRNRRRQNQPVVVVQAPRNTQRRRRRRR FT GGRNRTGGRIPGGPGASSETFVFSKDSLSGSSSGSITFGPSLSDCPAFSNGMLKAYHEY FT KISMVLLEFISEASSTSSGSISYEVDPHCKLSTLSSTINKFGITKNGRKQFAASFINGQ FT EWHDTSEDQFRILYKGNGSSSIAGSFRVTIRCQFHNPK" FT gene 3661..4185 FT /gene="ORF4" FT /locus_tag="CLRDV-P4" FT CDS 3661..4185 FT /codon_start=1 FT /gene="ORF4" FT /locus_tag="CLRDV-P4" FT /product="P4" FT /note="putative movement protein" FT /db_xref="InterPro:IPR001964" FT /db_xref="UniProtKB/TrEMBL:Q4KUQ5" FT /protein_id="AEK06222.1" FT /translation="MEEDDHVGATGVGKISQWLWSKPLGTHNAEDDEDEEVVIGQEDAF FT LEDQELQARHLFSQKTVSREVPQDQSRSGRLYQIARHSAMECSRPTMNIRSQWSYWSSS FT PRPLQHPPVPSLTKWIHTVNCQPYPPRLTNSESPRTGGSNLRRLSSMDRNGMTPPRTSS FT ESYIKAMVPRR" FT gene <4236..5717 FT /gene="ORF5" FT /locus_tag="CLRDV-P5" FT CDS <4236..5717 FT /codon_start=1 FT /gene="ORF5" FT /locus_tag="CLRDV-P5" FT /product="P5" FT /note="putative readthrough domain of capsid protein" FT /db_xref="GOA:G0YSX3" FT /db_xref="InterPro:IPR002929" FT /db_xref="UniProtKB/TrEMBL:G0YSX3" FT /protein_id="AEK06223.1" FT /translation="VDDGPPPPGPSPPPSPSPPPPVPSRFWGYEGNPQCKILTAENNRN FT IDSRPLNFVSMYKWEDEKWDKVNLQAGYSRNDRRCMETYFVIPASRGKFHVYLEADGEF FT VVKHIGGDCDGNWLGNIAYDVSQRGWNIGDYKGCRISNYQSNTVFVAGHPDAEMNGKHF FT DAARAVEVDWFASFELTCDDEDGAWRIYPPPIQKDSSYNYTVSYGDYTEKYCEWGAVSV FT SIDEDNSTGTKSRIKPHKGVMMWSYPEKENSEGESESETDQGKDLKTPDATTLVDFESD FT DNSSSKSAESIPDNTDLNPWNAVVSSKSDRPFKQEDDRVSTSSRLSGNLRRPGSGNPQL FT RSPLGREKAPEPSESDLDAARIKGLPPPREQLPGFKPTRSISTFNPEPDLVEAWRPGTG FT PGYSKEDVAAATILAHGSIADGRSMLDKRDQEVLRSRSSWGTGGFLKKMKTSSSDKAEK FT LAKLSTAERREYELIKNSSGKTQAALFLEQKVMDR" XX SQ Sequence 5865 BP; 1504 A; 1477 C; 1450 G; 1434 T; 0 other; acaaaagaac gatagagggg ttatttaaca cttgagacat aactcgcttt gcttgagaat 60 tgtctcgtgt atgttgaatt tgatcatctg cagaatttct tccgcagctc tcattcgaca 120 cgcctctgct tcggtgagta acaatcaggt tgatttcttg ttctttctca cgcaacttcc 180 agagtacctg accttctgta actctcccga actcaacccc ttccatgatg gctttaatga 240 gtcttttctc cttcgttctc ttctttttct ccttccattc atcatcaggg gaatttcttc 300 ctctagattc gctcttcccc gtgggattcg agcagacttt atggccctct caagagccac 360 caagtatatg cccacggtta ccgatttcaa aggcaactat ctcgttgcct tgcatctgcc 420 ctcctgccga gccactggcc gagcgacccg cgaaagattt gctattcgct ctttggtcga 480 aaacaacagg ctcgagtttg agtatctctg cactcgcgga tacgaatact ttaaaagatt 540 cgctcaaact ctggcgggaa aagttagaga gtgcccccaa gagcgctgga cggttcgccc 600 ttcatgtgtg ggccttcgcg ctctggcaat tcgtctcatg gacttggtac ctggtgacga 660 accactttct aaccgtagcg gtcgtcgtct ttctgtactt gtgcacaact tgtatggtga 720 cggcacttcg ctttcttttt ggcggattgc taggtttcct gattcgtcat attaccattt 780 tgacgatgaa ggcggtgtgg ggctgctata ccaaagccaa atccagcagc tcctatgtga 840 aggagaaagc agttgagggg tttctgcatt ttactgtacc acaaaaaccc ccccgctcca 900 gtgtgttgct tgtgcaacat cctgacggct cccatgtagg ttatgccacc tgcattttgt 960 tatataacgg tgagtatggt ctcctcaccg cggagcacgt atggaatact cctggagcca 1020 aagtcgtgtc taccaaaggt gaccgcaaca agattccctt ctctgaattc cgacggattt 1080 tatcagttga tggaggagat cttgttatcc tgagagggcc ccctagttgg aatagccttc 1140 tctcgaccaa agcggttcct ttcaccaccc aatcccgtct tgagaaaggg aaaaccaccc 1200 tttattcttt tgatggtgag tggaaggcta ccaatggaga ggtggtaggc acagaaggca 1260 agtttgctgc acacctaagc aacacttcag gtggatacag tgggactcct cttttccatg 1320 ggaaatgcgt ggtcggagtc cacgttggtg gttctaagtt aaataactgg aacttggctg 1380 ctaccatccc cactgtgtca gggttaacat cgcccaatta cgcttttgag acaaccgcgc 1440 cacaaggccg ggtcttcgat gaggctgcca ttgaaaatta cgagtcactg gtcaggttga 1500 ctgagagtct cgtaaacttt cagcctaaaa gcggaaagaa atgggctgat tactccgagg 1560 aggaagactt cttcgttgaa gcctccgaaa cccttcctct ccaacaaccc gtgccctcag 1620 ctccacctct ttccccgagg ttttatcctc aggtggatgc atctcctgtg gctgcgccga 1680 tggttcctga gtcggcgtcg ggaaacgaac taggcggagc cgaccgccca aacaaggcaa 1740 gtccatctgc cacccccgtc gagcagcaga acggtggtcc atccgtaatg gatcggctgg 1800 tggccgagct ggtaaacaaa atttcaacca gctcgatcga gaaggaggta gccaaacaag 1860 tggcatccaa aatgcccatt ccagagaccc ctcctcaaca acccaagcag cagcggcggc 1920 gtcggaagca atcaaagact tccaaaacta cttccacgcc ttctacaact ggcaagtacc 1980 agcctccgca caagaggtcc caggcttcca agcttgtggc accctccccc agttctacta 2040 cgccaaacaa aagggcaaat cgccttgggg ggagcagctc tgtgcagaat tcccccaact 2100 ggaggaagaa accagaggct tcgggtggcc tcaattcggc ccccaagcgg agctgaagag 2160 cttgcagcag caagctgcta ggtggctgga acgcgcccag tccgcacaaa taccctccaa 2220 ggaacagagg gagcgtgtaa ttcaaaagac cgtggaagcg tacgcgtcgt gtcgtacgaa 2280 tcggcccgcg gcaaccgcta gggatgtcct tagctggccg gattttcttg aagatcttaa 2340 agaggccgtg cactccctgg agctcgatgc cggtgtaggt gtaccctacg ttggatatgg 2400 tctccctact catcgtgggt gggttgaaga ctccaagctt ttgccagtcc tttctcggct 2460 ggtctttgac cgattacaga agatgtcaga ggctagtttt gagtccatga ctgctgaaga 2520 gcttgtccag gctgggctct gtgacccgat cagattattc gtgaaagggg agccgcacaa 2580 acaagctaag cttgatgaag gtcgctaccg cctcatcatg tctgtatccc tagtggatca 2640 attggtggcc cgggttttgt tccaagcgca aaacaaacgg gagattgctc tctggcgtgc 2700 aatccccagt aaacccggtt ttggactgtc tactgatgga cagacccagg agttccttaa 2760 tctcctggcg aaccagatga gtaccaccgc cgaagatgta gttgctaggt ggcgggaata 2820 cctggttccc actgattgct ctggtttcga ctggagtgta gccgactgga tgcttcacga 2880 tgagatggag gtccggaacc gcctcacggt acagaacaac ggactgacga ggcgccttcg 2940 agcctgctgg ctcaggtgca tatctaactc agttctgtgc ctttcagacg gaacgctgct 3000 ggcccaacga gtggctggag tgcaaaagag cggtagttac aacaccagct cctccaacag 3060 cagaatccgc gttatgagtg cttaccattg tggagcctca tgggcgatgg ccatgggcga 3120 tgatgccctt gaatcagtgg acacggacct atccgtgtat aaacaattag gttttaaagt 3180 cgaggtgtca ggagaactgg agttctgttc tcatatcttt ctttccccta ccctcgccgt 3240 cccggtgaat agagccaaaa tgctctacaa gctcatacat ggctataacc cgggatcagg 3300 aaatctggag gttatctcca actacctgaa cgcctgtttc agcgttttaa acgagttgcg 3360 ttcagaccca gatttcgtag ctctcctcta ctcgtggctc gtcactccag tcttgccaca 3420 aaagaacgat acagaggatt gagcaaacct gagctagctc ttaatcttgt tgcaatagag 3480 agaagcttaa agtcaagatc acagcctaac actggactac aaattcctat caggattcac 3540 agcaggtttt ctggtagcag taccaatatc aacgttaggc ttatatttaa tctacctaaa 3600 ggtttctgct cacgtgcgac aaatagttaa tgaatacggt cgtgggtaga agaacgatta 3660 atggaagaag acgaccacgt aggcgcaaca ggcgtcggca aaatcagcca gtggttgtgg 3720 tccaagcccc tcggaacaca caacgcagaa gacgacgaag acgaggaggt cgtaatagga 3780 caggaggacg cattcctgga ggaccaggag cttcaagcga gacatttgtt ttctcaaaag 3840 acagtctctc gggaagttcc tcaggatcaa tcacgttcgg gccgtcttta tcagattgcc 3900 cggcattcag caatggaatg ctcaaggcct accatgaata taagatctca atggtcttat 3960 tggagttcat ctccgaggcc tcttcaacat cctccggttc catctcttac gaagtggatc 4020 cacactgtaa attgtcaacc ctatcctcca cgattaacaa attcggaatc accaagaacg 4080 ggaggaagca atttgcggcg tctttcatca atggacagga atggcatgac acctccgagg 4140 accagttcag aatcttatat aaaggcaatg gttcctcgtc gatagctggc tcttttaggg 4200 tcacaattcg gtgccaattc cacaatccaa aataggtaga tgatggtccc cccccaccgg 4260 gtccgtctcc ccctccttct ccttcccccc ctcctccagt tccttctcgg ttctggggtt 4320 atgagggaaa tccacaatgc aagatactca cggctgaaaa caacagaaat atcgatagta 4380 ggccgttgaa tttcgtatca atgtataagt gggaagatga gaaatgggat aaagtcaatc 4440 ttcaggccgg ttactctcgc aatgatcgac gttgtatgga aacatacttc gtgatcccag 4500 cttcccgagg aaaatttcat gtttatcttg aagctgatgg cgagttcgtt gtcaaacaca 4560 ttggcggcga ctgcgatggt aactggctgg gcaatatcgc ttatgacgtt tcccagagag 4620 gttggaatat tggagactat aaaggttgca ggattagcaa ctaccagtca aacacggttt 4680 ttgtggctgg acacccggac gcggaaatga atggcaagca ctttgatgct gcacgcgcag 4740 tggaagtgga ttggtttgcc tcttttgagc ttacatgtga tgatgaagat ggagcttggc 4800 gaatctaccc tccccccata caaaaagata gctcgtataa ttacactgta tcctacggcg 4860 attatactga gaaatattgc gagtggggag ctgtctcggt ctctatagac gaagacaatt 4920 ccacagggac caaatcaaga attaaaccac ataagggggt aatgatgtgg tcatacccgg 4980 agaaggaaaa ctctgaaggc gaaagcgaat ctgaaaccga tcaaggaaaa gatcttaaaa 5040 ccccagacgc cacaacttta gtcgatttcg aatctgatga caattcctct tccaaatcgg 5100 cagaaagcat tccggataac acagacttga atccttggaa tgcagttgtg tcttccaagt 5160 cagatagacc atttaaacaa gaagacgatc gagtttctac aagctctcgt ttatcaggta 5220 atctgaggcg tcctggatct ggaaatcctc aactgcgctc tccacttgga agggagaaag 5280 cgccagaacc atcggaatct gaccttgacg ctgcaaggat taagggactt cctcctccac 5340 gggagcaact cccgggtttt aaaccaacac gatcaatttc aacgtttaac ccggaaccag 5400 atttagttga ggcttggagg ccaggaacag gtcctggata ttccaaggag gatgttgctg 5460 ctgcaacaat tctcgcgcat ggttctatag ctgatgggag gtcgatgcta gacaaacgtg 5520 atcaggaagt tctaagaagc cgttccagtt ggggaactgg cggattctta aagaaaatga 5580 agacatcttc ctctgacaaa gctgaaaagc tcgcgaaact gtctaccgcc gagaggcgtg 5640 aatatgaact aataaagaac agctcgggga aaacccaagc tgcattgttt cttgagcaaa 5700 aggtgatgga taggtaagtg attaagctta tcctcgtgga tcaccccgtc gagcctgtga 5760 cgttaaacag gaacgaatcc ggaaggatag gcagcgaacc tttaatccta aggccaggct 5820 atagccctga gacagggagg ggggactctc cctggggttt cggtg 5865 //