Sequence of DPV Red clover necrotic mosaic virus
Red clover necrotic mosaic virus RNA-1, complete sequence.
ACC No: J04357
Dated: 2005-04-17 | Length: 3890 | CRC: 1313232103
!!NA_SEQUENCE 1.0 ID RNMRS1 standard; genomic RNA; VRL; 3890 BP. XX AC J04357; M24621; XX SV J04357.1 XX DT 02-FEB-1990 (Rel. 22, Created) DT 17-APR-2005 (Rel. 83, Last updated, Version 7) XX DE Red clover necrotic mosaic virus RNA-1, complete sequence. XX KW capsid protein; RNA polymerase. XX OS Red clover necrotic mosaic virus OC Viruses; ssRNA positive-strand viruses, no DNA stage; Tombusviridae; OC Dianthovirus. XX RN [1] RP 1-3890 RX MEDLINE; 93174929. RX PUBMED; 8438566. RA Xiong Z., Kim K.H., Kendall T.L., Lommel S.A.; RT "Synthesis of the putative red clover necrotic mosaic virus RNA polymerase RT by ribosomal frameshifting in vitro"; RL Virology 193(1):213-221(1993). XX RN [2] RP 1-3890 RX MEDLINE; 89348013. RX PUBMED; 2763465. RA Xiong Z., Lommel S.A.; RT "The complete nucleotide sequence and genome organization of red clover RT necrotic mosaic virus RNA-1"; RL Virology 171(2):543-554(1989). XX CC Draft entry and computer readable copy of sequence [1] kindly CC provided by Z.Xiong 15-MAY-1989. XX FH Key Location/Qualifiers FH FT source 1. .3890 FT /chromosome="RNA-1" FT /db_xref="taxon:12267" FT /mol_type="genomic RNA" FT /organism="Red clover necrotic mosaic virus" FT /strain="Australia" FT CDS join(124. .831,834. .2426) FT /codon_start=1 FT /db_xref="GOA:P22956" FT /db_xref="UniProt/Swiss-Prot:P22956" FT /note="putative; -1 ribosome frameshifting" FT /product="88 kDa protein" FT /protein_id="AAB02540.1" FT /translation="MGFINLSLFDVDKLMVWVSKFNPGKILSAICNLGIDCWNRFRKWF FT FGLNFDAHMWAVDAFIPLMPHYTEQMERVVDDFCSETPESKLEDCLELDTSVNEFFDEE FT VYKKDEEGVMKLQRSAARKHIKRVRPGMMQAAIKAVETRIRNRHTIFGDDMGKVDEAAV FT RATASDICGEFKINEHHTNALVYAAAYLAMTPDQRSIDSVKLAYNPKSQARRTLVSAIR FT ENKAVAGFKSLEDFGGPLSFPVEDAPYPILGIPEIRVAEKRASRVMKSKRVVGLPAVSA FT GLKVCVHQTSLHNMIVSLERRVFRVKNSAGELVVPPKPIQNAFDSISYFREEWLRKLSH FT KGQILKSSLADVVACYSSEKRKLYQKAADSLEKKPVQWRDSKVQAFIKVEKLECDTKDP FT VPRTIQPRSKRYNLAIGQYLRLNEKKMLDSIDDVFKEKTVLSGLDNRAQGRAIAHKWRK FT YQNPIGIGLDASRFDQHCSVDALKFEQTFYKACFPGDQQLETLLKWQLSNTGSALLPTG FT ELVRYRTKGCRMSGDINTGLGNKILMCSMVHAFLKETGVRASLANNGDDCVLFCEKGDY FT EQINRNLEQWFLCRGFEMTVEKPVDVLEKVAFCRSQPVCIATQWAMVRQLGSLSRDCFS FT TQDWLNPKTFKDAMNALGQCNGIINDGVPIHMAQAKLMHRIGGNRKFNLDALHKQMEYS FT WRDRLGKRTNLLWSEVEDATRLSYFRAFGIEPYIQRIVEEYFSQVEITCEGRSTNVLPT FT HYSRIHKDLIKAR" FT CDS 124. .834 FT /codon_start=1 FT /db_xref="GOA:P22956" FT /db_xref="UniProt/Swiss-Prot:P22956" FT /note="putative" FT /product="27 kDa protein" FT /protein_id="AAB02539.1" FT /translation="MGFINLSLFDVDKLMVWVSKFNPGKILSAICNLGIDCWNRFRKWF FT FGLNFDAHMWAVDAFIPLMPHYTEQMERVVDDFCSETPESKLEDCLELDTSVNEFFDEE FT VYKKDEEGVMKLQRSAARKHIKRVRPGMMQAAIKAVETRIRNRHTIFGDDMGKVDEAAV FT RATASDICGEFKINEHHTNALVYAAAYLAMTPDQRSIDSVKLAYNPKSQARRTLVSAIR FT ENKAVAGFKSLEDF" FT misc_feature 821. .841 FT /note="frameshifting region (put.); putative" FT CDS 927. .2426 FT /codon_start=1 FT /db_xref="GOA:P22956" FT /db_xref="UniProt/Swiss-Prot:P22956" FT /note="57 kD protein (put.); putative" FT /protein_id="AAB02541.1" FT /translation="MKSKRVVGLPAVSAGLKVCVHQTSLHNMIVSLERRVFRVKNSAGE FT LVVPPKPIQNAFDSISYFREEWLRKLSHKGQILKSSLADVVACYSSEKRKLYQKAADSL FT EKKPVQWRDSKVQAFIKVEKLECDTKDPVPRTIQPRSKRYNLAIGQYLRLNEKKMLDSI FT DDVFKEKTVLSGLDNRAQGRAIAHKWRKYQNPIGIGLDASRFDQHCSVDALKFEQTFYK FT ACFPGDQQLETLLKWQLSNTGSALLPTGELVRYRTKGCRMSGDINTGLGNKILMCSMVH FT AFLKETGVRASLANNGDDCVLFCEKGDYEQINRNLEQWFLCRGFEMTVEKPVDVLEKVA FT FCRSQPVCIATQWAMVRQLGSLSRDCFSTQDWLNPKTFKDAMNALGQCNGIINDGVPIH FT MAQAKLMHRIGGNRKFNLDALHKQMEYSWRDRLGKRTNLLWSEVEDATRLSYFRAFGIE FT PYIQRIVEEYFSQVEITCEGRSTNVLPTHYSRIHKDLIKAR" FT CDS 2428. .3447 FT /codon_start=1 FT /db_xref="GOA:P22955" FT /db_xref="HSSP:2TBV" FT /db_xref="InterPro:IPR000937" FT /db_xref="InterPro:IPR008975" FT /db_xref="UniProt/Swiss-Prot:P22955" FT /note="37 kD capsid protein (put.); putative" FT /protein_id="AAB02542.1" FT /translation="MSSKAPKKSKQRSQPRNRTPNTSVKTVAIPFAKTQIIKTVNPPPK FT PARGILHTQLVMSVVGSVQMRTNNGKSNQRFRLNPSNPALFPTLAYEAANYDMYRLKKL FT TLRYVPLVTVQNSGRVAMIWDPDSQDSAPQSRQEISAYSRSVSTAVYEKCSLTIPADNQ FT WRFVADNTTVDRKLVDFGQLLFVTHSGSDGIETGDIFLDCEVEFKGPQPTASIVQKTVI FT DLGGTLTSFEGPSYLMPPDAFITSSSFGLFVDVAGTYLLTLVVTCSTTGSVTVGGNSTL FT VGDGRAAYGSSNYIASIVFTSSGVLSTTPSVQFSGSSGVSRVQMNICRCKQGNTFILG" FT misc_signal 3862. .3890 FT /note="stem-loop structure" XX SQ Sequence 3890 BP; 1122 A; 857 C; 946 G; 965 T; 0 other; J04357 Length: 3890 May 10, 2005 10:09 Type: N Check: 505 .. 1 gacaaacgtt ttaccggttt gtaaatagga gcacacaagc tcgctagtcg 51 cccccttcgt atcggggatc tagagattaa acggtatacc tgtcatttta 101 aatttctact tttcgtacca gtcatgggtt ttataaatct ttcgcttttt 151 gatgtggata aattaatggt gtgggtgagt aaattcaatc caggcaaaat 201 cctgtctgca atctgcaact tgggtataga ctgttggaat cgctttcgca 251 agtggttctt tggtctcaac tttgatgcac atatgtgggc ggtggatgcc 301 ttcattccac tcatgccaca ttacacggag cagatggaac gtgtagtcga 351 cgacttctgc agcgaaaccc cagaatccaa attagaagac tgtctggaac 401 tggacacctc agtaaatgaa ttcttcgatg aagaggtgta caagaaggat 451 gaggaaggcg tgatgaaact ccaaaggagc gctgccagga aacacattaa 501 acgtgtgcgc ccaggcatga tgcaagcggc cattaaggct gtagaaacga 551 ggatcagaaa tcgccatacc atctttggag atgacatggg aaaggtagac 601 gaagctgcag ttagagcaac tgccagtgac atatgtggtg agttcaagat 651 caacgaacac cacaccaatg cattggtgta tgccgcagca taccttgcca 701 tgacaccaga ccagaggtct atcgacagcg tcaagctcgc ctacaatcct 751 aagagtcaag ccagaaggac tttggtttca gccattcgtg agaacaaggc 801 tgttgccggg ttcaaatccc ttgaggattt ttaggcggcc cactcagctt 851 tccggttgaa gatgccccat atcctatttt aggcatcccg gaaatcaggg 901 tagctgagaa gcgggccagt agagtcatga aaagtaagag agtcgtaggg 951 ttacctgctg ttagtgcagg tttgaaggtt tgcgtccatc aaacctccct 1001 acataatatg atagttagtc tcgaacgcag ggtttttcgt gtgaagaact 1051 ctgcaggaga gttagtagta cctcccaaac ctatccaaaa tgcatttgac 1101 tccatttcct atttccgtga agaatggttg aggaaattgt ctcacaaggg 1151 tcaaattctc aagtcctctt tggcggatgt tgtggcgtgt tactcttctg 1201 aaaagaggaa gttataccaa aaagcagcag actccttaga gaagaaacct 1251 gtgcaatgga gagactccaa ggtacaagca ttcatcaaag ttgaaaagct 1301 tgagtgtgac accaaggatc ccgtacctcg tacgattcaa cctcgatcca 1351 agaggtacaa cctagcaata ggccagtatc tcagattaaa tgaaaagaag 1401 atgttggatt ccatagacga cgttttcaaa gagaagactg tcttatcagg 1451 tttggacaac agggctcaag ggagagccat cgcccacaag tggcgtaaat 1501 accagaaccc aatagggatc gggctggatg catcgagatt cgatcaacat 1551 tgcagcgtcg atgccctcaa attcgagcaa actttctata aagcgtgctt 1601 tcctggggat caacagttgg aaacattatt gaaatggcaa ttatccaata 1651 ctggatcggc tttgttacca actggagaac tggttagata tcgtaccaaa 1701 gggtgtcgca tgagcggcga tataaacaca ggccttggga acaaaattct 1751 catgtgcagc atggtacacg cattcttgaa agagacggga gtgcgagctt 1801 cgttggccaa caatggtgac gattgtgtcc tcttctgtga gaagggagat 1851 tatgagcaga taaaccgcaa tcttgagcaa tggttcctgt gcaggggttt 1901 cgaaatgacc gtcgaaaaac ctgtcgatgt actcgagaag gtggcgtttt 1951 gtcgtagtca accggtttgc attgccacgc aatgggctat ggtaaggcaa 2001 ttgggaagtt tgtcgagaga ctgcttttca acacaggatt ggttaaaccc 2051 aaagacattc aaagatgcaa tgaatgcgct aggtcaatgt aacgggatca 2101 tcaatgatgg agttccaata catatggcac aagcaaaact aatgcataga 2151 atcggtggaa accgtaagtt caatctagat gcgcttcata aacaaatgga 2201 gtacagctgg agagatcgtc tcggtaagag aacgaatctt ttgtggagtg 2251 aggtagagga tgctacaaga ttgtcgtact ttagagcatt cggaatagaa 2301 ccttacattc aaagaatagt ggaggagtac ttctcacagg tggaaatcac 2351 ttgtgagggg cgatcaacaa acgtattacc tacacactac tctagaatcc 2401 acaaagatct aatcaaagcc cgataaaatg tcttcaaaag ctcccaagaa 2451 atccaaacaa cggtcccagc ccaggaaccg gaccccaaat accagtgtaa 2501 agactgtagc catccccttt gccaagacgc aaataatcaa gactgtgaat 2551 cctccaccga aaccagcaag aggtatattg catacccagt tagttatgag 2601 tgtggttgga tcagttcaaa tgcgtacaaa taatggcaaa tccaaccaaa 2651 ggttcagatt aaaccctagc aatcctgctc ttttccccac tctagcatat 2701 gaagctgcaa attatgacat gtatcgctta aagaagctga cactccgtta 2751 cgtcccactc gttaccgtgc aaaattccgg gcgagttgca atgatctggg 2801 atcccgactc gcaagactcg gccccacaat ccagacagga gatatcagcc 2851 tattcccgat cagtctcgac tgccgtgtac gagaaatgct cgttgacgat 2901 tccggcggat aatcaatggc gcttcgttgc agataacacc acagtggaca 2951 gaaagctcgt cgattttggc cagcttttgt tcgttacaca ctctggtagt 3001 gatggaatag aaacagggga catattctta gattgtgaag tcgagttcaa 3051 aggaccccaa ccaaccgcaa gcatcgtaca gaaaactgta attgatctcg 3101 gtgggacact cacttctttc gaagggccat cttatctgat gcctccggat 3151 gcctttatta ccagttctag tttcggcctg tttgttgacg tcgcagggac 3201 ctatctgctt acactagtgg tgacttgttc gaccactggt agcgtcacag 3251 taggaggaaa ttcaactctg gttggcgacg gtagggcggc atacggtagt 3301 agcaattaca ttgcttctat agtattcact agttcgggtg tgttatcgac 3351 cacccctagt gtgcagtttt caggttcctc tggagtatca cgcgtgcaaa 3401 tgaacatctg cagatgtaaa caggggaaca ctttcatact tggttaattg 3451 gttcttttaa gtgtagcctc cacccgagtt gcaagagggg aacacgcagt 3501 ctcgccgacc ctgttggcaa acagtaaaat tgcaaaaaat agagtgctag 3551 gagtagttcc cgtacccgcg ggagcaagac cctactacag tagacgaacc 3601 ggcatcggac cctgggaaac aggtacctag cgtattaata ggtcgctaga 3651 aatcgggcgg gcttcacctt cgggtaaccc gccgtcgaga gggaaaacct 3701 ctgtgtggtt gtgcgcacgt cgttgtcgga agactctcac tgttgtagtt 3751 atttcctttt tcttttaggt aggagcactt gctcagaggg cgcatacctc 3801 tggtaaaaca aaattggccc ctgagagtag aaaactcagg ttaataaaac 3851 aggagaatat ttacctagtc gtataacggc taggtacccc