ID AY376451; SV 1; linear; genomic RNA; STD; VRL; 4258 BP. XX AC AY376451; XX DT 30-SEP-2004 (Rel. 81, Created) DT 11-JAN-2006 (Rel. 86, Last updated, Version 3) XX DE Subterranean clover mottle virus isolate AL, complete genome. XX KW . XX OS Subterranean clover mottle virus OC Viruses; Riboviria; Solemoviridae; Sobemovirus. XX RN [1] RP 1-4258 RA Fosu-Nyarko J., Jones R.A.C., Dwyer G.I., Jones M.G.K.; RT "Genetic diversity in moderately severe, severe and very severe isolates of RT Subterranean clover mottle virus in Western Australia shows the ORF1 gene RT product, P1, could be a pathogenicity determinant"; RL Unpublished. XX RN [2] RP 1-4258 RA Fosu-Nyarko J., Jones R.A.C., Dwyer G.I., Jones M.G.K.; RT ; RL Submitted (29-AUG-2003) to the INSDC. RL State Agricultural Biotechnology Centre, Division of Science and RL Engineering, Murdoch University, South Street, Perth, WA 6150, Australia XX DR MD5; 539e6c0a693a32adea7c31e51bbd6063. DR EuropePMC; PMC3791421; 23830075. XX FH Key Location/Qualifiers FH FT source 1..4258 FT /organism="Subterranean clover mottle virus" FT /isolate="AL" FT /mol_type="genomic RNA" FT /db_xref="taxon:12472" FT gene 69..608 FT /gene="ORF1" FT CDS 69..608 FT /codon_start=1 FT /gene="ORF1" FT /product="P1" FT /db_xref="UniProtKB/TrEMBL:Q5YL97" FT /protein_id="AAR32102.1" FT /translation="MPSVSIEVYSKERPTLLLLTHRFWPSSETIPRDYEYDQTVILHGR FT FNNEEETHILCISRCSICDFWCVLGDSNLPGIEIWDSALSCFANAEDCTLSGQCSACRN FT PPVEEDADSDSSEEYQSLGNRTVIRDSGPEGYWSESSDDEDYTRAAYSPCDYEGNLVRL FT FQLQSIQPLQEGDDQE" FT gene 605..3504 FT /gene="ORF2a/2b" FT CDS join(605..1851,1851..3504) FT /codon_start=1 FT /ribosomal_slippage FT /gene="ORF2a/2b" FT /product="P2a/2b" FT /note="polyprotein; translated through -1 ribosomal FT frameshifting of ORF2a and ORF2b; contains motifs for a FT serine protease and RNA-dependent RNA polymerase; encodes FT for a VPg" FT /db_xref="GOA:Q5YLA4" 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:Q5YLA4" FT /protein_id="AAR32103.1" FT /translation="MNTDTIRAIFLYWISLALSMAAVVQLETKVDLSNHQSLVMMIAIL FT LPALSVLFGLRVWRRWKVVIVKEVNPREVINLVGEPFLDPVRGVLMNGISTSGGTFEVL FT IEPKWWHLFPRSAISKDGEKECAIFNAGYSSVLPGTEPTSLVMLKAKDLAVGFGARVRF FT NGCSDYLLTAYHVIKPHEKLNLCKGGYMVEDVDLAVTCGSDHDAVDFALIKVPPAVWSK FT LKVGVGKLEPMTKKTHITVYGGSDSTRLLSSSGPAYKGKAGYAIIHEASTTKGWSGTPL FT YSGNTIVGVHTGSGQVGYSNRAVNVKLLLTAVSKFETIFSEISYGELDEDNYLLRNRDD FT FVEVEILGKGKFLLGDSSFVDITGKPLGWEKEKRARGEALWHDASDDDFYEDANFLADF FT YKDSKETVDDIMLEHLKLPAGGHNFKNCVATLIELASYEWKNLSESISSRGMPLADVGR FT SSCKFRETVRKELGAAVTAASFEFPELQGYSWPDRGSKAERGSLLYQAGRFKPTPPPAK FT LYEAVVKLAPEYPETVPRACLRREQWDKEEIAKEAKEIGQKKVNPKASPGVPLSILGKT FT NKEVLDRHGDLVYIAVAERICMLAEADLADAPDPVDLVKAGYCDPIRLFVKQEPHPLKK FT VVEGRFRLISSVSLVDQLVERLLFGPQNETEIDLWQSVPSKPGMGLSQPWQVSALWNDL FT EHKHKLSPAAEADISGFDWSVQSWEILADVCIRIDRGGFKGNLRKAALNRFKCFSNAVF FT QLSDGTLISQGLPGLMKSGSYCTSSTNSRIRCLMAKIIGAPWCIAMGDDSVEGYVEGAR FT EMYDSLGHTCKDYIPCKADLDKLEEVNFCSHTIRKDSYYLQSWAKTLFRFLSQPEDVNE FT LAVELKGCPEWPRISKYLRRIGRISDKTSEGEGKQNDRPQGEKIKEEIRSRDHHPAEPT FT EIWWETIPEPNDSGQEREDPYGFNSSHREIFPCNPL" FT gene 605..2347 FT /gene="ORF2a" FT CDS 605..2347 FT /codon_start=1 FT /gene="ORF2a" FT /product="P2a" FT /note="encodes a VPg and contains motif for a serine FT protease" FT /db_xref="GOA:Q5YLA3" FT /db_xref="InterPro:IPR000382" FT /db_xref="InterPro:IPR009003" FT /db_xref="UniProtKB/TrEMBL:Q5YLA3" FT /protein_id="AAR32104.1" FT /translation="MNTDTIRAIFLYWISLALSMAAVVQLETKVDLSNHQSLVMMIAIL FT LPALSVLFGLRVWRRWKVVIVKEVNPREVINLVGEPFLDPVRGVLMNGISTSGGTFEVL FT IEPKWWHLFPRSAISKDGEKECAIFNAGYSSVLPGTEPTSLVMLKAKDLAVGFGARVRF FT NGCSDYLLTAYHVIKPHEKLNLCKGGYMVEDVDLAVTCGSDHDAVDFALIKVPPAVWSK FT LKVGVGKLEPMTKKTHITVYGGSDSTRLLSSSGPAYKGKAGYAIIHEASTTKGWSGTPL FT YSGNTIVGVHTGSGQVGYSNRAVNVKLLLTAVSKFETIFSEISYGELDEDNYLLRNRDD FT FVEVEILGKGKFLLGDSSFVDITGKPLGWEKEKRARGEALWHDASDDDFYEDANFLADF FT YKDSKETVDDIMLEHLNCQRVATTSKIVSPPSLSLRPMSGRTSLRVSPHEGCPLPTLDD FT RVASLEKLLERSLEQLLQLQVSSSQNSKDIAGLIEVQKQSVALSSIKREGSNQPPRQQN FT STKQSSSLPQSTQKQSPEPASGESSGIKKKSRRKRRKSDKRKSTPKPPPASHSPSWVKQ FT TKKC" FT gene 3323..4084 FT /gene="ORF3" FT CDS 3323..4084 FT /codon_start=1 FT /gene="ORF3" FT /product="coat protein" FT /db_xref="GOA:Q8BEQ0" FT /db_xref="InterPro:IPR000937" FT /db_xref="InterPro:IPR029053" FT /db_xref="UniProtKB/TrEMBL:Q8BEQ0" FT /protein_id="AAR32105.1" FT /translation="MTGRRVRRSKKKSGQETTTQQNRQRSGGKQSQNQMIQVKRERTPM FT ASTVVIGRSFPAIHSEGTRTRVCHTELIRAVDINTIFTLNFTWCIPSAFPWLSGVAVNW FT SKWRWVSLRFTYMPAAATTTQGTVALGYLYDALDAVPAALQQMSSLAGFSTGAVWSGSE FT GSVLLRAANKNGNVPGAVSSQLNIADPSKYYRYENLTNFAAIAEGTKNLYAPARLAVAA FT ANGAADVGGVGTVYATYVVELIDPISSALNS" XX SQ Sequence 4258 BP; 1189 A; 958 C; 1082 G; 1029 T; 0 other; acaaaatcgc tcgaagaaga aagcttgaat ccgtttcgct ttattcaatt gatagacgat 60 cattttatat gccatcagtc tcaattgaag tttacagtaa ggagagacca actttattgt 120 tgttgactca ccgtttctgg ccttcgagtg aaacaattcc gagagattac gaatacgacc 180 aaacagtcat actacacggt cgtttcaaca acgaggagga gactcatatc ctttgcatat 240 cacgttgcag tatctgtgac ttctggtgtg tcttaggaga ttcaaacctt ccaggcatcg 300 agatttggga cagcgcactt agttgtttcg ctaacgccga agactgtacc cttagcggac 360 agtgctctgc ctgtagaaac cctccagttg aagaagacgc ggattccgac tcaagtgagg 420 aataccaaag cttaggaaac cgcaccgtaa tcagagacag tggcccagaa ggttactggt 480 cggaatcttc agacgacgaa gactacacac gagctgcata tagtccctgc gactacgaag 540 gtaacctcgt acggttgttt caactacaaa gcattcagcc tcttcaagaa ggagacgatc 600 aagaatgaat accgacacta ttcgagcaat cttcctatac tggataagcc tagccttgag 660 catggcggcg gtggtccaat tggaaacaaa ggtggattta tcgaaccacc agtcattagt 720 tatgatgata gccatcttgc tgcccgcact gagcgtgctg ttcggcttgc gcgtctggcg 780 aagatggaag gttgtgatag tgaaggaggt aaacccgcga gaggtgataa acttagtggg 840 ggagcctttc cttgatcctg tgcgaggtgt gttgatgaat gggatctcca cttcaggagg 900 aacttttgaa gtgttgatag aacccaagtg gtggcattta ttcccccgtt ctgccatatc 960 taaggatggg gagaaggagt gtgccatatt caacgccgga tatagcagcg tactaccagg 1020 cacagaaccc acatcacttg tgatgttgaa agctaaagat ctggctgtgg gtttcggggc 1080 tagagtgaga ttcaatggtt gttctgacta cttactcaca gcctatcatg taattaaacc 1140 tcatgagaag ctcaatctgt gcaaaggtgg ctatatggtg gaggacgtgg acttagctgt 1200 aacatgtgga tcagaccacg atgcagttga tttcgcattg attaaagtgc ctcccgccgt 1260 ctggtctaag ttgaaagtgg gagtaggtaa actcgagcct atgaccaaga agacccacat 1320 aacggtttat ggagggtctg actctacaag gttgttgagt tcctccggtc ctgcgtacaa 1380 aggaaaagct ggatatgcca tcattcatga ggcatctacc acaaaaggct ggagtggaac 1440 tcccttatac agcggcaaca ccattgtagg tgttcacacc ggcagtggcc aagttggata 1500 cagcaatcgc gctgtaaatg ttaaattgtt gctaaccgct gtatctaagt tcgagacaat 1560 attttctgag atttcctatg gggagttaga cgaagataat tatctcctta gaaataggga 1620 tgactttgtg gaagtagaaa ttctggggaa agggaaattc ttgctcggag actcaagttt 1680 tgtagacatt acaggaaagc ctctgggttg ggagaaagag aaacgcgcaa gaggtgaagc 1740 attatggcat gacgctagtg atgatgactt ttatgaggat gctaatttct tagcggactt 1800 ctataaagac tccaaagaaa ccgtcgatga cattatgctc gagcatttaa actgccagcg 1860 ggtggccaca acttcaaaaa ttgtgtcgcc accctcattg agcttgcgtc ctatgagtgg 1920 aagaacctct ctgagagtat ctcctcacga gggatgcccc ttgccgacgt tggacgatcg 1980 agttgcaagt ttagagaaac tgttagaaag gagcttggag cagctgttac agctgcaagt 2040 ttcgagttcc cagaactcca aggatatagc tggcctgata gaggttcaaa agcagagcgt 2100 ggctctctcc tctatcaagc gggaaggttc aaaccaaccc ccccgccagc aaaactctac 2160 gaagcagtcg tcaagcttgc cccagagtac ccagaaacag tccccagagc ctgcctcagg 2220 agagagcagt gggataaaga agaaatcgcg aaggaagcga aggaaatcgg acaaaagaaa 2280 gtcaacccca aagcctcccc cggcgtccca ctctccatct tgggtaaaac aaacaaagaa 2340 gtgttagaca ggcatgggga cctagtgtac atagcagtag cggaaagaat atgtatgttg 2400 gctgaggctg atcttgcaga tgctccagat ccagtggacc ttgtgaaagc tggatactgt 2460 gatccgataa gattatttgt caaacaggag ccccacccac tcaagaaggt tgtggaaggg 2520 agattccgtt tgatttcttc ggtatcacta gttgatcaac tagttgagag actgctcttc 2580 ggcccacaaa acgaaaccga aatcgatctc tggcaatcag tcccgtccaa acccggaatg 2640 gggctgtcgc aaccgtggca ggtgtccgct ctgtggaatg acttagagca taagcataag 2700 ctcagtcctg cagcagaggc agacatctcc ggctttgatt ggtcagtcca atcatgggag 2760 atcttagctg atgtgtgcat taggatagat agagggggtt ttaaaggtaa cctccgtaaa 2820 gccgccttga ataggttcaa atgtttctcc aatgctgttt tccaactcag tgacggaaca 2880 ttgataagtc aaggcttacc gggtctgatg aaatctggaa gttattgtac ctcgagtacc 2940 aacagccgga taagatgtct aatggctaaa atcattggag ccccgtggtg cattgccatg 3000 ggcgacgact cggtagaagg atatgttgag ggcgccaggg agatgtacga ctctctcggc 3060 cacacttgca aggattatat accttgcaaa gctgatctag acaagttaga ggaagtgaat 3120 ttttgctccc acactataag gaaagacagc tactacctcc aatcctgggc gaaaaccttg 3180 tttcgattcc tcagtcaacc tgaagatgtc aatgaacttg ctgtggaatt gaaaggatgt 3240 cctgaatggc cccggatatc caagtacctc cgtcggattg gaaggatctc cgacaaaact 3300 tcagaaggag agggaaaaca aaatgacagg ccgcagggtg agaagatcaa agaagaaatc 3360 cggtcaagag accaccaccc agcagaaccg acagagatct ggtgggaaac aatcccagaa 3420 ccaaatgatt caggtcaaga gagagaggac ccctatggct tcaacagtag tcatagggag 3480 atctttccct gcaatccact ctgaaggaac ccgcactagg gtgtgccata ctgaactaat 3540 tcgagcagta gatattaata ccatctttac tctcaatttc acatggtgca tacctagtgc 3600 ttttccctgg ttgtccggtg tagcagtcaa ctggagcaag tggcggtggg tgagcttaag 3660 gttcacctat atgcccgctg ccgcaacaac tacacaaggg accgtagcgc tgggttatct 3720 atatgatgcc ctggatgccg ttcctgccgc gttacaacag atgagcagct tagctggttt 3780 ctctactgga gccgtatggt ccggatctga aggatctgta ttacttagag ctgccaataa 3840 gaacggaaat gtacctggcg cagtaagctc tcagctaaat attgctgatc cgagcaagta 3900 ctataggtat gagaacctaa ccaacttcgc tgcaatagct gaaggaacaa agaaccttta 3960 tgctccagct cgcttggcag tcgcagcggc taacggtgct gccgacgttg gaggcgtcgg 4020 caccgtctac gcgacttatg ttgtggaatt aattgatcca attagttctg cactcaactc 4080 ctagcgaaca tctcagacac tataaccgga gacctggtgg taaggtaacc caccctcctg 4140 gcagatgagg attctgctac tcgcaaccgt gttcatattc gcggtttcgc tgagatcatc 4200 attcaaatat gtggggagat caatctcccc ccctgacgtc gtggggtgca tgacgtgt 4258 //