ID EU489641; SV 1; linear; genomic RNA; STD; VRL; 7674 BP. XX AC EU489641; XX DT 11-MAR-2008 (Rel. 95, Created) DT 11-MAR-2008 (Rel. 95, Last updated, Version 1) XX DE Lolium latent virus isolate US1, complete genome. XX KW . XX OS Lolium latent virus OC Viruses; Riboviria; Tymovirales; Alphaflexiviridae; Lolavirus. XX RN [1] RP 1-7674 RX DOI; 10.1007/s00705-008-0108-8. RX PUBMED; 18509590. RA Vaira A.M., Maroon-Lango C.J., Hammond J.; RT "Molecular characterization of Lolium latent virus, proposed type member of RT a new genus in the family Flexiviridae"; RL Arch. Virol. 153(7):1263-1270(2008). XX RN [2] RP 1-7674 RA Vaira A.M., Reinsel M., Maroon-Lango C.J., Hammond J.; RT ; RL Submitted (14-FEB-2008) to the INSDC. RL Floral and Nursery Plants Research Unit, National Arboretum, USDA-ARS, RL 10300 Baltimore Avenue, Beltsville, MD 20705, USA XX DR MD5; db99b5e4ac58f1f237253322fe3d50b9. XX FH Key Location/Qualifiers FH FT source 1..7674 FT /organism="Lolium latent virus" FT /host="Lolium perenne x L. multiflorum MF22" FT /lab_host="Nicotiana benthamiana" FT /isolate="US1" FT /mol_type="genomic RNA" FT /country="USA" FT /db_xref="taxon:365150" FT 5'UTR 1..87 FT CDS 88..5277 FT /codon_start=1 FT /product="replicase" FT /note="RNA-dependent RNA polymerase" FT /db_xref="GOA:B1PS76" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR005123" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="InterPro:IPR027450" FT /db_xref="InterPro:IPR037151" FT /db_xref="UniProtKB/Swiss-Prot:B1PS76" FT /protein_id="ACA53374.1" FT /translation="MTTLALNLAQYNDPITKGIIAQESLRRVRPDLKAVVNVNPYAIPT FT SAALVLEKLGIGTHPMSLAVHPHAPCKAIENQILNTVGHLLPKEQPVTFMAMKKSKLNM FT LRRHPSRADTFINPIYHPRDNVRYGLDPDPDQDASITASFLEVKTSTAFMQDTLHYLTP FT EDLLDIFETSPKLENLIASFVLPVEATRNMKSLYPDLYSIHYTHGGFQWAPSGHLGDAY FT FHEPWQLYWLRCGSLTRLIEEETTTTVQPPPGFEGEAYTRVRKEVRELKIYAERVTSIG FT AHHLFIFSRNAKATPRVRSYSQNGKWVTLPRIFRPVSHNVQTPLKQEVANSLMLYTYAV FT RPSLKDVAAKVRQKFDEKDLAEHSPLEITHLINYIYYIDQRAYLTNDDDILSDNLLKRW FT IFTPIQAAYKKAKGFLLGPDDFQKLLKALEWQPVTFDYAVDHYKSNPWRIHASRTGAKM FT RQLKNFLSRTTGLCEAVEDDALEGSELLKELEGNMWFRNPSEVEKEVFDAIVADLPPDS FT QRSELILEDPNSNARDYLPIQQDQPSVTQGPDEAAQTQTPTATSMVTNSVAARMPPPVP FT RTLREHHEQFPTTVRASFEQPSSTRAPETSENNTPAESVTPSPRAIYVGDFAIMDANAS FT TSRASSPSPRRTVVSPRQPEAQNETLGRQIVSRVSPAHGCQMSPYAAQLAHQLSEQTAY FT TDVIGQRMVAFYSQHSRSYKYGRHEHRSQSWLPVIDSLQVALGLDESYDHCLIQRYRKH FT ARVGLHADDEECYEPDSTIVTLNLYGNADFLIERNTDKASETITLQHNDMLFMPSGMQV FT THRHAVCSLYEGRVSITFRNKTKDYLRKSAPDMNPVEQPGASAGQLTGPLDHRPEELPW FT EHWIPRLNRLGFTGLQKQTDPEGKLIYPITEIRQDMVYVPFPNCCPGPLRKDLEAMGRR FT PVRYTVDTGRALTLASDIKNNRVGALLQNADLTWKTLLVEYCRMEPTSVPMTVIHGAGG FT SGKSKLLQDHLNRAELNVVIIVPTRVLQQDWRNKMTEFPSFLVQTYEAAMMESAPQMVV FT FDDYGKLPHGYIDLFCQFHPSVEYVILTGDARQSTYYEYNSDAGIRNLPTNIEVFKQYC FT GYYINCTHRNKQDLANMLGVYSEKMGSTHFTFGNTCETGSLLLVPSGTQKTVMGEAGHK FT TETYAGCQGITADKVQIMIDHDTHKSADSHMYTALSRATEHIHFYNSIAGLNTARFHAK FT LNLTPYLKTFIQVITERAAAETEPAEYTVQAPTARTHIPVENCSTFLEKDLEEQRAKED FT REVYTQAGATNVFQTNSPIVQCFQHQQPKDGALSIITHAKRLQYASAEANQAEYRAKLQ FT IGAALWENFKTAMEIPDEPVPFIRDLWEQSEAEVLSTYLSKSEMAIKNGKNRQDPDWQD FT ERMFVYLKAQWVTKASKFNLPTAKAGQTISAFKQAVVMKFGAMARYLRRITPKPDNIRI FT NCEMQPQDISKWALGLDSHNRPTKQKWNFERPAFASDFEAFDQSQDGAMLHFEALWARH FT FNVPSSLIEEYLFLKMHAQAPKGYLTIMRLTGEGPTFDANTACSIAYNHTRYEIPKSCM FT QLYAGDDMLLDQVPVEKTGFKNIAAGLKLTAKTEIFEQKRGKWGEFCSWWMTPYGLVKD FT PITLYHRILLASEIGDLSKKIDAYAIEAEPAYALQGRLFDCFNEEQMTAHYGTIRRLII FT EGKTNFSLDDQAPRHQDLQGILNCMDAKFMYH" FT variation 1664 FT /replace="g" FT /note="results in Asp to Gly substitution" FT variation 1969 FT /replace="a" FT /note="results in Ala to Thr substitution" FT variation 2002 FT /replace="a" FT /note="results in Ala to Thr substitution" FT variation 2799 FT /replace="c" FT /note="results in Arg to Ser substitution" FT CDS 5349..6155 FT /codon_start=1 FT /product="triple gene block protein 1" FT /note="TGB 1; involved in virus movement" FT /db_xref="GOA:B1PS77" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/Swiss-Prot:B1PS77" FT /protein_id="ACA53375.1" FT /translation="MEDFFNCLRSRGFERTDEPLPSDSRRIVVHGVGGSGKTSLIEAFA FT IANEWVRAYTLTSHERFDISGRGISQYKGQPIDEKLWTILDEYGQTDNPETLPPFNVLA FT TDPYQAFRCQPLRAHFVSLRSYRVPHHIAQAITQYTGFPIEAAGTDLHEGKYTVGPWTD FT KLRQQILVEDGEIHYQLSRRQCPHKLITDAIGEQWPTVTVVFDRSISPESARPLRCLFY FT IAATRSSNELNIRTYVPTRTPGLIKASLPHTSCRLCCRPRDLPSEN" FT CDS 6037..6399 FT /codon_start=1 FT /product="triple gene block protein 2" FT /note="TGB 2; involved in virus movement" FT /db_xref="GOA:B1PS78" FT /db_xref="InterPro:IPR001896" FT /db_xref="UniProtKB/Swiss-Prot:B1PS78" FT /protein_id="ACA53376.1" FT /translation="MSSTSEPTYQLAPPDSLKQVYLTLAAGFAVGLGIFLLRTNTLPHT FT GDNIHHLPHGGCYRDGTKSIRYNSPGVATSSNIFLPAVAVLCILALLHVPFFQPDRVRR FT RCCRFYWCADPHHPTV" FT variation 6166 FT /replace="t" FT /note="results in His to Tyr substitution" FT CDS 6314..6532 FT /codon_start=1 FT /product="triple gene block protein 3" FT /note="TGB 3; involved in virus movement" FT /db_xref="GOA:B1PS79" FT /db_xref="InterPro:IPR003411" FT /db_xref="UniProtKB/Swiss-Prot:B1PS79" FT /protein_id="ACA53377.1" FT /translation="MSLSFSLIVFAVGVAVSIGVLTLTTQQSSSYCLILVDGAKAVVEG FT CHLRQDIPAILSELKPASSPFNPLFCS" FT CDS 6611..7492 FT /codon_start=1 FT /product="coat protein" FT /db_xref="GOA:B1PS80" FT /db_xref="InterPro:IPR000052" FT /db_xref="UniProtKB/Swiss-Prot:B1PS80" FT /protein_id="ACA53378.1" FT /translation="MSESKAETPSKSAEKGVASLSTSAPPSSTTPTAQAKQTPPPVATT FT ARPMASRLPRTIAAEGGGTEKKQSHLAEDRIAQYLPKQDAVDHSNLAALLQPFTEASYE FT REFDVKVNGIASKAELTAVAETWASRLNVPKENSAVLAQEIAIHCYHNGSSEQTDFNLK FT SSQVAGLNLEAAVGVIKEILTLRQFAAYYATFVWNWGIKNEIPPANWVAKGYTDETKYA FT AFDTFSYVGSPLGLRITPTRKPTNNEYMAASVNAREKIIQSRGKGMVTNSPMFSDGTTH FT QGIPLHPKLPLS" FT CDS 7440..7577 FT /codon_start=1 FT /product="putative nucleic acid-binding protein" FT /note="expression of this coding region unverified" FT /db_xref="UniProtKB/Swiss-Prot:B1PS81" FT /protein_id="ACA53379.1" FT /translation="MAPPTREYRCTPNYHSARHQMSSLLGLCKGGVGPQPRPWCEKTMV FT " XX SQ Sequence 7674 BP; 2137 A; 2231 C; 1770 G; 1536 T; 0 other; gaaaaccaaa ccaaaccaca ccagccaaaa cggaccaacc cagccacatc tacggacttc 60 gaacgcaaaa gctagtagat atcccagatg acgactctgg ccctaaattt ggcacagtac 120 aacgacccca tcacaaaagg tatcatcgca caagagtctc tcagacgagt gcgacccgac 180 cttaaagctg tggtcaatgt caacccctac gccatcccga cttctgctgc actcgtactc 240 gagaaattgg gtattggaac tcacccaatg tcactcgcag tacaccccca cgcaccatgc 300 aaggccattg agaaccagat actgaacaca gtgggccatc tcctaccaaa ggagcagcca 360 gtcactttca tggccatgaa aaagagcaaa ctgaatatgc ttcgacgcca tccgtcaagg 420 gcggacacat ttatcaaccc catctaccat cctagagata acgtccggta tggtctagat 480 cctgaccctg atcaggatgc atcaataaca gcaagttttc tcgaggtgaa gactagcaca 540 gcatttatgc aagatacact acactattta acacctgagg atctgctgga tatcttcgaa 600 acttccccga aactagagaa cctcattgca tctttcgtac tacccgtgga ggccacacgc 660 aacatgaaga gcctataccc cgacttatac agcatccatt acacacatgg cggctttcaa 720 tgggcaccct ctgggcacct cggtgacgca tactttcatg aaccgtggca actctactgg 780 ctgagatgcg gcagccttac tcgactgatc gaggaagaga cgaccaccac tgtacaaccc 840 ccccctggat ttgaaggtga agcttacacc agggtcagga aggaagttcg agagctaaag 900 atctacgcag aacgagtcac ctcaattggg gcccaccacc tcttcatctt tagccgaaac 960 gccaaagcga cgcccagggt gaggtcctac tcacagaacg ggaaatgggt gacactgccg 1020 cgaatctttc gccccgtaag ccacaacgtt cagactccac tcaagcagga ggtggccaac 1080 tccctcatgc tatacacata tgcagttagg ccgtccctta aagacgtcgc tgctaaggtg 1140 cgccaaaaat ttgatgagaa agacctggca gagcacagtc ccttggagat cacacacctc 1200 atcaactaca tatactacat cgaccagagg gcatacctca ctaatgacga tgacatcttg 1260 tcggacaacc ttctgaagag gtggatcttc acacccatcc aggcagcata caagaaggcc 1320 aaaggcttcc tgctggggcc ggatgacttc caaaaattac tcaaagccct ggaatggcaa 1380 cctgtcacct tcgactatgc tgtggaccac tacaagtcaa acccgtggag gatccacgcc 1440 agcagaacag gcgctaagat gagacagctc aagaacttcc tcagtcgaac cactggactc 1500 tgtgaggcag ttgaggatga tgcactggaa ggaagtgaac tactgaagga actcgagggt 1560 aacatgtggt tccgcaaccc ctccgaggta gagaaggagg ttttcgatgc aatcgtagca 1620 gacctcccgc cagatagcca gagatcagag ctaatcctcg aggacccaaa cagcaatgcg 1680 agggactatc tacctattca acaggaccaa ccatcggtga cgcaagggcc tgatgaggca 1740 gcccaaactc aaaccccgac agccacaagc atggtcacaa atagtgtggc ggcccgaatg 1800 ccccctccag tcccaagaac cctaagggaa caccatgagc aattcccaac caccgttaga 1860 gcgtctttcg agcaaccaag cagcacgaga gccccagaaa cctccgaaaa caacacgccc 1920 gctgagtctg tgacgccatc accaagggcc atttatgttg gggactttgc tatcatggac 1980 gcaaatgcta gcaccagccg cgccagctca ccttccccca gacgcactgt cgtgagcccc 2040 cgacagcccg aggcccaaaa cgaaacgctg ggcagacaga tagttagccg ggttagccca 2100 gcccacgggt gccagatgag cccctacgcc gcccagttgg cacaccaact aagcgagcaa 2160 acggcctaca cggatgttat aggccaacgc atggttgcat tctatagcca acacagtagg 2220 agctataaat atggtcggca cgaacaccgc agccaaagtt ggcttccagt tatagatagc 2280 cttcaggtcg ctttggggct tgatgaaagt tacgatcact gcctcatcca acgctaccgc 2340 aaacatgcca gggtagggct gcatgcggat gatgaagaat gctatgagcc tgattcaacc 2400 attgtaaccc tcaacctcta cggtaacgca gatttcttaa tcgagaggaa cacagacaag 2460 gcatctgaaa ctatcacgct ccagcacaat gacatgctct tcatgccctc gggaatgcag 2520 gtcacacacc gccatgccgt ctgcagcttg tatgagggga gagtcagcat cactttccgc 2580 aataagacca aggactacct caggaaaagc gcaccagata tgaacccggt agagcaacca 2640 ggggcctctg caggacagct caccggaccg ttggaccaca gaccagagga actcccatgg 2700 gagcattgga tcccacgcct caaccggcta ggctttacag gcctacaaaa acaaacagac 2760 cctgaaggca agcttatcta ccccatcact gagataagac aggatatggt ctatgtccct 2820 ttcccgaatt gctgccctgg gccattgagg aaggaccttg aggccatggg ccgtcgacca 2880 gtcaggtata cagttgatac gggccgcgca ctcactctcg ccagcgatat caaaaataat 2940 cgtgtcggtg ctctgttgca aaatgctgat ctaacgtgga agaccttact ggtagagtac 3000 tgcaggatgg agcccacttc ggtacccatg actgtaatcc acggcgctgg tggctcaggc 3060 aaatccaaac tcctccaaga ccacctcaac agggctgagc taaacgtggt gatcatcgtg 3120 ccaaccaggg tactacagca ggactggaga aacaaaatga ctgagttccc gagcttcttg 3180 gttcaaacct acgaggcggc gatgatggag tcagcacccc agatggtcgt ctttgatgac 3240 tacggcaaac tacctcacgg atacatcgac cttttctgcc agttccaccc tagcgtggag 3300 tatgtcattc tcactggaga tgcccgtcaa tccacctact acgagtacaa ttcagacgct 3360 ggcatccgga acctcccaac aaatattgag gtgttcaagc agtattgtgg ctactacata 3420 aactgcacac acagaaacaa gcaagacctc gcaaacatgc ttggggttta ctctgaaaag 3480 atgggctcga cacacttcac ctttggcaac acatgcgaaa ctggcagcct actgctagta 3540 ccttcaggga ctcagaagac tgttatgggg gaggctggcc acaagactga gacttacgct 3600 gggtgccaag gcatcaccgc tgataaggtc cagattatga tcgaccatga cacccataaa 3660 agtgctgact cacacatgta cactgccctg tccagggcaa ctgagcatat ccacttctac 3720 aactccatcg ctggtctaaa tactgcaaga ttccatgcga agctaaatct cacaccatat 3780 cttaaaacct tcatccaagt catcactgag cgggccgcag ctgaaacaga acctgcagag 3840 tacacggtcc aggcacctac agcgaggact cacatccctg tggaaaattg cagtacattc 3900 ctagagaaag accttgaaga gcagagggcc aaggaagacc gggaagttta cacacaggca 3960 ggcgccacaa atgtattcca gaccaactca ccaatagtcc aatgtttcca acaccaacag 4020 cccaaggatg gagcgctaag tatcatcact catgcaaaac gcctccagta tgcctccgct 4080 gaagccaacc aggctgagta tagagccaaa ctgcagattg gcgccgcact ctgggagaac 4140 tttaagactg ccatggaaat cccagacgag ccagtaccat tcatccgtga cctatgggaa 4200 cagagcgagg ccgaggtcct aagcacctat ctatcaaagt ctgaaatggc cattaagaac 4260 gggaagaacc gccaagatcc agattggcag gatgagagga tgtttgtcta cctcaaggcg 4320 caatgggtta ctaaggcaag caagttcaac ctcccaacag cgaaagcagg ccagacaatt 4380 agtgcgttca aacaggcagt tgttatgaag tttggagcaa tggctcgcta cctacgacgc 4440 ataactccaa agcctgacaa cattcgtatc aactgcgaga tgcagcctca ggacatatcc 4500 aagtgggcgc taggcctcga ttcacacaat cgccccacga aacagaaatg gaactttgag 4560 agaccagcct ttgcatctga ttttgaggcc tttgaccaat cccaggacgg ggccatgctc 4620 cacttcgagg ccctatgggc gaggcatttc aacgtcccaa gctcactcat cgaagagtac 4680 ctattcctca aaatgcacgc ccaagcaccg aagggctacc tcacgatcat gcgtcttaca 4740 ggggaggggc cgacctttga tgcaaacaca gcatgctcca tagcctacaa ccacaccaga 4800 tacgagatac ccaagagctg catgcaactt tacgctggtg acgacatgct acttgatcaa 4860 gtcccagttg agaagactgg cttcaagaac attgcggcag gccttaagct cacggccaaa 4920 accgaaatct tcgaacagaa gaggggaaag tggggagagt tttgctcctg gtggatgacc 4980 ccctatggcc ttgtcaagga ccctatcaca ctgtaccacc ggattctcct tgcatcagaa 5040 attggtgatc tctcaaagaa aattgatgca tacgccatcg aggctgagcc tgcatatgca 5100 ctccaaggac gcctcttcga ttgctttaac gaggagcaga tgaccgcaca ctatgggacc 5160 atcagacgcc tcatcatcga aggcaagacc aacttctcct tagatgacca agcaccccgg 5220 caccaggacc tccagggcat cctcaactgc atggatgcaa agttcatgta ccattaacag 5280 cttttcctta actaacttct aactttggtc ttttggtttt tggttaggtt acccactagt 5340 cgattaacat ggaagacttc tttaattgtt tacggtcgag aggttttgag cgcactgatg 5400 aaccgctgcc cagtgatagc cgccgcatcg tggtccatgg agtgggcggg agtgggaaga 5460 catcattaat tgaagctttc gcgattgcca acgagtgggt acgcgcctac acgctcacta 5520 gccacgaacg gttcgacata tcgggccgtg gaatcagcca gtacaaggga caaccaatag 5580 atgagaagct ctggaccatc ttagacgagt acggccaaac agataacccc gaaaccctcc 5640 caccttttaa cgtactcgca accgaccctt accaggcttt ccgctgccaa ccgctaaggg 5700 cccatttcgt gagcttacga tcataccgag tgccacacca catagcgcag gccatcaccc 5760 aatacactgg cttccccatt gaggcagctg gtacagacct gcatgagggt aagtacaccg 5820 taggcccttg gacagacaaa ctaaggcagc aaatattggt cgaggacggt gaaatacact 5880 accagctttc ccggcgacag tgcccccaca agctcataac cgacgccatc ggggaacagt 5940 ggcccacagt caccgtcgtg tttgaccgaa gcattagccc tgagagtgcg cgaccactca 6000 ggtgcctgtt ctacatagct gcaacgagat cctccaatga gctcaacatc cgaacctacg 6060 taccaactcg cacccccgga ctcattaaag caagtctacc tcacactagc tgccggcttt 6120 gctgtcggcc tagggatctt ccttctgaga actaacactc taccccatac cggcgacaac 6180 atccaccatc tcccacacgg tggctgttac cgcgacggta ccaaatccat taggtataac 6240 tcaccaggag tggcaacctc cagtaacatc ttcctacccg cagtagctgt cctctgtatc 6300 ttagcacttc ttcatgtccc tttctttcag cctgatcgtg ttcgccgtag gtgttgccgt 6360 ttctattggt gtgctgaccc tcaccaccca acagtctagc agctactgct tgattcttgt 6420 tgacggggca aaagccgtcg ttgagggctg ccaccttaga caggacatcc ccgccatcct 6480 aagtgagctc aagcccgcct cctcaccttt caaccctctt ttctgtagtt aggtttcctt 6540 tagtttcaat aattccattc ttcgcttctc tttccaagtt tgctgttcga gtccttagtt 6600 cctagcttat atgtcagaat ccaaagcaga gacgcctagc aaatcagctg agaagggtgt 6660 agcaagtctg agcaccagtg caccccctag cagcaccaca ccaacagccc aagccaaaca 6720 aacaccaccg cctgtggcaa ccactgctag acccatggca tcacgcctgc ccaggaccat 6780 tgcggctgag ggtggtggaa ctgaaaagaa gcaatcccat cttgcggagg accgcatcgc 6840 ccaatacctc ccaaaacagg atgcggtcga ccacagcaat ctcgctgcac tcctccaacc 6900 tttcacagag gcaagctatg aacgcgagtt cgatgttaag gtcaacggca ttgccagcaa 6960 ggccgaactc acggcggtgg ccgagacatg ggcttcaaga ctcaacgtgc cgaaagaaaa 7020 ctcagccgtc ctcgctcagg agatagccat acactgctac cacaatggct catctgaaca 7080 gaccgacttc aacctcaaga gcagccaggt cgcaggactg aatcttgaag ctgctgtggg 7140 cgtaattaaa gagatcctta cactaagaca gtttgcagcg tactatgcga cctttgtctg 7200 gaactggggc attaagaatg aaataccacc agccaactgg gtggccaagg gatacactga 7260 tgagacgaaa tacgccgcct ttgacacctt cagctatgta ggttcacccc ttgggctcag 7320 gatcacacca acaaggaaac caaccaacaa cgagtatatg gctgccagcg tgaacgccag 7380 ggagaaaatt atccaatcca gggggaaggg catggtcacc aacagcccca tgtttagcga 7440 tggcaccacc caccagggaa taccgctgca ccccaaatta ccactcagct aggcaccaaa 7500 tgtcttccct ccttggactc tgcaaaggag gtgtgggccc acagccccgc ccatggtgtg 7560 agaaaaccat ggtttagttg tggcaccact ggatgtatcc agtacgcctg ttttagcgac 7620 ctaaatgcta ataaggaccg aggggaggta caccctcggt tttgccgtca aagc 7674 //