ID AF082133; SV 1; linear; genomic DNA; STD; PLN; 6383 BP. XX AC AF082133; XX DT 08-FEB-1999 (Rel. 58, Created) DT 14-FEB-2020 (Rel. 143, Last updated, Version 2) XX DE Zea mays copia-like retrotransposon Sto-4, partial sequence. XX KW . XX OS Zea mays OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; PACMAD clade; OC Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea. XX RN [1] RP 1-6383 RX PUBMED; 9799276. RA Marillonnet S., Wessler S.R.; RT "Extreme structural heterogeneity among the members of a maize RT retrotransposon family"; RL Genetics 150(3):1245-1256(1998). XX RN [2] RP 1-6383 RA Marillonnet S., Wessler S.R.; RT ; RL Submitted (31-JUL-1998) to the INSDC. RL Botany Department, University of Georgia, Plant Sciences Bldg., Athens, GA RL 30602, USA XX DR MD5; 515a3affc53f72464f061a9cd01fb60a. DR EuropePMC; PMC5258746; 28174588. XX FH Key Location/Qualifiers FH FT source 1..6383 FT /organism="Zea mays" FT /mol_type="genomic DNA" FT /note="contains ICTV exemplar Zea mays Sto4 virus" FT /db_xref="taxon:4577" FT repeat_region <1..>6383 FT /rpt_family="copia-like retrotransposon Sto-4" FT repeat_region <1..117 FT /rpt_type=LONG_TERMINAL_REPEAT FT /note="5' long terminal repeat" FT primer_bind 119..129 FT /note="similar to the reverse-complement of the 3' end of FT the wheat initiatior methionine tRNA" FT CDS 1786..6006 FT /codon_start=1 FT /product="gag-pol polyprotein" FT /db_xref="GOA:Q9ZT25" FT /db_xref="InterPro:IPR001584" FT /db_xref="InterPro:IPR001878" FT /db_xref="InterPro:IPR012337" FT /db_xref="InterPro:IPR013103" FT /db_xref="InterPro:IPR025724" FT /db_xref="InterPro:IPR036397" FT /db_xref="InterPro:IPR036875" FT /db_xref="InterPro:IPR039537" FT /db_xref="UniProtKB/TrEMBL:Q9ZT25" FT /protein_id="AAD12997.1" FT /translation="MLISQIAQMKPLDGSNYHSWREDIDMITTVGEIDYALRFDKPVEP FT TVGTPNYDHRWMQYSIDKVKWERSNDKCMIILKRSIKEPLKSSIPECETAKEYLERVAS FT HHQGSSKAYACSLMTEFVNAKYDGNGVRPFIQKMISIVAKINKYLGSPLHEEFVVFMIM FT KSLPKEFETFHIQYNTSVTDKWNIDQLLAQCVQEEERLKQTGDSVNLIKGNVPRQNKNS FT KKKFKKQGKQNNQASSSNNNQPRQGGGFSVPPDTCLYCKKTGHYKRKCPEFLQYLLESG FT KDQVTFVNESLYLEYPSYSWWIDSSATVHVANSLQGLRTSQRLPKGRRTIRVANGVEAA FT VEAIGDIHLKLVNGFVLLLRDVLYVPSLRRNLISVSRLDDQHIHCHFGDRQCVIQFDNK FT DVGLAIRRDMLYLLSQSDVVNVLDIPENDPASSGRKRKRSDGETSSKLWHYRLGHISRG FT RIESLVKEQILHPLDFTDLEQCRGCIKGKFAKQIKKDAKHSTRVLEIIHTDICGPFPVR FT TVDGFNSFITFTDDYSRYGYIYPIKERSEALDKFKQFKAEVENQHDLKIKIVRSDRGGE FT YYGRHTEYGQVPGPFARFLRENGIVAQYSTPGEPQQNGVAERRNRTLMDMVRSMLSYSN FT LPLGLWMEALKTAMHILNRVPSKSVARTPYELWIGRKPTLNYFHIWGCPAEARIFNPGQ FT GKLDERTTSCHFIGYPDRSKGYRFYCPDRQTKFIETRHAIFLEDDMIKGSKVLREVDLQ FT EKRIYVPFPMVEEPHFSIPTVVTPTVTPTVGETPTANVASSSATTTEQVASPSAHIGPE FT PVAQDSSEDDDSVAPSDAPLQEPQVESEPETSLRRSQRLRKSAIPDDYEVYAAENIECD FT EIHMSEDIDTEGDPTTYEAAMRSANSSKWLSAMEDELESMRMNKVWDLEVIPHGAKTVG FT CKWVYKTKRDSRGNIERYKARLVAKGFTQREGIDYHETFSPVSTKDSFRIIMALVAHFD FT LELHQMGVKTAFLNGELEENVFMAQPKGFVVSGKEHMGCHLRRSIYGLKQASRQWYIKF FT DQTIRKFGFEENKEDNCIYAKFRKGKYIFLVLYVDDILLASSDKDLLAETKGFLSSNFD FT MKDMGEASYVLGIEIHRDRQKGVLGLSQKSYIENVLKRYNMHKCNASPGPIVKGDKFGE FT YQCPKNQYEKNKMKSVPYASAIGSIMYAQVCTRPDLAFTTGMLGRYQKNPGIEHWKAVK FT KALRYLQGTKGLMLTYRRSNSLQIVGYADADWGGCRDTLKSTSGYVFMLSGGAISWKSC FT KQTARASSTMHAEFVATYEATGQAIWIKKFVPGLRVVDSIERPLRIYCDNEPAVFFSHN FT NKSSGSAKYIDIKCYIVKEKILDHTIQVEHIRTHQMLADPLTKGLPPSVFSKHAAGMGL FT REYL" FT misc_feature 6183..6199 FT /note="polypurine tract" FT repeat_region 6201..>6383 FT /rpt_type=LONG_TERMINAL_REPEAT FT /note="3' long terminal repeat" XX SQ Sequence 6383 BP; 2021 A; 1230 C; 1494 G; 1638 T; 0 other; tggtatgtta acctataccc ctcagtagaa tagatctact catcatcgag gtattttaga 60 cacggattgg tattctaggg acttaggaaa cgatcctaag caccagaaaa tctaacaatg 120 gtatcagagg gccacctaag aaccctagat ctcctaatcc gcatcgtttt atgagatcac 180 agaaaggtct aggatatatg tgatgaactc atttttttta tcatcattca tcacccatag 240 aacagagatt agaatagaaa gaaatagttg atgctctcgg gttagggttt tccctaaccc 300 taagatttag ttttgggcac gataagagaa cagtgtctcg gcctcaaaca gagagctcac 360 ataacttgtc ttgggttagg gtttatgacc taaccctaat cggttaagcc gtcaacagag 420 acgatgcaca ggcttatggg atccaacgat ccgcggccaa gaaaacaaag tcaataagaa 480 aatacagata gggttagggt tttgaactct aaccgaaata atcccagaac cgcacgctct 540 gtccgaaggt ccaatatcgt ttttgggttc aaatttgtga tcagaaaaca tgtatagaaa 600 tcagatcaag tgcgcagagc actgttcaca catccatagg gcatctggac caaaataaca 660 tcacagaaaa gctcgaataa tcagatccat gcttcaaaac cctccaaatc tcgattccca 720 ttacatatta ttcatttctt acaagcatac atcacgttaa gtgggatcga ataaaaaaaa 780 ggggggagaa aatcatgaca gagatggcca tgcagccaag tgcatgcaga aatgtccatg 840 cggcaagtag aaacgaataa aaaaaaacag aaagcaaaac agagagtgca aggggcggct 900 gtgctgaaat gtgcagggcg cagtcggcca gaggccagcc gctggtgctt cctggcggcc 960 gaatgaaagt gagagaccgg aacaaaaaaa aagggaagag ggaggtgcgg tcggcagtgc 1020 cacagctccc aggcggctga gagagaagga ggccgccggc cagagttttc ggctgagaga 1080 gtagaaagcc taggtttcca ccggtcaccc cgagatttgc gtcttttata aacctagcta 1140 cagtagctcg agagatcctg gccgctggtt ttgatccaac gacacaggat tagacggggg 1200 gcgccggcca ggccgagtgg gccgttcagg ctgggccgcc agcggcgaat tgggccgcaa 1260 ggctgaccag ggccgaaatg gcttcaaatt ttttttctgg aattttattt tctatttcca 1320 gaaattagaa acacagaaaa gaaattagaa aaacagtgca gaaaatttag aattatattt 1380 ttccagttat agaaaatttc agagatattt atggactatt tttttttccg ctgcgtactt 1440 tggtactttt atttatattt tatgcaattt ttcagttaat tatgaaacca acgtggatta 1500 attattgttt aaattggcat agaattcaga aaattttgtg gtgattgaat attttaacca 1560 acgttggata ttgttaccac aatttaatac aagtttatgt tttctagatc atccaacgat 1620 ggtttagaaa ttttgtgatc agaaattttc atagatatgg catggttatt atttgaccaa 1680 cgttgaatat ttaattcatg catgttctat gattcagtat tcagtattta tttcagatgt 1740 cctaaatatt ttctatttta attttgcaaa ggtgctcata ccgccatgct gattagccag 1800 attgctcaga tgaaaccgct agatggtagt aattaccatt cttggcggga ggatatagac 1860 atgataacca cagtgggtga gatagattac gcactgaggt ttgataaacc agttgagccc 1920 acagtgggca ctcccaacta tgaccacagg tggatgcaat acagcatcga caaggtcaag 1980 tgggagagat caaatgacaa atgtatgatt attcttaaga ggagcatcaa ggagcctctt 2040 aagagttcca taccagagtg cgagactgcc aaagaatacc ttgagagggt agcctctcat 2100 caccaagggt cttctaaggc ttatgcttgc tctctaatga cagaatttgt caatgcaaaa 2160 tacgatggaa atggtgtcag accattcatt cagaaaatga tatccatcgt agctaagata 2220 aacaagtacc tcgggtctcc tttacacgag gaatttgtag tatttatgat aatgaagtct 2280 ctgcccaagg agtttgagac ttttcacata cagtacaaca ctagtgtcac tgataagtgg 2340 aatatagatc aactcttggc acagtgtgtc caggaggaag agaggttaaa gcagactgga 2400 gactctgtca acctcatcaa aggcaatgtc cccagacaga acaagaactc aaagaaaaag 2460 ttcaagaagc aaggtaaaca gaataaccag gcttcctcga gcaataataa tcagccaaga 2520 caaggaggcg gtttctcagt tccccctgat acctgcctct attgcaagaa gacaggtcat 2580 tacaagagga agtgccctga attcctgcag tatctactag agagtggtaa ggaccaagtt 2640 acttttgtaa atgagtcttt atacttagaa tatcccagtt attcttggtg gattgactcg 2700 agtgcaactg ttcatgttgc aaactctcta cagggactcc gtacaagcca aaggctccca 2760 aagggccgaa gaacaattag agtggcaaat ggagttgaag cagcagtcga ggccattgga 2820 gatatacatc ttaaattagt taatggtttt gtactgttgt tgagagacgt actttatgta 2880 ccttccttgc gaaggaacct tatttcggtt tctagattag atgatcagca cattcattgc 2940 cattttggtg atagacagtg tgtcattcag tttgataata aagatgttgg tctcgccatc 3000 cgacgagata tgctttattt actttcgcaa agtgatgttg ttaatgtatt agatatacca 3060 gaaaacgatc cagccagcag tggcaggaaa agaaaacgaa gtgatggaga aacctcgtcg 3120 aaattatggc actatcgttt gggccatatt tcgaggggga gaatagaaag tcttgttaag 3180 gaacagattc tccatcccct agacttcaca gacttagagc aatgcagagg ttgcattaag 3240 ggtaaattcg cgaagcagat taagaaagat gctaagcata gtacgagagt gttagaaatt 3300 attcatacag atatctgtgg tccttttcca gttaggacag tagatgggtt taattcgttc 3360 ataaccttca cagatgacta ctctcgctac ggttatattt atcctattaa ggaaagatca 3420 gaagctttag acaagtttaa acagttcaag gctgaagtag agaatcaaca cgatttgaag 3480 ataaagattg ttcgatcaga tcgtgggggg gagtactatg ggcgccatac cgagtatggc 3540 caggtcccag gacctttcgc gaggttccta agagaaaacg gtattgttgc tcaatattca 3600 acacctggcg aaccacaaca gaatggggtt gccgaaaggc gtaacagaac gctaatggat 3660 atggtaagga gtatgctaag ttactctaac ctgccattgg gtctatggat ggaggcttta 3720 aaaaccgcta tgcatatact caacagagtt cctagtaaat cagtggctag aactccatat 3780 gagttgtgga ttggcagaaa acccacgctc aactacttcc atatatgggg ttgtccagca 3840 gaagctagaa tatttaatcc tggacaggga aagctagatg agagaaccac tagctgccat 3900 tttattggct accctgacag atcaaaggga tacagattct actgccctga cagacaaacc 3960 aagttcatag aaaccagaca tgccattttc ttagaggatg acatgatcaa ggggagtaag 4020 gtactcagag aggttgacct tcaggaaaag aggatatatg tcccgtttcc gatggttgaa 4080 gaaccacact tctcgatacc cactgtggtt acaccaacag tcacaccgac tgtgggtgaa 4140 acacctactg caaatgtggc atcatctagt gcaactacta cagagcaagt agcttcacct 4200 tctgcgcata ttggccctga gccagttgca caggacagtt cagaagatga tgatagtgtt 4260 gcgccaagtg atgcaccatt gcaggagccc caggtagaat ctgaaccaga aacaagtctc 4320 aggagatcac agagactcag aaaatctgcg attcctgatg actatgaagt ctatgcagca 4380 gaaaacatag aatgtgatga gattcatatg agtgaggaca ttgatacaga aggtgatccc 4440 actacatatg aagctgctat gagaagtgca aattcatcca aatggttatc tgccatggaa 4500 gatgaattag aatccatgag aatgaacaaa gtttgggact tagaagtcat tccccatgga 4560 gccaaaacag taggctgtaa atgggtctac aagacaaagc gtgactccag agggaacata 4620 gaaagataca aggctagact tgtggccaaa gggttcacac agagagaagg cattgactac 4680 catgaaacct tctcacctgt ctcaacaaaa gattcattca ggatcataat ggcactagtt 4740 gctcattttg atctagagct ccatcagatg ggtgtaaaga cagcattcct aaatggagag 4800 ttagaagaaa acgtgttcat ggcacaacca aagggttttg ttgtgagcgg taaagaacac 4860 atgggatgtc acttgaggag gtccatttat ggattaaaac aggcctccag acagtggtac 4920 atcaagtttg atcagactat aagaaagttt ggtttcgagg aaaacaagga agacaattgc 4980 atttatgcaa aatttagaaa aggaaagtat atcttccttg ttctgtatgt cgatgacata 5040 ctcttagcta gtagtgataa ggatctacta gcggaaacaa aagggtttct ttcctcgaat 5100 tttgatatga aagacatggg agaagcctcc tatgttcttg gaatagaaat tcacagagac 5160 agacaaaagg gagtattagg actctcacag aagtcatata tagaaaatgt actaaagagg 5220 tataatatgc acaagtgtaa tgcctcgcct ggtccaatag tcaagggtga taagtttggg 5280 gaatatcagt gtcccaagaa tcagtatgag aaaaacaaga tgaagtcagt accatatgct 5340 tcagctatcg gaagcattat gtatgctcaa gtatgtactc gccctgactt agcttttacc 5400 accgggatgc ttggacgcta tcagaagaat ccaggcatag aacactggaa agcagtcaag 5460 aaggctctaa ggtaccttca aggtactaaa ggtctcatgc ttacgtacag aagatctaat 5520 tccctacaaa tagttggcta tgcagatgcc gactggggag ggtgtagaga tacactgaag 5580 tccacttcag ggtatgtctt tatgctttct gggggagcta tttcttggaa gagctgcaaa 5640 cagacagcga gagcatcgtc gacaatgcac gctgagtttg tagctacgta tgaggcaact 5700 ggacaggcga tatggataaa gaaattcgta cccggattaa gagtggttga tagcatagag 5760 cgaccactga gaatttactg cgacaacgag ccagcggtat ttttctccca taacaataag 5820 tcaagtggct ctgccaagta cattgacatt aagtgttata ttgttaagga gaagattctg 5880 gatcacacca ttcaagttga gcatataaga acccatcaga tgcttgcgga tccgctcaca 5940 aaaggtcttc cacccagcgt gtttagtaag cacgcagccg gcatgggatt aagggagtac 6000 ctatgatcta gaatcacagg ggctacagat tgcaacctag taaaatcttt cgttctgaag 6060 caggggagca tgttgtagtc aatgagtgca gtgatactta atagatcatt gtcacgcatt 6120 ggtctctatg tgtaaacttg ttaaaggacg gaatttaata aaagtttgag tgtgaggtat 6180 gtagagaaca aaggggagat tgttaggatg tgtcctctac actagccggt taacagtaac 6240 cggggtaggg ttaatcctaa ccgtctaacc gcgcccctga tcgggggggc tatcctaacc 6300 attggttgca gcccccggtc acacgacgcc atataaatag attaaggggg ccgacgggtt 6360 tagccaacgc taatcgctcg acc 6383 //