LOCUS AF194338 4986 bp DNA linear INV 28-MAY-2003 DEFINITION Stylonychia lemnae macronuclear DNA polymerase catalytic subunit alpha gene, complete cds. ACCESSION AF194338 VERSION AF194338.1 GI:7341069 KEYWORDS . SOURCE Stylonychia lemnae ORGANISM Stylonychia lemnae Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Spirotrichea; Stichotrichia; Sporadotrichida; Oxytrichidae; Stylonychinae; Stylonychia. REFERENCE 1 (bases 1 to 4986) AUTHORS Landweber,L.F., Kuo,T.C. and Curtis,E.A. TITLE Evolution and assembly of an extremely scrambled gene JOURNAL Proc. Natl. Acad. Sci. U.S.A. 97 (7), 3298-3303 (2000) PUBMED 10725348 REFERENCE 2 (bases 1 to 4986) AUTHORS Ardell,D.H., Lozupone,C.A. and Landweber,L.F. TITLE Polymorphism, recombination and alternative unscrambling in the DNA polymerase alpha gene of the ciliate Stylonychia lemnae JOURNAL Unpublished REFERENCE 3 (bases 1 to 4986) AUTHORS Landweber,L.F., Kuo,T.-C. and Curtis,E.A. TITLE Direct Submission JOURNAL Submitted (08-SEP-1999) Ecology and Evolutionary Biology, and Molecular Biology, Princeton University, Guyot Hall, Washington Road, Princeton, NJ 08544, USA FEATURES Location/Qualifiers source 1..4986 /organism="Stylonychia lemnae" /macronuclear /mol_type="genomic DNA" /db_xref="taxon:5949" misc_feature 1..20 /note="telomere" mRNA join(21..277,327..515,585..4966) /product="DNA polymerase catalytic subunit alpha" misc_feature 21..357 /note="macronuclear destined sequence M1; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" 5'UTR 21..145 CDS join(146..277,327..515,585..4838) /inference="non-experimental evidence, no additional details recorded" /note="similar to Swiss-Prot Accession Number P28040" /codon_start=1 /transl_table=6 /product="DNA polymerase catalytic subunit alpha" /protein_id="AAO73537.1" /db_xref="GI:29251556" /translation="MSDNYTTQSGXEIKKIGQKSGVKNALAQLRAAREGGDKRTDQYQ VEEAKRIFEEIDADEYERIXDQRKNDDFIVXDDGXGYRDHGGEIWERDDNEEVGGKKK KRKLDPNEQHITBFMMPASTIRKNKGXGNSSNIQIKQKPKVTAEQSMDIMNNLLQELD NKDVDELEDVNASAVMAELNKPIAFXKNEELLNKYGVTLESKQEIQVKRQLEQQQXEQ TIGQHQQNANVFSKKRKLDEIQQPQIKKEHQGLNKSRQTETIIHQSSNTSYFDAKSQL SHDQSMEYQSAVDDSKMSESSSAQKNAMNEGPIAFSKNQTNMSASKNDEWAQIKHQNQ QAHQEFKTMEQKSAMDIQEFALPLNQDGSLSFYWIDAHGENNGADLFIFGKIYQPEIN QYVSCSMKVNGMQREIYALPKMQKGKARGTLTREEENQLVRGVQLELEDIRKKRFQGI TKWRCKPVTRKYAFEMLIQHGEHLFLKIKYDATFIPLPSTVQGNTFECLFGSNQSMLE LFILKRKIKGPCWMTIKNPKKVTDFKKTWCRQEIEIDNPKNAEVTLDDLNKTDIPPLT SLTFAFKTARSQNNTNEIAMISCLVHNNVNQEGPSQTDKFQTFTLVRKLDGKPMPFDF DQKLRQKKENIQYFTNERQMIDLFVTRIFQIDPDLIVAHNLCGGIFDLLLARIQILKI NHWSRIGRFKKGNIPTKKFDTGGANYGGSQWIPRQVTCGRLLVDTFLSAKELIRETNY DLTHLTKVQLKKDRQDFDDDLLPQFYLASERIFQLIEHSEKDSYYTFMLMPHLSIIPL TKQLTNIAGNLWFRSLQNARAERNEMLLLHEFKKKKFILPDKKPPNAKDLRRGFMGDE YEENDTKGGGKKGGKRKKAKYAGGLVIEPKAGFYDNIILLLDFNSLYPSIIQEYNLCF TTVNRRPTKNYDGSELKNQXKSADNAEGDEVEDVDLPDKNVNIKDAVLPXVLRDLVQK RKAVKEKMKNEXDQXKLQQLEIRQKAIKLTANSMYGCLGFSSSRFHASAIAALITKTG RETLLRTKDIAENKLGFNVVYGXTDSIMINTGTNQLQQSLEMGKKLKVEVNCLYKCLE IEIDGXFKSLLLLKKKKYAXLRYEGVGSNEVKVIQEMKGLDMVRRXWCPLSKSIGNYV LSQILSGKQXEDVVFNLNEYLSDIGEKMKSNRITLDQFIITKQLTRAISEYSDIKGQP HVAVAQRLKNQGKSEADLVNNFIPYVIGAQAFDTAKSNPQLSDKAYHPDELLSSKGKI TLDIDWYIXTQILXPITRLIEHIDGINIEFVAQCLGVDPKKYKYHSEKKNTDEIGDDG GSIQNPILQTETEKSLKHRSIAELKVKCPSCTHNYDFPGIYQEGKDVSGLICTKCNAK IPEKYVMNRVNLFLKQLLALYYQGKYECQEPSCKSMTRQLLYHNKCVNLTCKGKMVPE YSEHQTNXTLRYLQGLFXIKKHLHEDSKNDSLKVETDIPFYNEYNVLQTKVDELMNRS KYTKVDLGSIFGFMRQSNNKMAVSSTATAQ" misc_feature 402..449 /note="Region: conserved region A" misc_feature 1410..1418 /note="Region: conserved region E" misc_feature 1815..1826 /note="Region: conserved region D" misc_feature 2166..2291 /note="Region: conserved region IV" misc_feature 2679..2786 /note="Region: conserved region B" misc_feature 2892..3014 /note="Region: conserved region II" misc_feature 3141..3191 /note="Region: conserved region VI" misc_feature 3240..3365 /note="Region: conserved region III" misc_feature 3408..3431 /note="Region: conserved region I" misc_feature 3522..3563 /note="Region: conserved region C" misc_feature 3570..3584 /note="Region: conserved region VII" misc_feature 3627..3671 /note="Region: conserved region V" exon 146..277 /inference="non-experimental evidence, no additional details recorded" /number=1 exon 327..515 /inference="non-experimental evidence, no additional details recorded" /number=2 misc_recomb 358..359 /note="pointer P1-2" misc_feature 360..1222 /note="macronuclear destined sequence M2; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" exon 585..4838 /inference="non-experimental evidence, no additional details recorded" /number=3 misc_recomb 1223..1237 /note="pointer P2-3" misc_feature 1238..1263 /note="macronuclear destined sequence M3; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1264..1270 /note="pointer P3-4" misc_feature 1271..1283 /note="macronuclear destined sequence M4; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1284..1291 /note="pointer P4-5" misc_feature 1292..1329 /note="macronuclear destined sequence M5; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_feature 1330..1341 /note="macronuclear destined sequence M6; micronuclear source missing" misc_feature 1342..1364 /note="macronuclear destined sequence M7; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1365..1374 /note="pointer P7-8" misc_feature 1375..1384 /note="macronuclear destined sequence M8; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1385..1392 /note="pointer P8-9" misc_feature 1393..1433 /note="macronuclear destined sequence M9; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1434..1444 /note="pointer P9-10" misc_feature 1445..1456 /note="macronuclear destined sequence M10; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1457..1469 /note="pointer P10-11" misc_feature 1470..1497 /note="macronuclear destined sequence M11; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1498..1504 /note="pointer P11-12" misc_feature 1505..1519 /note="macronuclear destined sequence M12; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1520..1527 /note="pointer P12-13" misc_feature 1528..1545 /note="macronuclear destined sequence M13; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1546..1555 /note="pointer P13-14" misc_feature 1556..1666 /note="macronuclear destined sequence M14; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1667..1677 /note="pointer P14-15" misc_feature 1678..1687 /note="macronuclear destined sequence M15; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1688..1699 /note="pointer P15-16" misc_feature 1700..1778 /note="macronuclear destined sequence M16; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1779..1790 /note="pointer P16-17" misc_feature 1791..1862 /note="macronuclear destined sequence M17; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1863..1870 /note="pointer P17-18" misc_feature 1871..1926 /note="macronuclear destined sequence M18; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 1927..1934 /note="pointer P18-19" misc_feature 1935..2005 /note="macronuclear destined sequence M19; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2006..2012 /note="pointer P19-20" misc_feature 2013..2027 /note="macronuclear destined sequence M20; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2028..2036 /note="pointer P20-21" misc_feature 2037..2108 /note="macronuclear destined sequence M21; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2109..2118 /note="pointer P21-22" misc_feature 2119..2161 /note="macronuclear destined sequence M22; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2162..2173 /note="pointer P22-23" misc_feature 2174..2243 /note="macronuclear destined sequence M23; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" variation 2202 /note="as compared to micronuclear M23 sequence in GenBank Accession Number AF194337; results in reading frame shift" /replace="" misc_recomb 2244..2251 /note="pointer P23-24" misc_feature 2252..2361 /note="macronuclear destined sequence M24; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2362..2368 /note="pointer P24-25" misc_feature 2369..2391 /note="macronuclear destined sequence M25; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2392..2398 /note="pointer P25-26" misc_feature 2399..2407 /note="macronuclear destined sequence M26; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2408..2414 /note="pointer P26-27" misc_feature 2415..2502 /note="macronuclear destined sequence M27; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2503..2512 /note="pointer P27-28" misc_feature 2513..2524 /note="macronuclear destined sequence M28; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 2525..2537 /note="pointer P28-29" misc_feature 2538..2887 /note="macronuclear destined sequence M29" misc_recomb 2888..2899 /note="pointer P29-30" misc_feature 2900..3279 /note="macronuclear destined sequence M30" misc_recomb 3280..3292 /note="pointer P30-31" misc_feature 3293..3352 /note="macronuclear destined sequence M31; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3353..3361 /note="pointer P31-32" misc_feature 3362..3378 /note="macronuclear destined sequence M32; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3379..3385 /note="pointer P32-33" misc_feature 3386..3431 /note="macronuclear destined sequence M33; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3432..3443 /note="pointer P33-34" misc_feature 3444..3543 /note="macronuclear destined sequence M34; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3544..3555 /note="pointer P34-35" misc_feature 3556..3611 /note="macronuclear destined sequence M35; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3612..3619 /note="pointer P35-36" misc_feature 3620..3690 /note="macronuclear destined sequence M36; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3691..3699 /note="pointer P36-37" misc_feature 3700..3768 /note="macronuclear destined sequence M37; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3769..3778 /note="pointer P37-38" misc_feature 3779..3807 /note="macronuclear destined sequence M38; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3808..3814 /note="pointer P38-39" misc_feature 3815..3909 /note="macronuclear destined sequence M39; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3910..3915 /note="pointer P39-40" misc_feature 3916..3930 /note="macronuclear destined sequence M40; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3931..3940 /note="pointer P40-41" misc_feature 3941..3958 /note="macronuclear destined sequence M41; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 3959..3969 /note="pointer P41-42" misc_feature 3970..3976 /note="macronuclear destined sequence M42; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 3977..3988 /note="pointer P42-43" misc_feature 3989..4218 /note="macronuclear destined sequence M43; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 4219..4227 /note="pointer P43-44" misc_feature 4228..4235 /note="macronuclear destined sequence M44; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 4236..4248 /note="pointer P44-45" misc_feature 4249..4320 /note="macronuclear destined sequence M45; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 4321..4332 /note="pointer P45-46" misc_feature 4333..4345 /note="macronuclear destined sequence M46; may derive from micronuclear minor locus deposited in GenBank Accession Number AF194336" misc_recomb 4346..4357 /note="pointer P46-47" misc_feature 4358..4639 /note="macronuclear destined sequence M47; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" misc_recomb 4640..4644 /note="pointer P47-48" misc_feature 4645..4966 /note="macronuclear destined sequence M48; may derive from micronuclear major locus deposited in GenBank Accession Number AF194337" 3'UTR 4839..4966 misc_feature 4967..4986 /note="telomere" ORIGIN 1 aaaaccccaa aaccccaaaa tcccaaatca aattaatagt tgagraataa raattgaata 61 atrataccgc gtttaatctw agtgggaatc aaagaatgag tttataattt taaacttagt 121 ctaaacaaar cttgcawata agaskatgag tgayaattac acaacacaaa gtggcasaga 181 aatcaagaaa atcggctaaa aatcaggtgt taaaaacgct ctagcttaac tcagagctgc 241 tagagagggt ggagataaga gaactgatta atattaagtm aggaactaaa tttaaagctt 301 gcagragatg ctaatctttt acttaggtcg aagaggcaaa gagaattttt gaagagatag 361 atgcygatga atatgaaaga atttawgatc aaaggaaaaa tgatgatttc attgtkkatg 421 atgatggyty tggctacaga gatcatggag gtgaaatctg ggaaagagat gacaacgaag 481 aggttggcgg taaaaagaaa aagagaaagc ttgatgtaag tataaaccaa gtcttagtct 541 attktatcat ttaaattccg caattyactt acattactct atagccaaat gaacagcaca 601 ttactractt tatgatgccm gcttcaacwa tcagaaagaa caaaggaavm ggcaattcta 661 gcaatatata gataaagcaa aarcctaagg ttacwgctga gcaatctatg gacattatga 721 acaatttgct ataagaacta gataataaag atgtygatga gttggargat gtaaaygcat 781 cagcagttat ggctgagctt aacaaaccaa tagcctttar caaaaatgaa gaacttttga 841 acaaatacgg agtaacttta gagtcwaagc aagaaattta agtgaaaaga caacttgaat 901 agcarcarya tgaacagact attggctaac actaataaaa cgcgaatgta ttttcaaaga 961 aaagaaagct agatgaaatt taacaacctt aaataaaaaa agagcattaa ggactaaata 1021 aaagtaggta gactgaaact attattcatt aatcaagtaa cactagttat ttcgatgcta 1081 aaagttagct atctcatgac taatctatgg aatatcaatc agctgttgat gattctaaga 1141 tgtcagaaag tagctcagca cagaaaaatg caatgaatga aggtcctata gcattcagta 1201 aaaattaaac taatatgtct gcatctaaga atgatgaatg ggcttaaatc aaacatcaga 1261 actaataagc tcattaagag ttcaaaacta tggagtaaaa atcagctatg gatatttaag 1321 aatttgctct cccgttaaat caagatggct cattatcatt ctactggatt gatgcacatg 1381 gggaaaataa tggcgctgat ttattcatat tcggaaaaat ctatcaacca gagatcaatt 1441 aatacgtatc ctgctcaatg aaagtaaatg gaatgtaaag agagatatat gcgcttccta 1501 aaatgcaaaa gggtaaagct agaggaactt tgacaagaga agaggaaaat caactagtta 1561 gaggtgtaca actagaacta gaagatatta gaaagaaaag attccagggt attactaaat 1621 ggagatgcaa gccagttacc aggaaatatg cattcgaaat gcttattcaa catggagagc 1681 atttgttctt gaaaatcaag tatgatgcaa catttatccc tctaccaagt actgtttaag 1741 gaaatacatt tgaatgctta tttggctcta actaaagcat gcttgaactc ttcattctta 1801 aaaggaaaat taaaggtccc tgctggatga cgataaaaaa tccaaagaaa gttactgact 1861 tcaagaaaac atggtgtaga taagagattg aaattgataa tcctaaaaat gcagaggtta 1921 cattggatga tcttaacaaa actgatatcc caccactaac ctccttaaca ttcgcattca 1981 agactgccag atctcagaat aacacaaatg agattgctat gatttcttgc ttggttcata 2041 acaatgttaa tcaggaagga ccatcttaga ctgacaaatt ttagacattt actttagtca 2101 ggaagctcga tggcaaacca atgccatttg attttgacta aaagcttaga tagaagaaag 2161 agaatattta atacttcact aatgaaagat aaatgataga cttatttgta actagaattt 2221 tctaaattga tccagatctt attgtggctc acaatctatg tgggggaata ttcgatctct 2281 tactagctag aatttaaata cttaaaatta accactggag cagaattggt agatttaaga 2341 aaggaaacat tcctactaag aagtttgata ctggtggtgc taattacgga ggatcctaat 2401 ggattccaag ataagttact tgtggtagat tgttagttga tactttcctc tctgccaagg 2461 agctgatcag agaaaccaac tatgacctta ctcatttgac aaaagtctag ctcaagaaag 2521 acagataaga ttttgatgat gatttgctac ctcagttcta tttagcatct gaacgcatat 2581 tttagctcat cgagcattct gagaaagatt cctactatac ttttatgctt atgcctcatc 2641 tatcaattat ccccttaacc aaacaactaa ctaacattgc aggtaactta tggtttaggt 2701 ctctctaaaa cgccagagct gaaagaaacg agatgctttt gttgcatgaa ttcaagaaga 2761 agaaattcat tttaccagat aaaaagccac ctaatgctaa agaccttaga agaggattta 2821 tgggagatga atatgaagag aacgatacca aaggaggagg taaaaaggga ggtaagagaa 2881 agaaggcgaa gtatgctgga ggtctcgtta tagagccaaa agcaggtttc tatgacaaca 2941 ttatcttgct tttggatttc aacagtttgt atccctcaat tattcaagag tacaacctct 3001 gctttactac agtaaacaga agaccaacca agaactacga tggcagtgaa ttgaaaaatc 3061 aatdcaaatc tgctgataac gctgarggag aygaagtcga agatgttgat cttccagata 3121 agaatgtgaa catcaaggat gctgtacttc caartgtact cagagatttg gtttaaaaga 3181 gaaaagctgt maaggaaaag atgaagaatg aaraggatca ggygaarctc taacaacttg 3241 aaatcagata gaaagctatt aagytgactg ctaacagtat gtatggttgc ttrggtttta 3301 gttcctccag attccacgct tcagctattg cagctctgat tacaaagact ggtagagaaa 3361 cccttctaag aacaaaagat attgctgaga ataagytagg ctttaacgtt gtgtatggtg 3421 awactgattc tattatgatc aatactggta ctaaycaact tcagtaatca cttgagatgg 3481 gcaaaaaact taaagttgaa gttaattgyc tctataaatg ccttgaaatw gaaatwgatg 3541 gtgktttcaa gagtttactt ttactaaaga aaaagaaata tgctrctttg agrtatgaag 3601 gtgttggytc yaatgaagtc aaagtaattc aagaaatgaa aggtcttgat atggtyagaa 3661 gagaktggtg tcctctctcr aagtctattg gaaattatgt tctcagccaa attttatcag 3721 gcaaryaarg rgargatgta gtattcaacc tgaaygaata cttatctgat attggagaga 3781 aaatgaagag caatagaatc actctagatc aattcatcat aacaaagcaa cttacwagag 3841 cyatttcaga gtattctgat atcaaaggat aaccmcatgt ggcagttgct caaagactta 3901 aaaattaagg aaagagtgag gcagatcttg tcaataattt catcccttat gttattggag 3961 ctcaagcatt tgatacagct aagtcaaacc cacaattatc agataaggct tatcatccag 4021 atgagctctt atcctccaag ggtaagatta cycttgatat tgattggtat attrctactc 4081 agattcttcy tccaattact agacttattg arcacatcga tggkattaat atcgagttcg 4141 ttgctcaatg ccttggtgtt gacccaaaga agtataaata tcactctgag aaaaagaata 4201 cagatgaaat aggtgatgat ggtggatcaa tctagaatcc tattctttaa actgaaactg 4261 aaaaaagtct taaacacaga tcaattgccg agcttaaagt kaaatgccca tcttgcactc 4321 ataattatga cttcccaggt atttaccaag aaggaaaaga tgtgtctggc ttratttgya 4381 ctaaatgcaa tgctaagata ccagaaaaat atgtgatgaa cagagtkaat ctatttttga 4441 agcagctatt agcyctatat tactagggta aatatgagtg ctargagcct tcttgcaaga 4501 gtatgactcg ttaactcctc tatcataaca aatgtgttaa tctaacttgt aagggyaara 4561 tggtaccaga atactcagag catcaaacya acgmcacact cagatatctt caaggcctat 4621 ttamcattaa aaaacacctt catgaagaca gcaaaaatga ttcattraag gttgaaaccg 4681 acatcccatt ctataatgaa tataatgttt tacagacaaa agtwgatgaa ctaatgaata 4741 gaagtaaata taccaaggtt gacytaggaa gtatattygg cttcatgagg tagagcaata 4801 ataaaatggc tgtaagtagt acggcaactg cttaatgaaa agattttcag tcaaattaag 4861 tacttatatt tatgtgttgm gaaaaaggag tattttttgg aaagatatat gatttattaa 4921 taataaaaga gtawtttaat ctttgcttgc agggttttag cattttgggg ttttggggtt 4981 ttgggg //