Path: utzoo!utgpu!watserv1!watmath!uunet!bionet!root From: GenBank-Updates@genbank.bio.net Newsgroups: bionet.molbio.genbank.updates Subject: O.fallax micronuclear (81-MAC family, version C) DNA, regions Message-ID: Date: 16 Mar 91 13:00:23 GMT Sender: root@genbank.bio.net Distribution: bionet Lines: 116 Approved: lear@genbank.bio.net Checksum: 59235 7 LOCUS OFA81MCA2 1232 bp ds-DNA INV 16-MAR-1991 DEFINITION O.fallax micronuclear (81-MAC family, version C) DNA, regions SRRHG-c (partial), mic-gH-c and GKH-c (partial). ACCESSION M13037 M13029 M13038 N00056 KEYWORDS 81-MAC chromosome family; TBE1 telomere bearing element; alternative DNA processing; homolog of mitochondrial solute carriers; transposon. SEGMENT 2 of 3 SOURCE O.fallax (subkaryonide 3.5) micronuclear DNA, regions mic-gH-c and SRRHG-c, clones L47-mic[2,8,10,20,22,26]. ORGANISM Oxytricha fallax Eukaryota; Animalia; Metazoa; Ciliophora; Polyhymenophora; Spirotricha; Hypotrichida; Sporadotrichina; Oxytrichidae. REFERENCE 1 (sites) AUTHORS Herrick,G., Cartinhour,S., Dawson,D., Ang,D., Sheets,R., Lee,A. and Williams,K. TITLE Mobile elements bounded by C-4-A-4 telomeric repeats in Oxytricha fallax JOURNAL Cell 43, 759-768 (1985) STANDARD full staff_review REFERENCE 2 (bases 1 to 1232) AUTHORS Herrick,G. JOURNAL Unpublished (1987) Univ. of Utah, Salt Lake City, Utah 84132 STANDARD full staff_entry REFERENCE 3 (bases 1 to 827) AUTHORS Herrick,G., Cartinhour,S.W., Williams,K.R. and Kotter,K.P. TITLE Multiple sequence versions of the Oxytricha fallax 81-MAC alternate processing family JOURNAL J. Protozool. 34, 429-434 (1987) STANDARD full staff_review REFERENCE 4 (bases 828 to 1232) AUTHORS Hunter,D.J., Williams,K., Cartinhour,S. and Herrick,G. TITLE Precise excision of telomere-bearing transposons during Oxytricha fallax macronuclear development JOURNAL Genes Dev. 3, 2101-2112 (1989) STANDARD full staff_entry COMMENT [Cell 43, 759-768 (1985)] sites; telomere-bearing element description. Draft entry and computer-readable sequence for [J. Protozool. 34, 429-434 (1987)] kindly provided by G.Herrick, 12-DEC-1986. Bases 1-398 are from region mic-gH-c and 118-827 from SRRHG-c as referred to in [J. Protozool. 34, 429-434 (1987)]. This sequence would be named 'mic-gHGh-c' by the convention in [J. Protozool. 34, 429-434 (1987)]. The 81-MAC chromosome family is created by alternative processing of the micronuclear DNA. The 81-MAC family consists of three sizes of macronuclear chromosomes: 4.9 kb (MACI), 2.9 kb (MACII), and 1.6 kb (MACIII). Alternative processing results from alternative choice of chromosome break/telomere-addition sites. The 1.6 kb region in common between the three chromosomes bears a transcribed open reading frame, the conceptual translation product of which is homologous to solute carrier proteins from plants and metazoans. There are three distinct micronuclear loci (sequence versions),vA, vB, and vC. Alternative processing of each micronuclear version independently gives rise to a I+II+III family of macronuclear chromosomes. The open reading frame is conserved in all three versions. Little is known about the structure of vB micronuclear DNA (no clones), but vA and vC micronuclear DNAs bear micronucleus-limited sequences called internal eliminated sequences (IESs). vA and vC have small IESs in common, but in addition, vC bears two large transposons, TBE1-1 and -2, which also are IESs. IESs are precisely excised, leaving one short flanking direct repeat in macronuclear DNA. When TBE1-1 is excised one flanking 'aat' probably remains in macronuclear DNA, as judged from oligomer hybridization experiments. When TBE1-2 is excised one flanking 'aat' remains in macronuclear DNA; the sequence of the resulting macronuclear DNA can be found in a separate entry, accession number M25391. FEATURES Location/Qualifiers transposon <1..114 /note="TBE1-1 insertion element" repeat_region 38..114 /note="3' TBE1-1 inverted terminal repeat" repeat_region 98..114 /note="telomere sequence of TBE1-1" repeat_region 115..117 /note="3' TBE1-1 duplicated insertion target sequence" repeat_region 1048..1050 /note="5' TBE1-2 duplicated insertion target sequence" repeat_region 1051..1067 /note="telomere sequence of TBE1-2" repeat_region 1051..1128 /note="5' TBE1-2 inverted terminal repeat" transposon 1051..>1232 /note="TBE1-2 insertion element" BASE COUNT 379 a 232 c 224 g 394 t 3 others ORIGIN About 3.2 kb after segment 1. 1 agaccccgga tagcttgtaa tttttgtctc gcatttaatt aataacccaa cccctaacaa 61 attccctaca aatcaataca ctaaaccatc tacttaaggg gttttggggt tttgaatgat 121 ccaaagttag acatccactt tgagttacac tcgtacttta tgatcttgtt gaagcaatca 181 atcatgccgt tatatggcat ttgaccgttt ggtagtggtc tcatggtgtg tagtcttgtt 241 ctgatcatat cgaaaggcat acttacagca gttcctatag caacagctac ggcagtaccc 301 cacaatctat taatccaatg aggaccaaag aagaagtagg agttttcctt gcaccaatcg 361 tagatgtttg tcattgatga acaaatagct gcaagcttaa aaccgttggc accagcacct 421 ctgaagagag caccttcttc agcaactttg gcaagtcctt aaattgtatt tgagtaattt 481 cttctggcag cttgtggata aagctcatca acttgcattc tattgtagac gatatcgatt 541 ggatttgtca ctacaccagc aataaatcct ccgagtactc ctgctgctac caagaagtct 601 ggacgagcaa ctcttctggg atctttattt accttatcgt agaaataacc gaaggctgtt 661 actctggcag tagtgtaaca aacagttctg aagaagaatg tgtcgaaact ataccaatat 721 aaattagcta aatttattgc aattcctcaa ttataatgtt gagagagaac tttatataag 781 ccaaattttg tttatacact tacgcagaat agaatttttt gagtccacct cctgctgcat 841 aaatctcttc cataatttag aatggatacc aacccttttg ataaccaagg cctgagaagg 901 tcttgccctc ttacagcatt tgagatctga ttctaaccat atcgagtggt taagtctata 961 ttacatttag aatatgatta atcattgcta ataagataga aaatgtgcta tagaatacta 1021 acttacagca gcatgagtta tgagagcaat caaaacccca aaacccctta agtagatggt 1081 ttagtgtatt gatttgtagg gaatttgtta ggggttgggg ttattaatag gttttaatgt 1141 gaaatttaaa gtatatmtat ttaactttaa tcactcaaaa tmtacttttg gatcgtgtgg 1201 gagnggtctg aaggtttatc ttacttaacc ac //