Path: utzoo!utgpu!watserv1!watmath!uunet!bionet!root From: GenBank-Updates@genbank.bio.net Newsgroups: bionet.molbio.genbank.updates Subject: O.fallax macronuclear (81-MAC family) TBE1-2-less vC DNA region. Message-ID: Date: 15 Mar 91 13:00:14 GMT Sender: root@genbank.bio.net Distribution: bionet Lines: 121 Approved: lear@genbank.bio.net Checksum: 24535 7 LOCUS OFA81MCAC 467 bp ds-DNA INV 15-MAR-1991 DEFINITION O.fallax macronuclear (81-MAC family) TBE1-2-less vC DNA region. ACCESSION M25391 KEYWORDS 81-MAC chromosome family; alternative DNA processing; homolog of mitochondrial solute carriers. SOURCE O.fallax (subkaryonide 3.5) macronuclear DNA, region HGHK-c. ORGANISM Oxytricha fallax Eukaryota; Animalia; Metazoa; Ciliophora; Polyhymenophora; Spirotricha; Hypotrichida; Sporadotrichina; Oxytrichidae. REFERENCE 1 (bases 1 to 467) AUTHORS Herrick,G. JOURNAL Unpublished (1989) Univ. of Utah, Salt Lake City, Utah 84132 STANDARD full staff_entry REFERENCE 2 (bases 1 to 467) 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 REFERENCE 3 (sites) AUTHORS Williams,K.R. and Herrick,G. TITLE Transcription analysis of a gene occupying the Oxytricha fallax 81-MAC chromosome common region and homologous to mitochondrial solute carriers JOURNAL Unpublished (1991) STANDARD full staff_review COMMENT Draft entry and computer-readable sequence [Genes Dev. 3, 2101-2112 (1989)] kindly provided by G.Herrick, 31-OCT-1989. This sequence would be named 'HGKH-c' by the conventions used in the Herrick laboratory. 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. The micronuclear IES sequence and the ends of TBE1-2 (excision points annotated below) can be found in separate entries under accession numbers M13039 and M13037. FEATURES Location/Qualifiers CDS join(complement(390..408),complement(252..337), complement(29..180)) /note="protein homologous to mitochondrion solute carriers" /codon_start=408 /partial mRNA join(complement(390..437),complement(252..337), complement(29..180)) /note="protein homologous to mitochondrion solute carriers" /partial mRNA join(complement(390..439),complement(252..337), complement(29..180)) /note="protein homologous to mitochondrion solute carriers" /partial intron complement(1..28) /number=3 /note="protein homologous to mitochondrion solute carriers" /partial exon complement(29..180) /number=3 /note="protein homologous to mitochondrion solute carriers" intron complement(181..251) /number=2 /note="protein homologous to mitochondrion solute carriers" exon complement(252..337) /number=2 /note="protein homologous to mitochondrion solute carriers" misc_feature 273..275 /note="TBE1-2 insertion target sequence (excision site after 275)" intron complement(338..389) /number=1 /note="protein homologous to mitochondrion solute carriers" exon complement(390..437) /number=1 /note="major transcription start site" /note="protein homologous to mitochondrion solute carriers" exon complement(390..439) /number=1 /note="minor transcription start site" /note="protein homologous to mitochondrion solute carriers" misc_feature 451..454 /note="IES imperfect duplication sequence (excission site after 454)" BASE COUNT 155 a 79 c 65 g 168 t ORIGIN 1 ataagccaaa ttttgtttat acacttacgc agaatagaat tttttgagtc cacctcctgc 61 tgcataaatc tcttccataa tttagaatgg ataccaaccc ttttgataac caaggcctga 121 gaaggtcttg ccctcttaca gcatttgaga tctgattcta accatatcga gtggttaagt 181 ctatattaca tttagaatat gattaatcat tgctaataag atagaaaatg tgctatagaa 241 tactaactta cagcagcatg agttatgaga gcaatgacat tagcagcagc aaatctttca 301 tagttcatgc gttggtacct tcttctccag tactcaacta aaacgaaatt ttagaaatca 361 atgattcgat attttattga taaatttacc ttccatttaa gtaggcatct ttcttgattg 421 cttattttaa aataattata ataactttat attaattatg tttatta //