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, version A) DNA, region Message-ID: Date: 15 Mar 91 13:00:12 GMT Sender: root@genbank.bio.net Distribution: bionet Lines: 175 Approved: lear@genbank.bio.net Checksum: 03631 10 LOCUS OFA81MAA 1671 bp ds-DNA INV 15-MAR-1991 DEFINITION O.fallax macronuclear (81-MAC family, version A) DNA, region SRRHGKH-a (partial). ACCESSION M15835 M12073 M13033 KEYWORDS 81-MAC chromosome family; alternative DNA processing; homolog of mitochondrial solute carriers. SOURCE O.fallax (subkaryonide 3.5) macrocuclear DNA, region SRRHGKH-a, clones pMA[83s,81]. 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JOURNAL Cell 43, 759-768 (1985) STANDARD full staff_review REFERENCE 2 (bases 1617 to 1671) AUTHORS Herrick,G. JOURNAL Unpublished (1987) Univ. of Utah, Salt Lake City, Utah 84132 STANDARD full staff_entry REFERENCE 3 (bases 1 to 1570) AUTHORS Herrick,G., Hunter,D., Williams,K. and Kotter,K. TITLE Alternative processing during development of a macronuclear chromosomal family in Oxytricha fallax JOURNAL Genes Dev. 1, 1047-1058 (1987) STANDARD full staff_entry REFERENCE 4 (bases 1 to 1616) 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 5 (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occupying the Oxytricha fallax 81-MAC chromosome common region and homologous to mitochondrial solute carriers JOURNAL Unpublished (1991) STANDARD full staff_review COMMENT [Cell 43, 759-768 (1985)] sites; telomere-bearing element description.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. This sequence is the final 1671 bp of that referred to as pRRHGKH-a 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. The micronuclear IES sequences (excision points annotated below) can be found in separate entries: accession numbers M13041 and M13042. The telomeric sequence 'a [c(4)a(4)]4 c(4)' is added before positions 1 and 34, and '[g(4)t(4)]4 g(4)' is added after position 157 FEATURES Location/Qualifiers CDS join(complement(1464..1482),complement(1326..1411), complement(1104..1255),complement(150..1008)) /note="protein homologous to mitochondrial solute carriers" /codon_start=1482 mRNA join(complement(1464..1511),complement(1326..1411), complement(1104..1255),complement(61..1008), complement(150..1008)) /note="protein homologous to mitochondrial solute carriers" mRNA join(complement(1464..1513),complement(1326..1411), complement(1104..1255),complement(61..1008), complement(150..1008)) /note="protein homologous to mitochondrial solute carriers" misc_feature 1..1570 /note="macronuclear DNA (MACIII); clone pMA83s (telomere addition site)" misc_feature 34..>1671 /note="macronuclear DNA (MACI); clone pMA81 (telomere addition site)" exon complement(61..1008) /number=4 /note="protein homologous to mitochondrial solute carriers" misc_feature 262..266 /note="IES duplication sequence (excision site after 266)" misc_feature 415..417 /note="TBE1-1 insertion target sequence (version C)" intron complement(1009..1103) /number=3 /note="protein homologous to mitochondrial solute carriers" exon complement(1104..1255) /number=3 /note="protein homologous to mitochondrial solute carriers" intron complement(1256..1325) /number=2 /note="protein homologous to mitochondrial solute carriers" exon complement(1326..1411) /number=2 /note="protein homologous to mitochondrial solute carriers" misc_feature 1347..1349 /note="TBE1-2 insertion target sequence (version C)" intron complement(1412..1463) /number=1 /note="protein homologous to mitochondrial solute carriers" exon complement(1464..1511) /number=1 /note="major transcription start site" /note="protein homologous to mitochondrial solute carriers" exon complement(1464..1513) /number=1 /note="minor transcription start site" /note="protein homologous to mitochondrial solute carriers" misc_feature 1525..1528 /note="IES imperfect duplication sequence (excision site after 1528)" BASE COUNT 542 a 302 c 272 g 555 t ORIGIN 144 bp upstream of EcoRI site. 1 aagtaactta ggactgtgat attaatatca actaagagta tatataaatt taatatttta 61 aaataggttt aaataacaaa taaatctcta ctttaacaaa aaagcatgtg ataatgctcg 121 atgttagaga caatttattt tttgaattct cagataattg cgagattttc ttttcctgaa 181 gggtgagcag ctcccatacc tccagtagct gtagtataag tagcaactaa ttttttattg 241 aaggcatctg tgtatggatc atgaatatcg taatcgatac cactttgata gtggaatctc 301 tatggttgcc agaattcttg atcatagtag ttttcgttat agtaatcgac caagaattga 361 gaaagataac aaatcaagaa caatctgagg aagtaggctt cacctcctgc atagaatgat 421 ccaaagttag acatccattt tgagttgcac tcgtacttta tgatcttgtt gaagcaatca 481 atcatgccgt tatatggcat ttgaccgttt ggtagtggtc tcatggtgtg tagtcttgtt 541 ctgatcatat caaaaggcat gcttacaaca gttccaatag caacagctac ggcagtaccc 601 cacaatctat taatccaatg aggaccaaag aagaagtagg agttctcctt gcaccaatcg 661 tagatgtttg tcattgatga acaaatagct gcaagcttaa aaccgttggc accagcacct 721 ctgaagagag caccttcttc agcaactttc gcaagtcctt aaattgtatt tgagtagttt 781 cttctggcag cttgtggata aagctcatca acctgcattc tattatagac gatatcgatg 841 ggatttgtca ctacaccagc aataaatcct ccgagtactc ctgctgctac caagaagtct 901 ggacgagcaa ctcttctggg atctttattt accttatcgt agaaataacc gaaggctgtt 961 actctagcag tagtgtaaca aactgttctg aagaagaatg tgtcgaaact ataccaatat 1021 aaattagcta aatttattgc aattcctcaa ttataaaatt gagagatgtt tttggataac 1081 ccaaattttg tttatacact tacgcagaat agaattttct gagtccaccg cctgctgcat 1141 aaatctcttc cataatttag aatggatacc aacctttttg ataaccaagg cctgagaagg 1201 tcttgccctc ttacagcatt tgagatctga ttctaaccat atcgagtggt taagtctata 1261 ttacattaag aatatgatta aatatcacaa agcatagtat attgtgcttt agggtattaa 1321 cttacagcgg catgagttat gagagcaata acattagcag cagcaaatct ttcatagttc 1381 atgcgttggt accttcttct ccagtactca actaaaaata aattttataa atcgatgatt 1441 cgatatttta ttgataaatt taccttccat ttaagtaggc atctttcttg attgcttatt 1501 ttaaaataat tttaataact ttatattaat tatgtttatt acaaattatt tcaattaagt 1561 tcattcaaaa ataaatctct gccaccttta aaatctatat ttaggttaac tcaagtcttc 1621 aaacaacact tctctgtgaa gaatcacttc ttaaaacacc agttttctac t //