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 B) DNA, regions Kp-b Message-ID: Date: 15 Mar 91 13:00:13 GMT Sender: root@genbank.bio.net Distribution: bionet Lines: 162 Approved: lear@genbank.bio.net Checksum: 62321 10 LOCUS OFA81MBAB 1959 bp ds-DNA INV 15-MAR-1991 DEFINITION O.fallax macronuclear (81-MAC family, version B) DNA, regions Kp-b and pSRRHG-b. ACCESSION M13031 M13032 KEYWORDS 81-MAC chromosome family; alternative DNA processing; homolog of mitochondrial solute carriers. SOURCE O.fallax (subkaryonide 3.5) macronuclear DNA, region Kp-b and pSRRHG-b, clones pMA[82d,83,mu-1A1,XX-7,83]. ORGANISM Oxytricha fallax Eukaryota; Animalia; Metazoa; Ciliophora; Polyhymenophora; Spirotricha; Hypotrichida; Sporadotrichina; Oxytrichidae. REFERENCE 1 (bases 1521 to 1959) AUTHORS Herrick,G. JOURNAL Unpublished (1987) Univ. of Utah, Salt Lake City, Utah 84132 STANDARD full staff_entry REFERENCE 2 (bases 1902 to 1941) 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 3 (bases 1 to 1520) 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 1521 to 1782) 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 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occupying the Oxytricha fallax 81-MAC chromosome common region and homologous to mitochondrial solute carriers JOURNAL Unpublished (1991) STANDARD full staff_review COMMENT Draft entry and computer-readable sequence for [J. Protozool. 34, 429-434 (1987)] kindly provided by G.Herrick, 12-DEC-1986. This sequence would be named 'pBSRRHGKp-B' 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. The telomeric sequence '[g(4)t(4)]4 g(4)' is added after position 1942 in the macronuclear DNA (MACIII) clone pMA83, and '[g(4)t(4)]4 g(4)t(2)' is the telomeric sequence added after position 1960 in the macronuclear DNA (MACII or MACIII) clone pMA-mu-1A1. FEATURES Location/Qualifiers misc_feature <1..1941 /note="macronuclear DNA (MACIII) clone pMA83 (telomere addition site)" misc_feature <1..1959 /note="macronuclear DNA, clone pMA-mu-1A1 (telomere addition site)" CDS join(complement(1858..1876),complement(1720..1805), complement(1497..1648),complement(543..1401)) /note="protein homologous to mitochondrial solute carriers" /codon_start=1876 mRNA join(complement(1858..1905),complement(1720..1805), complement(1497..1648),complement((449.454)..1401)) /note="protein homologous to mitochondrial solute carriers" mRNA join(complement(1858..1907),complement(1720..1805), complement(1497..1648),complement((449.454)..1401)) /note="protein homologous to mitochondrial solute carriers" exon complement((449.454)..1401) /number=4 /note="major transcription start site" /note="protein homologous to mitochondrial solute carriers" intron complement(1402..1496) /number=3 /note="protein homologous to mitochondrial solute carriers" exon complement(1497..1648) /number=3 /note="protein homologous to mitochondrial solute carriers" intron complement(1649..1719) /number=2 /note="protein homologous to mitochondrial solute carriers" exon complement(1720..1805) /number=2 /note="protein homologous to mitochondrial solute carriers" intron complement(1806..1857) /number=1 /note="protein homologous to mitochondrial solute carriers" exon complement(1858..1905) /number=1 /note="major transcription start site" /note="protein homologous to mitochondrial solute carriers" exon complement(1858..1907) /number=1 /note="minor transcription start site" /note="protein homologous to mitochondrial solute carriers" BASE COUNT 636 a 325 c 356 g 641 t 1 others ORIGIN 249 bp upstream of SphI site. 1 ggctctaaaa gaaaagatgt tcatgatctt gtcatggatc cttattcata gcaggggagt 61 ggnaggcttc acttgctggt tggtctcata tccctaagat ataattaaaa ctagacttca 121 ggttgctagg agccaagaat ttgcaaatta tagtcgatat ataagagatg gaggaatgat 181 tgaatgtgca aaatatatct ttaagaatga acatgggttt atgggatttt ggagagggtt 241 ctcagcatgc agtgcaagag cagtatttgc taattctttc atgtttgtgg cttatgaata 301 tgcttagaaa aaagcgagag gaattattga atgaataata gtggatttat caaagttttg 361 gaatgatata atgctttata atgtacttta tcaaagtaac ttaagactgt gatattaata 421 tcaactaaga ttatatataa atttaatatt tttaaatagg tttaaataac aaataaatct 481 ctactttaac aaaaaagcat gtgataatgc tctatgttag aagataattt atttctgaat 541 tctcagataa ttgcgagatt ttcttttcct gaagggtgag cagctcccat acctccagta 601 gctgtagtat aagtagcaac taatttttta ttgaaggcat ctgtgtatgg atcatgaata 661 tcgtaatcga taccactttg atagtggaat ctctatggtt gccagaattc ttgatcatag 721 tagttttcgt tatagtagtc taccaagaat tgagaaagat aacaaatcaa gaacaatctg 781 aggaagtagg cttcacctcc tgcatagaat gatccaaagt tagacatcca ctttgagtta 841 cactcgtact ttatgatctt gttgaagcaa tcaatcatgc cgttatatgg catttgaccg 901 tttggaaggg gtctcatggt gtgtagtctt gttctgatca tatcaaaagg catacttaca 961 acagttccaa tagcaacagc tacggcagtt ccccacaatc tattaatcca atgaggacca 1021 aagaagaagt aggagttctc cttgcaccaa tcgtagatgt tggtcattga tgaacaaata 1081 gctgcaagct taaaaccgtt ggcaccagca cctctgaaga gagcaccttc ttcagcaact 1141 ttggcaagtc cttaaattgt atttgagtag tttcttctgg cagcttgtgg ataaagctca 1201 tcaacctgca ttctattgta gacgatatcg atgggatttg tcactactcc agcaataaat 1261 cctccgagta ctcctgctgc taccaagaag tctggacgag caactcttct aggatcttta 1321 tttaccttat cgtagaaata accgaaggct gttactctag cagtagtgta acaaacagtt 1381 ctgaagaaga atgtgtcgaa actataccaa tataaattag ctaaatttat tgcaattcct 1441 caattataag gttgagagag ctttttggat aacccaaatt ttgtttataa acttacgcag 1501 aatagaattt tctgagtcca ccgcctgctg cataaatctc ttccataatt tagaatggat 1561 accaaccctt ttgataacca agaccagaga aggtcttgcc ctcttacagc atttaagatc 1621 tgattctaac catatcgagt ggttaagtct atattacatt aggaatatga ttaatcattg 1681 ctaataagat agaaactgtg ctaaaggata ttaacttaca gcagcatgag ttatgagagc 1741 aatgacattg gcagcagcaa atctttcata gttcatgcgt tggtaccttc ttctccagta 1801 ctcaactaaa aagcaatttt ataaatcgat gattcgatat tttattgata aatttacctt 1861 ccatttaagt aggcatcttt cttgattgct tattttaaaa taattataat aactttatat 1921 taattatgtt tattacaaat tatttcaatt aagctcatt //