Oaf1p gene transcriptions

Associate Editor(s)-in-Chief: Henry A. Hoff

"In S. cerevisiae, peroxisomal proteins are repressed by glucose and induced by oleate (361). It has been shown that derepression of such proteins is dependent on Adr1 and on the Snf1 complex (320–322). Induction by oleate depends on a “peroxisome box” (110), also called the oleate response element (92), which is an imperfect palindrome including the consensus sequence CGGNNNTNA. There is evidence that the transcription factor binding this sequence is a heterodimer containing the proteins Oaf1 and Oaf2/Pip2, which are both C₆ zinc cluster proteins (165, 201, 293)."^[1]

Oleate-activated transcription factor 1 is abbreviated Oaf1.^[2]

Human genes

Interactions

Consensus sequences

The upstream activating sequence (UAS) for the Oaf1p is CGGN₃TNAN_9-12.^[3]

Samplings

Copying CGGN₃TNAN_9-12CCG in "⌘F" yields none between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence CGGN₃TNAN_9-12CCG (starting with SuccessablesOaf1.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

negative strand, negative direction, looking for CGGN₃TNAN₁₂CCG, 1, CGGTCATGAAACCCTCCGACTCCG at 2229.
positive strand, negative direction, looking for CGGN₃TNAN_9-12CCG, 0.
positive strand, positive direction, looking for CGGN₃TNAN₉CCG, 2, CGGACGTGAGACCGCTCTCCG at 1484, CGGACGTGAGACCGCTCTCCG at 1384.
negative strand, positive direction, looking for CGGN₃TNAN_9-12CCG, 0.
complement, negative strand, negative direction, looking for GCCN₃ANTN_9-12GGC, 0.
complement, positive strand, negative direction, looking for GCCN₃ANTN₁₂GGC, 1, GCCAGTACTTTGGGAGGCTGAGGC at 2229.
complement, positive strand, positive direction, looking for GCCN₃ANTN_9-12GGC, 0.
complement, negative strand, positive direction, looking for GCCN₃ANTN₉GGC, 2, GCCTGCACTCTGGCGAGAGGC at 1484, GCCTGCACTCTGGCGAGAGGC at 1384.
inverse complement, negative strand, negative direction, looking for CGGN_9-12TNAN₃CCG, 0.
inverse complement, positive strand, negative direction, looking for CGGN_9-12TNAN₃CCG, 0.
inverse complement, positive strand, positive direction, looking for CGGN_9-12TNAN₃CCG, 0.
inverse complement, negative strand, positive direction, looking for CGGN_9-12TNAN₃CCG, 0.
inverse negative strand, negative direction, looking for GCCN_9-12ANTN₃GGC, 0.
inverse positive strand, negative direction, looking for GCCN_9-12ANTN₃GGC, 0.
inverse positive strand, positive direction, looking for GCCN_9-12ANTN₃GGC, 0.
inverse negative strand, positive direction, looking for GCCN_9-12ANTN₃GGC, 0.

Oaf1 distal promoters

Negative strand, negative direction: CGGTCATGAAACCCTCCGACTCCG at 2229.

Positive strand, positive direction: CGGACGTGAGACCGCTCTCCG at 1484, CGGACGTGAGACCGCTCTCCG at 1384.

Response element random dataset samplings

Oaf1r0: 0.
Oaf1r1: 0.
Oaf1r2: 0.
Oaf1r3: 0.
Oaf1r4: 0.
Oaf1r5: 1, CGGTGTTAAGCCGGCCCCCCG at 1087.
Oaf1r6: 0.
Oaf1r7: 0.
Oaf1r8: 0.
Oaf1r9: 0.
RDr0ci: 0.
RDr1ci: 0.
RDr2ci: 0.
RDr3ci: 0.
RDr4ci: 0.
RDr5ci: 0.
RDr6ci: 0.
RDr7ci: 0.
RDr8ci: 0.
RDr9ci: 0.

RDr arbitrary (evens) (4560-2846) UTRs

RDr alternate (odds) (4560-2846) UTRs

RDr arbitrary negative direction (evens) (2846-2811) core promoters

RDr alternate negative direction (odds) (2846-2811) core promoters

RDr arbitrary positive direction (odds) (4445-4265) core promoters

RDr alternate positive direction (evens) (4445-4265) core promoters

RDr arbitrary negative direction (evens) (2811-2596) proximal promoters

RDr alternate negative direction (odds) (2811-2596) proximal promoters

RDr arbitrary positive direction (odds) (4265-4050) proximal promoters

RDr alternate positive direction (evens) (4265-4050) proximal promoters

RDr arbitrary negative direction (evens) (2596-1) distal promoters

Oafr alternate negative direction (odds) (2596-1) distal promoters

Oaf1r5: CGGTGTTAAGCCGGCCCCCCG at 1087.

Oafr arbitrary positive direction (odds) (4050-1) distal promoters

Oaf1r5: CGGTGTTAAGCCGGCCCCCCG at 1087.

RDr alternate positive direction (evens) (4050-1) distal promoters

References

↑ Juana M. Gancedo (June 1998). "Yeast Carbon Catabolite Repression". Microbiology and Molecular Biology Reviews. 62 (2): 334–361. PMID 9618445. Retrieved 6 February 2021.
↑ Fred D. Mast and John D. Aitchison (31 October 2018). del Río L., Schrader M., ed. Characterization of Peroxisomal Regulation Networks, In: Proteomics of Peroxisomes. Subcellular Biochemistry. 89. Singapore: Springer. pp. 367–382. doi:10.1007/978-981-13-2233-4_16. ISBN 978-981-13-2232-7. Retrieved 10 February 2021.
↑ Hongting Tang, Yanling Wu, Jiliang Deng, Nanzhu Chen, Zhaohui Zheng, Yongjun Wei, Xiaozhou Luo, and Jay D. Keasling (6 August 2020). "Promoter Architecture and Promoter Engineering in Saccharomyces cerevisiae". Metabolites. 10 (8): 320–39. doi:10.3390/metabo10080320. PMID 32781665 Check |pmid= value (help). Retrieved 18 September 2020.

External links

[Gancedo-1] Juana M. Gancedo (June 1998). "Yeast Carbon Catabolite Repression". Microbiology and Molecular Biology Reviews. 62 (2): 334–361. PMID 9618445. Retrieved 6 February 2021.

[Mast-2] Fred D. Mast and John D. Aitchison (31 October 2018). del Río L., Schrader M., ed. Characterization of Peroxisomal Regulation Networks, In: Proteomics of Peroxisomes. Subcellular Biochemistry. 89. Singapore: Springer. pp. 367–382. doi:10.1007/978-981-13-2233-4_16. ISBN 978-981-13-2232-7. Retrieved 10 February 2021.

[Tang-3] Hongting Tang, Yanling Wu, Jiliang Deng, Nanzhu Chen, Zhaohui Zheng, Yongjun Wei, Xiaozhou Luo, and Jay D. Keasling (6 August 2020). "Promoter Architecture and Promoter Engineering in Saccharomyces cerevisiae". Metabolites. 10 (8): 320–39. doi:10.3390/metabo10080320. PMID 32781665 Check |pmid= value (help). Retrieved 18 September 2020.

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[2]

[3]

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