Ste12p gene transcriptions

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

"The [Sterile12] STE12 gene encodes a transcription factor that activates genes involved in yeast mating (thus ste12 mutants are sterile) 4."^[1]

Human genes

Interactions

Consensus sequences

The upstream activating sequence (UAS) for Ste12p is 5'-TGAAAC-3'.^[2]

STE samplings

Copying TGAAAC in "⌘F" yields eleven between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence TGAAAC (starting with SuccessablesSTE.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 TGAAAC, 12, TGAAAC at 4462, TGAAAC at 3985, TGAAAC at 3076, TGAAAC at 2553, TGAAAC at 2217, TGAAAC at 2100, TGAAAC at 1791, TGAAAC at 1688, TGAAAC at 1146, TGAAAC at 682, TGAAAC at 546, TGAAAC at 409.
positive strand, negative direction, looking for TGAAAC, 8, TGAAAC at 3147, TGAAAC at 2620, TGAAAC at 2283, TGAAAC at 1856, TGAAAC at 1583, TGAAAC at 1213, TGAAAC at 474, TGAAAC at 127.
positive strand, positive direction, looking for TGAAAC, 0.
negative strand, positive direction, looking for TGAAAC, 1, TGAAAC at 2147.
inverse complement, negative strand, negative direction, looking for GTTTCA, 0.
inverse complement, positive strand, negative direction, looking for GTTTCA, 0.
inverse complement, positive strand, positive direction, looking for GTTTCA, 0.
inverse complement, negative strand, positive direction, looking for GTTTCA, 2, GTTTCA at 2302, GTTTCA at 2264.

STE (4560-2846) UTRs

Negative strand, negative direction: TGAAAC at 4462, TGAAAC at 3985, TGAAAC at 3076.
Positive strand, negative direction: TGAAAC at 3147.

STE negative direction (2811-2596) proximal promoters

Positive strand, negative direction: TGAAAC at 2620.

STE negative direction (2596-1) distal promoters

Negative strand, negative direction: TGAAAC at 2553, TGAAAC at 2217, TGAAAC at 2100, TGAAAC at 1791, TGAAAC at 1688, TGAAAC at 1146, TGAAAC at 682, TGAAAC at 546, TGAAAC at 409.
Positive strand, negative direction: TGAAAC at 2283, TGAAAC at 1856, TGAAAC at 1583, TGAAAC at 1213, TGAAAC at 474, TGAAAC at 127.

STE positive direction (4050-1) distal promoters

Negative strand, positive direction: TGAAAC at 2147.
Negative strand, positive direction: GTTTCA at 2302, GTTTCA at 2264.

STE random dataset samplings

STEr0: 3, TGAAAC at 3417, TGAAAC at 1932, TGAAAC at 902.
STEr1: 2, TGAAAC at 3795, TGAAAC at 2244.
STEr2: 2, TGAAAC at 1991, TGAAAC at 1629.
STEr3: 0.
STEr4: 2, TGAAAC at 3254, TGAAAC at 819.
STEr5: 0.
STEr6: 2, TGAAAC at 1714, TGAAAC at 1098.
STEr7: 3, TGAAAC at 4202, TGAAAC at 3828, TGAAAC at 3531.
STEr8: 0.
STEr9: 2, TGAAAC at 3845, TGAAAC at 1746.
STEr0ci: 0.
STEr1ci: 1, GTTTCA at 550.
STEr2ci: 4, GTTTCA at 3273, GTTTCA at 1655, GTTTCA at 1058, GTTTCA at 67.
STEr3ci: 1, GTTTCA at 2785.
STEr4ci: 1, GTTTCA at 281.
STEr5ci: 4, GTTTCA at 4110, GTTTCA at 1882, GTTTCA at 1661, GTTTCA at 934.
STEr6ci: 0.
STEr7ci: 2, GTTTCA at 768, GTTTCA at 610.
STEr8ci: 2, GTTTCA at 1787, GTTTCA at 369.
STEr9ci: 2, GTTTCA at 3029, GTTTCA at 1239.

STEr arbitrary (evens) (4560-2846) UTRs

STEr0: TGAAAC at 3417.
STEr4: TGAAAC at 3254.
STEr2ci: GTTTCA at 3273.

STEr alternate (odds) (4560-2846) UTRs

STEr1: TGAAAC at 3795.
STEr7: TGAAAC at 4202, TGAAAC at 3828, TGAAAC at 3531.
STEr9: TGAAAC at 3845.
STEr5ci: GTTTCA at 4110.
STEr9ci: GTTTCA at 3029, GTTTCA at 1239.

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

STEr3ci: GTTTCA at 2785.

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

STEr7: TGAAAC at 4202.
STEr5ci: GTTTCA at 4110.

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

STEr0: TGAAAC at 1932, TGAAAC at 902.
STEr2: TGAAAC at 1991, TGAAAC at 1629.
STEr4: TGAAAC at 819.
STEr6: TGAAAC at 1714, TGAAAC at 1098.
STEr2ci: GTTTCA at 1655, GTTTCA at 1058, GTTTCA at 67.
STEr4ci: GTTTCA at 281.
STEr8ci: GTTTCA at 1787, GTTTCA at 369.

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

STEr1: TGAAAC at 2244.
STEr9: TGAAAC at 1746.
STEr1ci: GTTTCA at 550.
STEr5ci: GTTTCA at 1882, GTTTCA at 1661, GTTTCA at 934.
STEr7ci: GTTTCA at 768, GTTTCA at 610.
STEr9ci: GTTTCA at 1239.

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

STEr1: TGAAAC at 3795, TGAAAC at 2244.
STEr7: TGAAAC at 3828, TGAAAC at 3531.
STEr9: TGAAAC at 3845, TGAAAC at 1746.
STEr1ci: GTTTCA at 550.
STEr3ci: GTTTCA at 2785.
STEr5ci: GTTTCA at 1882, GTTTCA at 1661, GTTTCA at 934.
STEr7ci: GTTTCA at 768, GTTTCA at 610.
STEr9ci: GTTTCA at 3029, GTTTCA at 1239.

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

STEr0: TGAAAC at 3417, TGAAAC at 1932, TGAAAC at 902.
STEr2: TGAAAC at 1991, TGAAAC at 1629.
STEr4: TGAAAC at 3254, TGAAAC at 819.
STEr6: TGAAAC at 1714, TGAAAC at 1098.
STEr2ci: GTTTCA at 3273, GTTTCA at 1655, GTTTCA at 1058, GTTTCA at 67.
STEr4ci: GTTTCA at 281.
STEr8ci: GTTTCA at 1787, GTTTCA at 369.

STE analysis and results

The upstream activating sequence (UAS) for Ste12p is TGAAAC.^[2]

Reals or randoms	Promoters	direction	Numbers	Strands	Occurrences	Averages (± 0.1)
Reals	UTR	negative	4	2	2	2 ± 1 (--3,+-1)
Randoms	UTR	arbitrary negative	3	10	0.3	0
Randoms	UTR	alternate negative	8	10	0.8	0
Reals	Core	negative	0	2	0	0
Randoms	Core	arbitrary negative	0	10	0	0
Randoms	Core	alternate negative	0	10	0	0
Reals	Core	positive	0	2	0	0
Randoms	Core	arbitrary positive	0	10	0	0
Randoms	Core	alternate positive	0	10	0	0
Reals	Proximal	negative	1	2	0.5	0.5 ± 0.5 (--0,+-1)
Randoms	Proximal	arbitrary negative	0	10	0	0.05 ± 0.05
Randoms	Proximal	alternate negative	1	10	0.1	0.05 ± 0.05
Reals	Proximal	positive	0	2	0	0
Randoms	Proximal	arbitrary positive	2	10	0.2	0.1 ± 0.1
Randoms	Proximal	alternate positive	0	10	0	0.1 ± 0.1
Reals	Distal	negative	15	2	7.5	7.5 ± 1.5 (--9,+-6)
Randoms	Distal	arbitrary negative	13	10	1.3	1.1 ± 0.2
Randoms	Distal	alternate negative	9	10	0.9	1.1 ± 0.2
Reals	Distal	positive	3	2	1.5	1.5 ± 0.5 (-+3,++0)
Randoms	Distal	arbitrary positive	15	10	1.5	1.55 ± 0.05
Randoms	Distal	alternate positive	16	10	1.6	1.55 ± 0.05

Comparison:

The occurrences of real STEs are greater than the randoms. This suggests that the real STEs are likely active or activable.

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

References

↑ Nitasha Sehgal, M. Eileen Sylves, Ansuman Sahoo, Jacky Chow, Sarah E. Walker, Paul J. Cullen, James O. Berry (November/December 2018). "CRISPR Gene Editing in Yeast: An Experimental Protocol for an Upper‐Division Undergraduate Laboratory Course". Biochemistry and Molecular Biology Education. 46 (6): 592–601. doi:10.1002/bmb.21175. Retrieved 28 February 2021. Check date values in: |date= (help)
↑ ^2.0 ^2.1 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

[Sehgal-1] Nitasha Sehgal, M. Eileen Sylves, Ansuman Sahoo, Jacky Chow, Sarah E. Walker, Paul J. Cullen, James O. Berry (November/December 2018). "CRISPR Gene Editing in Yeast: An Experimental Protocol for an Upper‐Division Undergraduate Laboratory Course". Biochemistry and Molecular Biology Education. 46 (6): 592–601. doi:10.1002/bmb.21175. Retrieved 28 February 2021. Check date values in: |date= (help)

[Tang-2] 2.0 ^2.1 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.

[1]

[2]

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