Cat8p gene transcriptions

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

Human genes

Interactions

Consensus sequences

The upstream activating sequence (UAS) for Cat8p is 5'-CGGNBNVMHGGA-3', where N = A, C, G, T, B = C, G, T, V = A, C, G, M = A, C, and H = A, C, T; i.e. 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3'.^[1]

Hypotheses

A1BG has no Cat8ps in either promoter.
A1BG is not transcribed by a Cat8p.
Cat8p does not participate in the transcription of A1BG.

Samplings

Copying 5'-CGGTCCGC-3' 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 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3' (starting with SuccessablesCat8p.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 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
negative strand, positive direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
positive strand, negative direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
positive strand, positive direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
complement, negative strand, negative direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
complement, negative strand, positive direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
complement, positive strand, negative direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
complement, positive strand, positive direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
inverse complement, negative strand, negative direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 2, 5'-TCCGTGCCACCG-3' at 2528, 5'-TCCGTGCCACCG-3' at 657, and complements.
inverse complement, negative strand, positive direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
inverse complement, positive strand, negative direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
inverse complement, positive strand, positive direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
inverse negative strand, negative direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.
inverse negative strand, positive direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.
inverse positive strand, negative direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 2, 5'-AGGCACGGTGGC-3' at 2528, 5'-AGGCACGGTGGC-3' at 657.
inverse positive strand, positive direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.

Cat8p distal promoters

Negative strand, negative direction: TCCGTGCCACCG at 2528, TCCGTGCCACCG at 657.

Cat8 random dataset samplings

Cat8r0: 0.
Cat8r1: 1, CGGGTTGATGGA at 1079.
Cat8r2: 0.
Cat8r3: 0.
Cat8r4: 0.
Cat8r5: 1, CGGCTCAACGGA at 575.
Cat8r6: 1, CGGGCCAATGGA at 743.
Cat8r7: 0.
Cat8r8: 0.
Cat8r9: 0.
Cat8r0ci: 0.
Cat8r1ci: 0.
Cat8r2ci: 1, TCCTGTACACCG at 1210.
Cat8r3ci: 0.
Cat8r4ci: 1, TCCTGGGCGCCG at 2629.
Cat8r5ci: 0.
Cat8r6ci: 1, TCCAGTTGTCCG at 2642.
Cat8r7ci: 1, TCCATCCGGCCG at 1909.
Cat8r8ci: 1, TCCTGTTGCCCG at 3455.
Cat8r9ci: 0.

Cat8r UTRs

Cat8r8ci: TCCTGTTGCCCG at 3455.

Cat8r proximal promoters

Cat8r4ci: TCCTGGGCGCCG at 2629.
Cat8r6ci: TCCAGTTGTCCG at 2642.

Cat8r distal promoters

Cat8r6: CGGGCCAATGGA at 743.
Cat8r2ci: TCCTGTACACCG at 1210.

Cat8r1: CGGGTTGATGGA at 1079.
Cat8r5: CGGCTCAACGGA at 575.
Cat8r7ci: TCCATCCGGCCG at 1909.

Cat8 analysis and results

The real promoters have only two Cat8s: TCCGTGCCACCG at 2528 and TCCGTGCCACCG at 657, both on the negative strand in the negative direction in the distal promoter for an occurrence of 0.5.

The random datasets had response elements in the UTRs (0.1) and proximal promoters (0.1) as well as the distal promoters (0.25), specifically in the negative direction (0.2) and 0.3 in the positive direction.

Even though there are only two real Cat8 response elements in the distal promoter, they are likely active or activable.

Acknowledgements

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

References

↑ 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

[Tang-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.

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transcriptions Shoot specific element gene transcriptions Sip4p gene transcriptions Smp1p gene transcriptions Sp1 gene transcriptions Spaceflight gene expressions Specificity protein gene transcriptions STAT gene transcriptions Ste12p gene transcriptions Sterol response element gene transcriptions Sucrose box gene transcriptions Synaptic Activity-Responsive Elements TACTAAC box gene transcriptions TAGteam gene transcriptions Tapetum box gene transcriptions TATA binding protein associated factor gene transcriptions TATA binding protein gene transcriptions TATA box actin/cytoskeleton/contractile family TATA box albumin family TATA box aldolase family TATA box alkaline phosphatase family TATA box annexin family TATA box cytochrome superfamily TATA box gene transcriptions TATA box heat shock family TATA box histone family TATA box human genes TATA box keratin family TATA box lipase family TATA box peptidase family TATA box platelet-derived growth factor family TATA box selenium-binding 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