Msn2,4p gene transcriptions: Difference between revisions

Revision as of 20:45, 7 February 2021

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

"[msn2p] is a transcription factor that binds to stress-response elements (STREs) resulting in the induction of more than 200 genes.10,11 STRE has a core pentameric cis-acting sequence CCCCT and is located in promoter regions of the induced genes."^[1]

Human genes

Gene expressions

Interactions

Consensus sequences

The upstream activating sequence (UAS) for the Msn2,4p transcription factor is 5'-CCCCT-3'.^[2]

Binding site for

Complement copies

Inverse copies

Complement-inverse copies

Enhancer activity

Promoter occurrences

Hypotheses

A1BG has no regulatory elements in either promoter.
A1BG is not transcribed by a regulatory element.
No regulatory element participates in the transcription of A1BG.

Samplings

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

For the Basic programs testing consensus sequence CCCCT (starting with SuccessablesSTRE.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 CCCCT, 1, CCCCT at 2924.
positive strand, negative direction, looking for CCCCT, 2, CCCCT at 3059, CCCCT at 617.
positive strand, positive direction, looking for CCCCT, 11, CCCCT at 4043, CCCCT at 3665, CCCCT at 3656, CCCCT at 3543, CCCCT at 3452, CCCCT at 2657, CCCCT at 2287, CCCCT at 1867, CCCCT at 492, CCCCT at 321, CCCCT at 57.
negative strand, positive direction, looking for CCCCT, 3, CCCCT at 3615, CCCCT at 1073, CCCCT at 86.
complement, negative strand, negative direction, looking for GGGGA, 2, GGGGA at 3059, GGGGA at 617.
complement, positive strand, negative direction, looking for GGGGA, 1, GGGGA at 2924.
complement, positive strand, positive direction, looking for GGGGA, 3, GGGGA at 3615, GGGGA at 1073, GGGGA at86.
complement, negative strand, positive direction, looking for GGGGA, 11, GGGGA at 4043, GGGGA at 3665, GGGGA at 3656, GGGGA at 3543, GGGGA at 3452, GGGGA at 2657, GGGGA at 2287, GGGGA at 492, GGGGA at 321, GGGGA at 57.
inverse complement, negative strand, negative direction, looking for AGGGG, 0.
inverse complement, positive strand, negative direction, looking for AGGGG, 0.
inverse complement, positive strand, positive direction, looking for AGGGG, 6, AGGGG at 3555, AGGGG at 3199, AGGGG at 3078, AGGGG at 1072, AGGGG at 174, AGGGG at 84.
inverse complement, negative strand, positive direction, looking for AGGGG, 11, AGGGG at 4435, AGGGG at 3981, AGGGG at 3664, AGGGG at 3654, AGGGG at 3468, AGGGG at 2656, AGGGG at 2291, AGGGG at 1790, AGGGG at 320, AGGGG at 259, AGGGG at 246.
inverse negative strand, negative direction, looking for TCCCC, 0.
inverse positive strand, negative direction, looking for TCCCC, 0.
inverse positive strand, positive direction, looking for TCCCC, 11, TCCCC at 4435, TCCCC at 3981, TCCCC at 3664, TCCCC at 3654, TCCCC at 3468, TCCCC at 2656, TCCCC at 2291, TCCCC at 1790, TCCCC at 320, TCCCC at 259, TCCCC at 246.
inverse negative strand, positive direction, looking for TCCCC, 6, TCCCC at 3555, TCCCC at 3199, TCCCC at 3078, TCCCC at 1072, TCCCC at 174, TCCCC at 84.

Msn UTR gene transcriptions

Negative strand, negative direction: CCCCT at 2924.

Positive strand, negative direction: CCCCT at 3059.

Msn core promoters

Negative strand, positive direction: AGGGG at 4435.

Msn distal promoters

Positive strand, negative direction: CCCCT at 617.

Negative strand, positive direction: AGGGG at 3981, AGGGG at 3664, AGGGG at 3654, CCCCT at 3615, AGGGG at 3468, AGGGG at 2656, AGGGG at 2291, AGGGG at 1790, CCCCT at 1073, AGGGG at 320, AGGGG at 259, AGGGG at 246, CCCCT at 86.

Positive strand, positive direction: CCCCT at 4043, CCCCT at 3665, CCCCT at 3656, AGGGG at 3555, CCCCT at 3543, CCCCT at 3452, AGGGG at 3199, AGGGG at 3078, CCCCT at 2657, CCCCT at 2287, CCCCT at 1867, AGGGG at 1072, CCCCT at 492, CCCCT at 321, AGGGG at 174, AGGGG at 84, CCCCT at 57.

Acknowledgements

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

References

↑ Sotirios‐Spyridon Vamvakas, John Kapolos, Lambros Farmakis, Gregoria Koskorellou, Fotios Genneos (14 May 2019). "Ser625 of msn2 transcription factor is indispensable for ethanol tolerance and alcoholic fermentation process". Biotechnology Progress. 35 (5): ee2837. doi:10.1002/btpr.2837. Retrieved 6 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

[Vamvakas-1] Sotirios‐Spyridon Vamvakas, John Kapolos, Lambros Farmakis, Gregoria Koskorellou, Fotios Genneos (14 May 2019). "Ser625 of msn2 transcription factor is indispensable for ethanol tolerance and alcoholic fermentation process". Biotechnology Progress. 35 (5): ee2837. doi:10.1002/btpr.2837. Retrieved 6 February 2021.

[Tang-2] 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]

@@ Line 72: / Line 72: @@
 # negative strand, negative direction, looking for CCCCT, 1, CCCCT at 2924.
 # positive strand, negative direction, looking for CCCCT, 2, CCCCT at 3059, CCCCT at 617.
-# positive strand, positive direction, looking for CCCCT, 8, CCCCT at 4043, CCCCT at 3665, CCCCT at 3543, CCCCT at 3452, CCCCT at 2657, CCCCT at 1867, CCCCT at 492, CCCCT at 321.
+# positive strand, positive direction, looking for CCCCT, 11, CCCCT at 4043, CCCCT at 3665, CCCCT at 3656, CCCCT at 3543, CCCCT at 3452, CCCCT at 2657, CCCCT at 2287, CCCCT at 1867, CCCCT at 492, CCCCT at 321, CCCCT at 57.
-# negative strand, positive direction, looking for CCCCT, 2, CCCCT at 3615, CCCCT at 1073.
+# negative strand, positive direction, looking for CCCCT, 3, CCCCT at 3615, CCCCT at 1073, CCCCT at 86.
 # complement, negative strand, negative direction, looking for GGGGA, 2, GGGGA at 3059, GGGGA at 617.
 # complement, positive strand, negative direction, looking for GGGGA, 1, GGGGA at 2924.
-# complement, positive strand, positive direction, looking for GGGGA, 2, GGGGA at 3615, GGGGA at 1073.
+# complement, positive strand, positive direction, looking for GGGGA, 3, GGGGA at 3615, GGGGA at 1073, GGGGA at86.
-# complement, negative strand, positive direction, looking for GGGGA, 8, GGGGA at 4043, GGGGA at 3665, GGGGA at 3543, CCCCT at GGGGA, GGGGA at GGGGA, GGGGA at GGGGA, GGGGA at 492, GGGGA at 321.
+# complement, negative strand, positive direction, looking for GGGGA, 11, GGGGA at 4043, GGGGA at 3665, GGGGA at 3656, GGGGA at 3543, GGGGA at 3452, GGGGA at 2657, GGGGA at 2287, GGGGA at 492, GGGGA at 321, GGGGA at 57.
 # inverse complement, negative strand, negative direction, looking for AGGGG, 0.
 # inverse complement, positive strand, negative direction, looking for AGGGG, 0.
@@ Line 101: / Line 101: @@
 Positive strand, negative direction: CCCCT at 617.
-Negative strand, positive direction: AGGGG at 3981, AGGGG at 3664, AGGGG at 3654, CCCCT at 3615, AGGGG at 3468, AGGGG at 2656, AGGGG at 2291, AGGGG at 1790, CCCCT at 1073, AGGGG at 320, AGGGG at 259, AGGGG at 246.
+Negative strand, positive direction: AGGGG at 3981, AGGGG at 3664, AGGGG at 3654, CCCCT at 3615, AGGGG at 3468, AGGGG at 2656, AGGGG at 2291, AGGGG at 1790, CCCCT at 1073, AGGGG at 320, AGGGG at 259, AGGGG at 246, CCCCT at 86.
-Positive strand, positive direction: CCCCT at 4043, CCCCT at 3665, AGGGG at 3555, CCCCT at 3543, CCCCT at 3452, AGGGG at 3199, AGGGG at 3078, CCCCT at 2657, CCCCT at 1867, AGGGG at 1072, CCCCT at 492, CCCCT at 321, AGGGG at 174, AGGGG at 84.
+Positive strand, positive direction: CCCCT at 4043, CCCCT at 3665, CCCCT at 3656, AGGGG at 3555, CCCCT at 3543, CCCCT at 3452, AGGGG at 3199, AGGGG at 3078, CCCCT at 2657, CCCCT at 2287, CCCCT at 1867, AGGGG at 1072, CCCCT at 492, CCCCT at 321, AGGGG at 174, AGGGG at 84, CCCCT at 57.
 ==Acknowledgements==

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Transcription resources	A1BG gene transcription core promoters A1BG gene transcriptions A1BG regulatory elements and regions A1BG response element gene transcriptions A1BG response element negative results A1BG response element positive results ABA-response element gene transcriptions Abf1 regulatory factor gene transcriptions A box gene transcriptions ACGT-containing element gene transcriptions Activating protein gene transcriptions Activating transcription factor gene transcriptions Adenylate–uridylate rich element gene transcriptions Adr1p gene transcriptions Aft1p gene transcriptions AGC box gene transcriptions AGCE gene transcriptions Alpha-amylase conserved element gene transcriptions Amino acid response element gene transcriptions AARE-like Androgen response element gene transcriptions Angiotensinogen core promoter element gene transcriptions Antioxidant-electrophile responsive element gene transcriptions ATA box gene transcriptions Auxin response factor gene transcriptions B 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gene transcriptions Complement-inverse copy gene transcriptions Consensus sequence gene transcriptions Copper response element gene transcriptions Core promoter gene transcriptions Coupling element gene transcriptions CRE box gene transcriptions Cytokinin response regulator gene transcriptions Cytoplasmic polyadenylation element gene transcriptions DAF-16-associated element gene transcriptions DAF-16 binding element gene transcriptions D box gene transcriptions Defense and stress-responsive element gene transcriptions Degenerate nucleotide gene transcriptions Dispersed promoter gene transcriptions Distal promoter gene transcriptions DNA melting gene transcriptions DNA damage response element gene transcriptions DNA replication-related element gene transcriptions Downstream core element gene transcriptions Downstream promoter element gene transcriptions Downstream TFIIB recognition element gene transcriptions DREB box gene transcriptions E2 box gene transcriptions EIF4E basal element gene transcriptions EIN3 binding site gene transcriptions Enhancer activity copy gene transcriptions E box gene transcriptions Element gene transcriptions Endoplasmic reticulum stress response element gene transcriptions Endosperm expression gene transcriptions Enhancer box gene transcriptions Estrogen response element gene transcriptions Ethylene responsive element gene transcriptions Factor II B recognition element gene transcriptions F box gene transcriptions Focused promoter gene transcriptions Forkhead box gene transcriptions Fur box gene transcriptions GAAC element gene transcriptions Gal4p gene transcriptions Γ-interferon activated sequence gene transcriptions GARE gene transcriptions GA responsive complex gene transcriptions GATA gene transcriptions G box gene transcriptions GC box gene transcriptions GCC box gene transcriptions Gcn4p gene transcriptions Gcr1p gene transcriptions Gene expressions General factor II D gene transcriptions General regulatory factors General transcription factor II A gene transcriptions General transcription factor II B gene transcriptions General transcription factor II D gene transcriptions General transcription factor II F gene transcriptions General transcription factor II H gene transcriptions General transcription factor gene transcriptions Gene transcriptions GGC triplet gene transcriptions Gibberellin responsive element gene transcriptions GLM box gene transcriptions Glucocorticoid response element gene transcriptions Grainy head gene transcriptions Grainy head transcription factor gene transcriptions Growth hormone response element gene transcriptions GT boxes Hac1p gene transcriptions Hair color gene expressions H and ACA box gene transcriptions H box gene transcriptions Heat-responsive element gene transcriptions Hex sequence gene transcriptions HMG box gene transcriptions HNF gene transcriptions Homeobox gene transcriptions Hsf1p gene transcriptions HY box gene transcriptions Hybrid C, A boxes Hybrid C, G boxes Hybrid C, T boxes Hypoxia-inducible factor gene transcriptions Hypoxia response elements I box gene transcriptions Initiator element gene transcriptions Initiator-like element gene transcriptions Inositol/choline-responsive elements Interaction gene transcriptions Interferon regulatory factors Inverse copy gene transcriptions Jasmonic acid-responsive element gene transcriptions K-boxes Kozak sequence gene transcriptions Kruppel-associated box gene transcriptions Krüppel-like factor gene transcriptions L box gene transcriptions Leu3 gene transcriptions M35 box gene transcriptions MADS box gene transcriptions Maf recognition element gene transcriptions M box gene transcriptions Mcm1 regulatory factor gene transcriptions Met31p box gene transcriptions Metal responsive element gene transcriptions Middle sporulation element gene transcriptions Mig1p gene transcriptions Model samplings Motif ten element gene transcriptions Msn2,4p gene transcriptions Musashi binding element gene transcriptions MYB recognition element gene transcriptions Myelocytomatosis transcription factor gene transcriptions Myocyte enhancer factor gene transcriptions N-boxes Ndt80p gene transcriptions Nuclear factor 1 Nuclear factor 𝜿B Nuclear factor gene transcriptions Nuclear factor of activated T cell gene transcriptions (NFAT) Nuclear factor Y gene transcriptions Nutrient-sensing response element gene transcriptions Oaf1p gene transcriptions ORE1 binding site gene transcriptions p53 response element gene transcriptions P63 DNA-binding site gene transcriptions P box gene transcriptions Pdr1,3p gene transcriptions Peroxisome proliferator hormone response element gene transcriptions Phosphate starvation-response transcription factor gene transcriptions Pollen1 element gene transcriptions Polycomb response element gene transcriptions Preinitiation complex Preinitiation complex gene transcriptions Pribnow box gene transcriptions Prolamin box gene transcriptions Promoter gene transcriptions Proximal promoter gene transcriptions Promoter occurrence gene transcriptions Pyrimidine box gene transcriptions Q element gene transcriptions Rap1 regulatory factor gene transcriptions Reb1 general regulatory factor gene transcriptions Retinoblastoma control element gene transcriptions Retinoic acid response element gene transcriptions Rgt1p gene transcriptions Rlm1p gene transcriptions RNA polymerase II gene transcriptions RNA polymerase II holoenzyme complex Root specific element gene transcriptions ROR-response element gene transcriptions Rox1p gene transcriptions Rpn4p gene transcriptions R response element gene transcriptions SARE gene transcriptions Seed-specific element gene transcriptions Serum response element gene transcriptions Servenius sequence gene 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 gene transcriptions TAT box gene transcriptions TATC box gene transcriptions Tbf1 regulatory factor gene transcriptions T box gene transcriptions TCCACCATA element gene transcriptions TC element gene transcriptions TCT gene transcriptions TEA consensus sequence gene transcriptions Tec1p gene transcriptions Telomeric repeat DNA-binding factor gene transcriptions Tetradecanoylphorbol-13-acetate response element gene transcriptions TGF-β control elements (TCEs) TGF-β inhibitory elements (TIEs) Thyroid hormone response element gene transcriptions Transcriptional regulation Transcription bubble gene transcriptions Transcription factor gene transcriptions Transcription factor 3 gene transcriptions Transcription factory gene transcriptions Transcription start site gene transcriptions Translational control sequence gene transcriptions U box gene transcriptions Unfolded protein response element gene transcriptions Upstream response element gene transcriptions Upstream stimulatory factor gene transcriptions UTR promoter gene transcriptions V and P box gene transcriptions V box gene transcriptions Vhr1p gene transcriptions Vitamin D response element gene transcriptions W box gene transcriptions X box gene transcriptions Xbp1p gene transcriptions X core promoter element gene transcriptions Xenobiotic response element gene transcriptions Xenobiotic responsive element gene transcriptions Yap1p,2p gene transcriptions Y box gene transcriptions YY1 gene transcriptions Zap1p gene transcriptions Z box gene transcriptions Zinc responsive element gene transcriptions