Antioxidant-electrophile responsive element gene transcriptions

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

The "perfect ARE sequence [GCTGAGTCA] is strongly conserved across mammals [...]."^[1]

Consensus sequences

5'-GTGAGGTCGC-3'^[2]

5'-GCTGAGT-3', 5'-GCAGGCT-3' of 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3'^[1], an antioxidant response element (ARE).

Hypotheses

A1BG has no Antioxidant-electrophile responsive element in either promoter.
A1BG is not transcribed by an Antioxidant-electrophile responsive element.
Antioxidant-electrophile responsive element does not participate in the transcription of A1BG.

AERE (Otsuki) samplings

Copying an antioxidant-electrophile responsive elements consensus sequence 5'-GTGAGGTCGC-3' and putting the sequence in "⌘F" finds no location between ZNF497 and A1BG or none locations between ZSCAN22 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence 5'-GTGAGGTCGC-3' (starting with SuccessablesAERE.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'-GTGAGGTCGC-3', 0.
negative strand, positive direction, looking for 5'-GTGAGGTCGC-3', 0.
positive strand, negative direction, looking for 5'-GTGAGGTCGC-3', 0.
positive strand, positive direction, looking for 5'-GTGAGGTCGC-3', 0.
complement, negative strand, negative direction, looking for 5'-CACTCCAGCG-3', 0.
complement, negative strand, positive direction, looking for 5'-CACTCCAGCG-3', 0.
complement, positive strand, negative direction, looking for 5'-CACTCCAGCG-3', 0.
complement, positive strand, positive direction, looking for 5'-CACTCCAGCG-3', 0.
inverse complement, negative strand, negative direction, looking for 5'-GCGACCTCAC-3', 0.
inverse complement, negative strand, positive direction, looking for 5'-GCGACCTCAC-3', 0.
inverse complement, positive strand, negative direction, looking for 5'-GCGACCTCAC-3', 0.
inverse complement, positive strand, positive direction, looking for 5'-GCGACCTCAC-3', 0.
inverse negative strand, negative direction, looking for 5'-CGCTGGAGTG-3', 0.
inverse negative strand, positive direction, looking for 5'-CGCTGGAGTG-3', 0.
inverse positive strand, negative direction, looking for 5'-CGCTGGAGTG-3', 0.
inverse positive strand, positive direction, looking for 5'-CGCTGGAGTG-3', 0.

AERE (Lacher) samplings

Copying 5'-GCTGAGT-3', 5'-GCAGGCT-3' of 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3' and putting the sequence in "⌘F" finds no location between ZNF497 and A1BG or none locations between ZSCAN22 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3' (starting with SuccessablesAERE.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'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3', 0.
negative strand, positive direction, looking for 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3', 0.
positive strand, negative direction, looking for 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3', 2, 5'-GCAGTGTAA-3' at 2087, 5'-GCATTTTAA-3' at 192.
positive strand, positive direction, looking for 5'-GC(A/C/T)(A/G/T)(A/G/T)(C/G/T)T(A/C)A-3', 0.
complement, negative strand, negative direction, looking for 5'-CG(A/G/T)(A/C/T)(A/C/T)(A/C/G)A(G/T)T-3', 2, 5'-CGTCACATT-3' at 2087, 5'-CGTAAAATT-3' at 192.
complement, negative strand, positive direction, looking for 5'-CG(A/G/T)(A/C/T)(A/C/T)(A/C/G)A(G/T)T-3', 0.
complement, positive strand, negative direction, looking for 5'-CG(A/G/T)(A/C/T)(A/C/T)(A/C/G)A(G/T)T-3', 0.
complement, positive strand, positive direction, looking for 5'-CG(A/G/T)(A/C/T)(A/C/T)(A/C/G)A(G/T)T-3', 0.
inverse complement, negative strand, negative direction, looking for 5'-T(G/T)A(A/C/G)(A/C/T)(A/C/T)(A/G/T)GC-3', 2, 5'-TGACTATGC-3' at 3546, 5'-TTAATCGGC-3' at 1237.
inverse complement, negative strand, positive direction, looking for 5'-T(G/T)A(A/C/G)(A/C/T)(A/C/T)(A/G/T)GC-3', 1, 5'-TGACCAGGC-3' at 2877.
inverse complement, positive strand, negative direction, looking for 5'-T(G/T)A(A/C/G)(A/C/T)(A/C/T)(A/G/T)GC-3', 3, 5'-TGAGTTGGC-3' at 4098, 5'-TTAAAAGGC-3' at 3442, 5'-TTAGCCAGC-3' at 504.
inverse complement, positive strand, positive direction, looking for 5'-T(G/T)A(A/C/G)(A/C/T)(A/C/T)(A/G/T)GC-3', 1, 5'-TGAAAAAGC-3' at 1750.
inverse negative strand, negative direction, looking for 5'-A(A/C)T(C/G/T)(A/G/T)(A/G/T)(A/C/T)CG-3', 3, 5'-ACTCAACCG-3' at 4098, 5'-AATTTTCCG-3' at 3442, 5'-AATCGGTCG-3' at 504.
inverse negative strand, positive direction, looking for 5'-A(A/C)T(C/G/T)(A/G/T)(A/G/T)(A/C/T)CG-3', 1, 5'-ACTTTTTCG-3' at 1750.
inverse positive strand, negative direction, looking for 5'-A(A/C)T(C/G/T)(A/G/T)(A/G/T)(A/C/T)CG-3', 2, 5'-ACTGATACG-3' at 3546, 5'-AATTAGCCG-3' at 1237, and complements.
inverse positive strand, positive direction, looking for 5'-A(A/C)T(C/G/T)(A/G/T)(A/G/T)(A/C/T)CG-3', 1, 5'-ACTGGTCCG-3' at 2877.

AERE (Lacher) distal promoters

Negative strand, negative direction: 5'-TGACTATGC-3' at 3546, 5'-TTAATCGGC-3' at 1237, and complements.

Positive strand, negative direction: 5'-TGAGTTGGC-3' at 4098, 5'-TTAAAAGGC-3' at 3442, 5'-GCAGTGTAA-3' at 2087, 5'-TTAGCCAGC-3' at 504, 5'-GCATTTTAA-3' at 192 and complements.

Negative strand, positive direction: 5'-TGACCAGGC-3' at 2877 and complement.

Positive strand, positive direction: 5'-TGAAAAAGC-3' at 1750 and complement.

References

↑ ^1.0 ^1.1 Sarah E. Lacher, Daniel C. Levings, Samuel Freeman, Matthew Slattery (October 2018). "Identification of a functional antioxidant response element at the HIF1A locus". Redox Biology. 19: 401–411. doi:10.1016/j.redox.2018.08.014. Retrieved 6 October 2020.
↑ Akihito Otsuki, Mikiko Suzuki, Fumiki Katsuoka, Kouhei Tsuchida, Hiromi Suda, Masanobu Morita, Ritsuko Shimizu, Masayuki Yamamoto (February 2016). "Unique cistrome defined as CsMBE is strictly required for Nrf2-sMaf heterodimer function in cytoprotection". Free Radical Biology and Medicine. 91: 45–57. doi:10.1016/j.freeradbiomed.2015.12.005. PMID 26677805. Retrieved 21 August 2020.

Acknowledgements

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

External links

[Lacher-1] 1.0 ^1.1 Sarah E. Lacher, Daniel C. Levings, Samuel Freeman, Matthew Slattery (October 2018). "Identification of a functional antioxidant response element at the HIF1A locus". Redox Biology. 19: 401–411. doi:10.1016/j.redox.2018.08.014. Retrieved 6 October 2020.

[Otsuki-2] Akihito Otsuki, Mikiko Suzuki, Fumiki Katsuoka, Kouhei Tsuchida, Hiromi Suda, Masanobu Morita, Ritsuko Shimizu, Masayuki Yamamoto (February 2016). "Unique cistrome defined as CsMBE is strictly required for Nrf2-sMaf heterodimer function in cytoprotection". Free Radical Biology and Medicine. 91: 45–57. doi:10.1016/j.freeradbiomed.2015.12.005. PMID 26677805. Retrieved 21 August 2020.

[1]

[2]

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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 Heat shock elements 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 Immunoglobulin like domain containing family 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 M-CAT boxes Mcm1 regulatory factor gene transcriptions Met3 gene transcriptions 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transcriptions Serum response element gene transcriptions Servenius sequence gene transcriptions Shoot specific element gene transcriptions Shue boxes Sip4p gene transcriptions Smp1p gene transcriptions Sp1 (Berberich) elements 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 family TATA box serine protease family TATA box serpin superfamily TATA box transforming growth factor superfamily TATA box trefoil family TATA box tumor necrosis factor superfamily TATA box zinc metalloenzyme family 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 Tryptophan residue U box gene transcriptions Unfolded protein response element gene transcriptions Upstream repressor site 1 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

Antioxidant-electrophile responsive element gene transcriptions

Contents

Consensus sequences

Hypotheses

AERE (Otsuki) samplings

AERE (Lacher) samplings

AERE (Lacher) distal promoters

See also

References

Acknowledgements

External links

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Antioxidant-electrophile responsive element gene transcriptions

Consensus sequences

Hypotheses

AERE (Otsuki) samplings

AERE (Lacher) samplings

AERE (Lacher) distal promoters

See also

References

Acknowledgements

External links

Navigation menu

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