ROR-response element gene transcriptions: Difference between revisions

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

RAR-related orphan receptor "ROR-γ binds DNA with specific sequence motifs AA/TNTAGGTCA (the classic RORE motif) or CT/AG/AGGNCA (the variant RORE motif)^{13, 31}."^[1]

Human genes

Consensus sequences

The consensus sequences for the ROR-response elements are 5'-A(A/T)NTAGGTCA-3' (classic RORE motif) and 5'-C(T/A)(G/A)GGNCA-3' (variant RORE).^[1]

RORE samplings

Copying the apparent consensus sequence for the RORE (ATATAGGTCA) and putting it in "⌘F" finds one located between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.

Copying the apparent consensus sequence for the variant RORE (CTGGGACA) and putting it in "⌘F" finds two located 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 A(A/T)NTAGGTCA (starting with SuccessablesRORE.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 A(A/T)NTAGGTCA, 1, ATATAGGTCA at 1532.
positive strand, negative direction, looking for A(A/T)NTAGGTCA, 0.
positive strand, positive direction, looking for A(A/T)NTAGGTCA, 0.
negative strand, positive direction, looking for A(A/T)NTAGGTCA, 0.
complement, negative strand, negative direction, looking for T(A/T)NATCCAGT, 0.
complement, positive strand, negative direction, looking for T(A/T)NATCCAGT, 1, ATATAGGTCA at 1532.
complement, positive strand, positive direction, looking for T(A/T)NATCCAGT, 0.
complement, negative strand, positive direction, looking for T(A/T)NATCCAGT, 0.
inverse complement, negative strand, negative direction, looking for TGACCTAN(A/T)T, 0.
inverse complement, positive strand, negative direction, looking for TGACCTAN(A/T)T, 0.
inverse complement, positive strand, positive direction, looking for TGACCTAN(A/T)T, 0.
inverse complement, negative strand, positive direction, looking for TGACCTAN(A/T)T, 0.
inverse negative strand, negative direction, looking for ACTGGATN(A/T)A, 0.
inverse positive strand, negative direction, looking for ACTGGATN(A/T)A, 0.
inverse positive strand, positive direction, looking for ACTGGATN(A/T)A, 0.
inverse negative strand, positive direction, looking for ACTGGATN(A/T)A, 0.

RORE distal promoters

Negative strand: ATATAGGTCA at 1532.

Acknowledgements

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

References

↑ ^1.0 ^1.1 Junjian Wang, June X. Zou, Xiaoqian Xue, Demin Cai, Yan Zhang, Zhijian Duan, Qiuping Xiang, Joy C. Yang, Maggie C. Louie, Alexander D. Borowsky, Allen C. Gao, Christopher P. Evans, Kit S. Lam, Jianzhen Xu, Hsing-Jien Kung, Ronald M. Evans, Yong Xu, and Hong-Wu Chen (May 2016). "ROR-γ drives androgen receptor expression and represents a therapeutic target in castration-resistant prostate cancer". Nature Medicine. 22 (5): 488–496. doi:10.1038/nm.4070. PMID 27019329. Retrieved 6 September 2020.

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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 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 Nanos/Pumilio response element 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 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@@ Line 28: / Line 28: @@
 Copying the apparent consensus sequence for the variant RORE (CTGGGACA) and putting it in "⌘F" finds two located 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 AAAAAAAA (starting with SuccessablesAAA.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:
+For the Basic programs testing consensus sequence A(A/T)NTAGGTCA (starting with SuccessablesRORE.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 AAAAAAAA, 0.
+# negative strand, negative direction, looking for A(A/T)NTAGGTCA, 1, ATATAGGTCA at 1532.
-# positive strand, negative direction, looking for AAAAAAAA, 0.
+# positive strand, negative direction, looking for A(A/T)NTAGGTCA, 0.
-# positive strand, positive direction, looking for AAAAAAAA, 0.
+# positive strand, positive direction, looking for A(A/T)NTAGGTCA, 0.
-# negative strand, positive direction, looking for AAAAAAAA, 0.
+# negative strand, positive direction, looking for A(A/T)NTAGGTCA, 0.
-# complement, negative strand, negative direction, looking for TTTTTTTT, 0.
+# complement, negative strand, negative direction, looking for T(A/T)NATCCAGT, 0.
-# complement, positive strand, negative direction, looking for TTTTTTTT, 0.
+# complement, positive strand, negative direction, looking for T(A/T)NATCCAGT, 1, ATATAGGTCA at 1532.
-# complement, positive strand, positive direction, looking for TTTTTTTT, 0.
+# complement, positive strand, positive direction, looking for T(A/T)NATCCAGT, 0.
-# complement, negative strand, positive direction, looking for TTTTTTTT, 0.
+# complement, negative strand, positive direction, looking for T(A/T)NATCCAGT, 0.
-# inverse complement, negative strand, negative direction, looking for TTTTTTTT, 0.
+# inverse complement, negative strand, negative direction, looking for TGACCTAN(A/T)T, 0.
-# inverse complement, positive strand, negative direction, looking for TTTTTTTT, 0.
+# inverse complement, positive strand, negative direction, looking for TGACCTAN(A/T)T, 0.
-# inverse complement, positive strand, positive direction, looking for TTTTTTTT, 0.
+# inverse complement, positive strand, positive direction, looking for TGACCTAN(A/T)T, 0.
-# inverse complement, negative strand, positive direction, looking for TTTTTTTT, 0.
+# inverse complement, negative strand, positive direction, looking for TGACCTAN(A/T)T, 0.
-# inverse negative strand, negative direction, looking for AAAAAAAA, 0.
+# inverse negative strand, negative direction, looking for ACTGGATN(A/T)A, 0.
-# inverse positive strand, negative direction, looking for AAAAAAAA, 0.
+# inverse positive strand, negative direction, looking for ACTGGATN(A/T)A, 0.
-# inverse positive strand, positive direction, looking for AAAAAAAA, 0.
+# inverse positive strand, positive direction, looking for ACTGGATN(A/T)A, 0.
-# inverse negative strand, positive direction, looking for AAAAAAAA, 0.
+# inverse negative strand, positive direction, looking for ACTGGATN(A/T)A, 0.
-===AAA UTRs===
+===RORE distal promoters===
-{{main|UTR promoter gene transcriptions}}
-===AAA core promoters===
-{{main|Core promoter gene transcriptions}}
-===AAA proximal promoters===
-{{main|Proximal promoter gene transcriptions}}
-===AAA distal promoters===
 {{main|Distal promoter gene transcriptions}}
+Negative strand: ATATAGGTCA at 1532.
 ==Acknowledgements==

ROR-response element gene transcriptions: Difference between revisions

Revision as of 01:50, 22 February 2021

Contents

Human genes

Consensus sequences

RORE samplings

RORE distal promoters

Acknowledgements

See also

References

External links

Navigation menu

ROR-response element gene transcriptions: Difference between revisions

Revision as of 01:50, 22 February 2021

Human genes

Consensus sequences

RORE samplings

RORE distal promoters

Acknowledgements

See also

References

External links

Navigation menu

Search