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Table 3 CRE and TATA elements in selected clock genes

From: Identification of novel light-induced genes in the suprachiasmatic nucleus

Ensembl gene ID Gene name Number of conserved CRE elements within the promoter sequence * Genomic positions of upstream CRE elements in mouse promoter relative to start codon (ATG starts at position +1) Genomic positions of TATA boxes if any
ENSMUSG00000020038 Cry1 1 -600 to -580 No TATA
ENSMUSG00000068742 Cry2 1 -262 to -242 No TATA
ENSMUSG00000029238 Clock No CRE *** N/A -472 to -469 ****
ENSMUSG00000055116 Bmal1 No CRE N/A No TATA
ENSMUSG00000020889 Rev-erb-alpha (Nr1d1) No CRE N/A No TATA
ENSMUSG00000032238 Ror-alpha (Rora) No CRE N/A No TATA
ENSMUSG00000022433 Casein kinase 1 epsilon (Csnk1e) No CRE N/A No TATA
ENSMUSG00000025162 Casein kinase 1 delta (Csnk1d) 1 -330 to -310 (4)
-570 to -567
  1. * We defined CRE element as being evolutionary conserved if it was present in at least 3 out of 5 mammalian genomes (Mouse, Rat, Human, Cow and Dog). ** Number in parenthesis indicates how many overlapping CRE elements were identified in the promoter sequence, however, coordinates of only the first of the overlapping elements are given here. *** Only mouse and human promoters had predicted CREs; however, these CREs were located in different positions and therefore we did not consider them as being evolutionary conserved. **** Multiple TATA boxes were identified in each species; however, not all of them were evolutionary conserved in all sequences. TATA box shown was shared between four out of five species because dog genomic sequence was not available in that region.