Table 5.
MADS-box family-binding site partners
| Forward strand: AAAAAT |
Reverse strand: ATTTTT |
||||||
|---|---|---|---|---|---|---|---|
| Consensus | TF | RC | Consensus | TF | RC | ||
| MADS-box motif partners | |||||||
| 1 | AGACC | 1 | GAACTCCT | NR1I2 | |||
| 2 | CAGCTAC | TOPORS | 2 | AGCCT | Rl | ||
| 3 | AGGCTG | rl | 3 | AGTGC | HMX3 | R8 | |
| 4 | CAGCC | 4 | ATCCG | ||||
| 5 | CCTGTA | AR | 5 | ATGTT | |||
| 6 | CGCCA | E2F1 | 6 | CACCA | NFY (*) | R7 | |
| 7 | CTACTC | 7 | CCACG | ATF6 (*) | |||
| 8 | GCTGAG | NFE2 | r2 | 8 | CCCAA | IKZF1 | |
| 9 | GAACC | 9 | CCTCC | MAZ | R3 | ||
| 10 | GGCAGG | TCF3 (*) | 10 | CCTGA | |||
| 11 | GGAGG | MAZ | r3 | 11 | TCGAAC | XBP1 | |
| 12 | GGTTG | r4 | 12 | GCTGGGACA | PITX2 | ||
| 13 | TGTAATCCCA | CEBP (*) | r5 | 13 | GATCC | ||
| 14 | GTGGC | r6 | 14 | GGATTACA | CEBP (*) | R5 | |
| 15 | TGGTG | NFY (*) | r7 | 15 | GCCAC | R6 | |
| 16 | GCACT | HMX3 | r8 | I6 | GGGTTT | TERF2IP | |
| 17 | TCAAG | NKX2 | |||||
| 18 | TGACC | ESR1 | |||||
| 19 | TGATC | ||||||
| 20 | AGCCA | PCBP2 | |||||
| 21 | CAACC | R4 | |||||
| 22 | CTCGG | ZNF569 | |||||
| 23 | TCAGC | NFE2 | R2 | ||||
| 24 | TGCCT | ||||||
TFs binding to the known cis-regulatory elements in TRANSFAC (39) are shown in the third columns. Binding factors with known direct interactions to SRF, a MADS-box family member, are labeled with asterisks. Reverse complements across opposing strands of the MADS-box fixed motif, as determined by STAMP (E-value threshold: 1e–5), are labeled r1–r8 and R1–R8 (e.g. r1 is the reverse complement of R1, etc.).