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. 2014 Sep 11;9(9):e107133. doi: 10.1371/journal.pone.0107133

Table 3. TESS/TFSEARCH predicted binding motifs across the β-globin locus.

Profile GENE Microarray Data1 Binding Motif2 Log-likelihood scores3 LCR4 γ-globin4 β-globin4
D-21 D-42 D-49 D-56
1 SP1 1.00 0.95 0.48 0.62 TGCAC 12 8 12 9
1 KLF4 1 0.97 1.01 0.78 CCYYTYYYTYNTTY 14 1 1 1
1 GATA2 1 0.95 0.57 0.32 AGATAA 12 2 2 2
1 CUX1 1 0.73 0.59 0.61 ATTGG 10 2 2 2
1 KLF11 1 0.95 0.57 0.32 TGGAATAT 12 1 1 -
1 HES5 1 0.95 0.57 0.32 CACGTG 12 1 1 -
1 FAF1 1 0.61 0.53 0.54 GGYMATTAA 16 - 1 -
1 TCF7L2 1 0.45 0.86 0.8 CTTTGAT 14 - 1 -
1 FHL2 1 0.84 0.72 0.45 AATGGGGA 12 - 1 -
1 MXD3 1 0.82 0.83 0.39 CATCTTGC 12 - 1 -
1 RBL1 1 0.4 0.46 0.37 GCGA 8 - 1 -
2 GATA1 1 0.81 1.32 1.4 RGAGATAA 16 15 21 10
2 ATF3 1 1.69 1.85 1.43 TGACGT 12 1 2 2
2 NFKB2 1 1.54 3.31 1.65 GGTAGTTCCC 20 1 - 1
2 BATF 1 1.44 1.65 1.53 CTCTGTGATGTCATGGTTT 17 - - 1
2 KLF1 1 1.11 1.7 1.9 CCACACCCT 12 - - 1
2 OLIG1 1 2.95 3.47 3.22 TCATATGG 12 - - 1
2 MAFB 1 3.18 3.34 9.1 GCGGAAGT 10 - - 1
2 OLIG2 1 20.81 22.44 24.91 TGTCCT 10 - - 1
2 MXI1 1 3.91 5.65 4.99 CACGTG 12 - - 9
2 CREB1 1 1.17 0.88 2.18 TGACG 10 5 2 6
2 NF-E2 1 1.26 1.68 1.36 TATA/GGGCAG 8 1 1 1
2 CREBBP 1 1.32 1.50 1.24 TTACGTAA 15 1 1 1
2 P300 1 1.58 2.37 1.55 GGGAGTG 14 2 1 1
2 Jun 1 2.72 1.85 2.52 TGACCCA 14 2 2 2
2 HSF1 1 1.35 9.20 2.07 AGAAC 7.8 2 2 2
1

Microarray data shown as fold change in expression from day 21 to day 56;

2

Nucleotide abbreviations: N = G, A or T; K = G or T, Y = T or C, M = A or C, R = A or G;

3

The Log-likelihood scores is a statistical measure representing the probability that a TF binding site exists in the region analyzed; we used a cutoff ≥7.0. The higher the score the more likely the predicted sequence binds the target TF indicated.

4

Number of binding sites identified in the different regions in the β-locus. For example there are 15, 21 and 10 predicted GATA1 binding sites in the LCR, γ-globin and β-globin regions respectively.