Table 3 |
||||||
|
Selected transcription factor binding motifs in the ANK1 promoter predicted by TESS, TRANSFAC and MatInspector prediction tools |
||||||
|
*SNPs |
Putative Transcription Factors |
Prediction tool |
Created with |
Recognition Sequence |
Start |
End |
|
|
||||||
|
rSNP1 (-24), C/T |
GAL4 |
TESS |
C |
CCCC |
-27 |
-24 |
|
|
||||||
|
E-box binding factors |
MatInspector |
C |
AGACCCCGTGTCC |
-36 |
-27 |
|
|
|
||||||
|
USF |
TRANSFAC MatInspector |
C |
CCCCGTGTCC |
-27 |
-18 |
|
|
|
||||||
|
GR |
MatInspector TRANSFAC TESS |
T |
CAGGGACACAGGGTCTAGG* ACCCTGTGTCC TGTGTC |
-15 -28 -24 |
-33 -18 -19 |
|
|
|
||||||
|
pSNP2 (-307), C/T |
T-Ag |
TESS |
C |
GCCGC |
-309 |
-305 |
|
|
||||||
|
Sp1 |
TRANSFAC |
T |
AAGCTGCTCC |
-311 |
-302 |
|
|
|
||||||
|
rSNP3 (-672), A/G |
Sp1 |
TRANSFAC TESS |
A |
GCCAGGCCCCTCAGC AGGCCCC |
-675 -672 |
-661 -666 |
|
|
||||||
|
NF-1 |
TESS |
A |
TGGA |
-675 |
-672 |
|
|
|
||||||
|
NF-Kappa-B |
TRANSFAC |
G |
GGGGGTTTCC |
-674 |
-665 |
|
|
|
||||||
|
GAL4 |
TESS |
G |
GGGG |
-674 |
-671 |
|
|
|
||||||
|
MIG1 |
TESS |
G |
CTGGGG |
-676 |
-671 |
|
|
|
||||||
|
rSNP4 (-687), C/G |
Sp1 |
TRANSFAC TESS |
C |
ATGGCCCGGCCCCT GCCCGGCCCC |
-666 |
-669 |
|
|
||||||
|
-690 |
-681 |
|||||
|
|
||||||
|
Oct-01 |
TRANSFAC |
C |
GCCCGGCCCC |
-690 |
-681 |
|
|
|
||||||
|
NF-1 |
TRANSFAC |
C |
TGGCCGGGCC |
-691 |
-682 |
|
|
|
||||||
|
Sp1 |
TRANSFAC |
G |
GGCCGGGCCCCTCA |
-691 |
-678 |
|
|
|
||||||
|
YY1 |
TRANSFAC TESS |
G |
GATGGCCGG |
-694 |
-686 |
|
|
|
||||||
|
GCF |
TESS |
G |
SCGSSSC |
-689 |
-683 |
|
|
|
||||||
|
Krueppel like |
MatInspector |
G |
CTGAGGGGCCGGGCCAT* |
-677 |
-693 |
|
|
|
||||||
|
Nuclear factor Kappa B/C-Rel |
MatInspector |
G |
TGGGGATGGCCCG |
-698 |
-686 |
|
|
|
||||||
|
GC-box factors SP1/GC |
MatInspector |
G |
GAGGGGCCGGGCCAT* |
-679 |
-693 |
|
|
|
||||||
|
pSNP5 (-733), C/T |
Oct-01 |
TRANSFAC |
C |
TGCTTTGCCC |
-737 |
-728 |
|
|
||||||
|
Lvc |
TESS |
C |
CCTGC |
-737 |
-733 |
|
|
|
||||||
|
GCF |
TESS |
C |
GSSSCGS |
-737 |
-731 |
|
|
|
||||||
|
Sn |
TESS |
T |
ACCTGTT |
-738 |
-732 |
|
|
|
||||||
|
Grainyhead-like factors |
MatInspector |
T |
GGAACCTGTTTTG |
-741 |
-729 |
|
|
|
||||||
|
pSNP6 (944), C/T |
Oct-01 |
TRANSFAC |
C |
CTGCTTTGCC |
-947 |
-938 |
|
|
||||||
|
Glucocorticoid receptor |
TESS |
T |
TGTTGT TGTCCC |
-947 -944 |
-942 -939 |
|
|
|
||||||
|
Krueppel like factors |
MatInspector |
T |
CAACAAAGGATGAGATG* |
-943 |
-959 |
|
|
|
||||||
|
rSNP7 (961), A/C |
CAC-binding |
TESS MatInspector |
C |
CCACC TCCACCCATCTCATC |
-964 -965 |
-960 -651 |
|
|
||||||
|
*Only the SNPs that create putative transcription factor binding sites were listed. *Minus strand. SNP positions in the recognition sequence are underlined. |
||||||
|
Aslan et al. BMC Genetics 2010 11:111 doi:10.1186/1471-2156-11-111 |
||||||
