TFBS = ADD

CisView: Mouse (mm6, March2005)

Transcription factor binding site ADD_GCNF

Source: Gu P, LeMenuet D, Chung AC, Mancini M, Wheeler DA, Cooney AJ. 2005. Orphan nuclear receptor GCNF is required for the repression of pluripotency genes during retinoic acid-induced embryonic stem cell differentiation. Mol Cell Biol. 25(19):8507-19.
TF group: SF1 TFBS class: HR = Hormone receptor Code: 2.1.5
Pattern = AGGTCAAGGTCA (core elements are bold) Class: SF1 Allowed mismatch: 0.186
Overlap with other TFBS Open table
GO-annotations for traget genes Open table

Position weight matrix:

position A C G T
1 8 1 0 1
2 1 0 8 1
3 0 0 7 3
4 0 2 0 8
5 0 9 0 1
6 10 0 0 0
7 10 0 0 0
8 0 0 10 0
9 0 0 7 3
10 1 3 0 6
11 1 7 1 1
12 8 1 0 1

Genes (trans-elements):

U-cluster Symbol Annotation
U022570 Nr6a1 nuclear receptor subfamily 6, group A, member 1

GO terms:
GO:0003707 steroid hormone receptor activity
GO:0004872 receptor activity
GO:0004879 ligand-dependent nuclear receptor activity
GO:0000122 negative regulation of transcription from RNA polymerase II promoter

Protein domains:
IPR001723 Steroid hormone receptor
IPR000536 Ligand-binding region of nuclear hormone receptor
IPR008946 Steroid nuclear receptor, ligand-binding
IPR001628 Zn-finger, C4-type steroid receptor
IPR000324 Vitamin D receptor

Frequency distribution in CpG-rich and CpG-poor promoters (per 1Mb)

position	A	C	G	T
1	8	1	0	1
2	1	0	8	1
3	0	0	7	3
4	0	2	0	8
5	0	9	0	1
6	10	0	0	0
7	10	0	0	0
8	0	0	10	0
9	0	0	7	3
10	1	3	0	6
11	1	7	1	1
12	8	1	0	1

U-cluster	Symbol	Annotation
U022570	Nr6a1	nuclear receptor subfamily 6, group A, member 1

Legend