SRF

This gene encodes a ubiquitous nuclear protein that stimulates both cell proliferation and differentiation. It is a member of the MADS (MCM1, Agamous, Deficiens, and SRF) box superfamily of transcription factors. This protein binds to the serum response element (SRE) in the promoter region of target genes. This protein regulates the activity of many immediate-early genes, for example c-fos, and thereby participates in cell cycle regulation, apoptosis, cell growth, and cell differentiation. This gene is the downstream target of many pathways; for example, the mitogen-activated protein kinase pathway (MAPK) that acts through the ternary complex factors (TCFs). Two transcript variants encoding different isoforms have been found for this gene. RefSeq, May 2014
Serum response factor, also known as SRF, is a transcription factor.wikipedia

SRF

PDB image
PDB 1HBX

PDB 1HBX 1K6O 1SRS
ENCODE experiments
Ensemble search
Entrez 6722
GO search
Gene Card search
HGNC search
RefSeq search
UCSC browse
UniProt search
Wikipedia Serum_response_factor

Average Profiles of Modified Histones around the Summit of ChIP-seq Peaks

myocyte - Wold - ENCSR000AIM

loading

Legend

Proximal:
  • H3K27ac
  • H3K27me3
  • H3K36me3
  • H3K4me1
  • H3K4me2
  • H3K4me3
  • H3K79me2
  • H3K79me3
  • H3K9ac
  • H3K9me3
  • H3ac
Distal:
  • H3K27ac
  • H3K27me3
  • H3K36me3
  • H3K4me1
  • H3K4me2
  • H3K4me3
  • H3K79me2
  • H3K79me3
  • H3K9ac
  • H3K9me3
  • H3ac

Notes

Average histone modification profiles are shown for the [-2 kb, +2 kb] window around the summits of TF ChIP-seq peaks. Profile are shown separately for peaks that are proximal ([-1 kb, +1 kb]; ending in '-p') to an annotated transcript start site (TSS) and for peaks that are distal (>1 kb; ending in '-d') to all annotated TSS. TSS-proximal profiles are arranged such that the nearest transcript proceeds towards the right.

Motifs Enriched in the Top 500 ChIP-seq Peaks

myocyte - Wold - ENCSR000AIM

1.
371 / 500
2.2e-641
CCATATAAGGCCAGG
small heat map img p-value: 0.00
pct_center: 0.47
pct_ratio: 4.31
2.
128 / 500
1.3e-30
GAGGGGGCGGGGCCA
small heat map img p-value: 0.00
pct_center: 0.63
pct_ratio: 0.71
3.
27 / 500
1.5e-21
GTGACGTCACTGCGGCGCGCCGGC
small heat map img p-value: 0.00
pct_center: 0.24
pct_ratio: 1.02
4.
42 / 500
0.40
GGATGACGCAG
small heat map img p-value: 0.55
pct_center: 0.13
pct_ratio: 0.79
5.
6 / 500
42
ATGCATGCTGGGAAATGTAGT
small heat map img p-value: 0.00
pct_center: 0.09
pct_ratio: 0.68
MEME output

Notes

The top 500 TF ChIP-seq peaks were used to identify enriched motifs de novo, using the MEME-ChIP suite of tools. Up to five motifs are reported (1 to 5) if they meet the criteria defined by our pipeline.

Binding of other histone marks at SRF peaks

myocyte - Wold - ENCSR000AIM

myocyte
Wold
SRF
ENCSR000AIM
r=1.00

small heat map img

myocyte
Wold
H3K4me2
ENCSR000AHS
r=0.30

small heat map img

myocyte
Wold
H3K4me3
ENCSR000AHT
r=0.30

small heat map img

myocyte
Wold
H3ac
ENCSR000AHU
r=0.29

small heat map img

myocyte
Wold
H3K27me3
ENCSR000AHM
r=0.02

small heat map img

myocyte
Wold
H3K79me2
ENCSR000AHN
r=0.01

small heat map img

myocyte
Wold
H3K36me3
ENCSR000AHV
r=-0.10

small heat map img
2,517 peaks (download )

Notes

ChIP-seq peaks (left to right in the heatmap) for the current TF are sorted by descending TF ChIP-seq signal. The ChIP-seq signals of histone modifications are plotted for the genomic regions that correspond to the peaks of the current TF in the same order. The Pearson correlation coefficient (r) of the histone modification ChIP-seq signal with the TF ChIP-seq signal is shown.

legend
Binding of other TFs at SRF peaks

myocyte - Wold - ENCSR000AIM

myocyte
Wold
SRF
ENCSR000AIM
r=1.00

small heat map img

myocyte
Wold
MYOG
ENCSR000AIC
r=0.36

small heat map img

myocyte
Wold
MYOD1
ENCSR000AIH
r=0.33

small heat map img

myocyte
Wold
TCF3
ENCSR000AIP
r=0.33

small heat map img

myocyte
Wold
MYOG
ENCSR000AID
r=0.32

small heat map img

myocyte
Wold
POLR2A
ENCSR000AIX
r=0.32

small heat map img

myocyte
Wold
MYOD1
ENCSR000AIR
r=0.32

small heat map img

myocyte
Wold
E2F4
ENCSR000AII
r=0.31

small heat map img

myocyte
Wold
MAX
ENCSR000AIL
r=0.30

small heat map img

myocyte
Wold
TCF12
ENCSR000AIN
r=0.29

small heat map img

myocyte
Wold
MYOG
ENCSR000AIW
r=0.23

small heat map img

myocyte
Wold
USF1
ENCSR000AIE
r=0.22

small heat map img

myocyte
Wold
REST
ENCSR000AIS
r=0.20

small heat map img

myocyte
Wold
CEBPB
ENCSR000AIB
r=0.18

small heat map img

myocyte
Wold
MYOD1
ENCSR000AIT
r=0.14

small heat map img
2,517 peaks (download )

Notes

Peaks (left to right in the heatmap) are sorted by the descending order of [-log10(q-value), -log10(p-value), TF ChIP-seq signal].

legend
Help