Project
ENCODE: ATAC-seq of different tissues during embryonic development
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CREMA is a free online tool that recognizes most
important transcription factors that change the chromatin
state across different samples.
Results for Gata2_Gata1
Z-value: 4.86
Motif logo
Correlations of motif activity and signal intensity at CREs associated with the motif's TFs:
This plot shows correlation between observed signal intensity of a CRE associated with the transcription factor across all samples and activity of the motif.
For each TF, only the top 5 correlated CREs are shown.
| CRE | Gene | Distance | Association probability | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|---|---|
| Gata1 | chrX_7971365_7971849 | 3697 | 0.103187 | -0.87 | 4.2e-18 | Click! |
| Gata1 | chrX_7970964_7971256 | 3200 | 0.110731 | -0.86 | 6.3e-17 | Click! |
| Gata1 | chrX_7968340_7968526 | 523 | 0.581403 | -0.84 | 5.7e-16 | Click! |
| Gata1 | chrX_7993362_7993525 | 15372 | 0.075825 | -0.83 | 2.5e-15 | Click! |
| Gata1 | chrX_7966286_7966460 | 1537 | 0.197273 | -0.82 | 3.3e-14 | Click! |
| Gata2 | chr6_88197979_88198182 | 254 | 0.877934 | 0.60 | 1.4e-06 | Click! |
| Gata2 | chr6_88197240_88197577 | 926 | 0.454896 | 0.57 | 6.6e-06 | Click! |
| Gata2 | chr6_88198217_88198368 | 42 | 0.962175 | 0.51 | 6.4e-05 | Click! |
| Gata2 | chr6_88193559_88193710 | 257 | 0.871291 | 0.47 | 3.0e-04 | Click! |
| Gata2 | chr6_88198764_88198966 | 531 | 0.682811 | 0.38 | 4.7e-03 | Click! |
Showing 1 to 10 of 10 entries
Top target CREs of the motif:
| Cis Regulatory Element (CRE) | Target Score | Top associated gene | Gene Info | Distance of CRE to TSS | CRE/Gene association probability |
|---|---|---|---|---|---|
| chr17_13590938_13591623 | 271.80 |
2700054A10Rik |
RIKEN cDNA 2700054A10 gene |
22416 |
0.14 |
| chr17_13654565_13655321 | 249.87 |
2700054A10Rik |
RIKEN cDNA 2700054A10 gene |
13948 |
0.15 |
| chr5_74905641_74905990 | 81.91 |
Gm17906 |
predicted gene, 17906 |
22480 |
0.17 |
| chr17_13589870_13590228 | 69.90 |
2700054A10Rik |
RIKEN cDNA 2700054A10 gene |
21185 |
0.15 |
| chr17_13586214_13586541 | 65.42 |
2700054A10Rik |
RIKEN cDNA 2700054A10 gene |
17513 |
0.15 |
| chr10_125961290_125962183 | 63.07 |
Lrig3 |
leucine-rich repeats and immunoglobulin-like domains 3 |
4432 |
0.33 |
| chr8_122284023_122284944 | 56.35 |
Zfpm1 |
zinc finger protein, multitype 1 |
2342 |
0.24 |
| chr3_62348500_62348904 | 51.44 |
Arhgef26 |
Rho guanine nucleotide exchange factor (GEF) 26 |
7601 |
0.24 |
| chr7_107004292_107004443 | 46.97 |
Olfr2 |
olfactory receptor 2 |
1327 |
0.26 |
| chr16_14265466_14265813 | 46.79 |
Myh11 |
myosin, heavy polypeptide 11, smooth muscle |
25724 |
0.14 |
Histogram of CRE-TSS distances for CREs targeted by :
Rank distribution of CRE target scores:
Distribution of target CREs across different genomic regions:
Network of associatons between targets according to the STRING database.
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 8.6 | 51.7 | GO:1900029 | positive regulation of ruffle assembly(GO:1900029) |
| 10.3 | 41.2 | GO:0060486 | Clara cell differentiation(GO:0060486) |
| 2.4 | 36.4 | GO:0045836 | positive regulation of meiotic nuclear division(GO:0045836) |
| 7.5 | 30.0 | GO:0001880 | Mullerian duct regression(GO:0001880) |
| 2.1 | 29.3 | GO:0003301 | physiological muscle hypertrophy(GO:0003298) physiological cardiac muscle hypertrophy(GO:0003301) cell growth involved in cardiac muscle cell development(GO:0061049) |
| 2.0 | 28.1 | GO:0007413 | axonal fasciculation(GO:0007413) |
| 0.7 | 27.3 | GO:0045600 | positive regulation of fat cell differentiation(GO:0045600) |
| 2.1 | 25.7 | GO:0048268 | clathrin coat assembly(GO:0048268) |
| 3.6 | 25.4 | GO:0001955 | blood vessel maturation(GO:0001955) |
| 1.2 | 23.8 | GO:1902668 | negative regulation of axon extension involved in axon guidance(GO:0048843) negative regulation of axon guidance(GO:1902668) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 99.3 | GO:0031012 | extracellular matrix(GO:0031012) |
| 1.6 | 86.2 | GO:0032587 | ruffle membrane(GO:0032587) |
| 0.2 | 54.7 | GO:0048471 | perinuclear region of cytoplasm(GO:0048471) |
| 0.5 | 43.3 | GO:0043204 | perikaryon(GO:0043204) |
| 0.2 | 40.2 | GO:0005912 | adherens junction(GO:0005912) |
| 2.8 | 38.8 | GO:0031527 | filopodium membrane(GO:0031527) |
| 0.6 | 36.1 | GO:0008076 | voltage-gated potassium channel complex(GO:0008076) |
| 2.3 | 32.0 | GO:0032279 | asymmetric synapse(GO:0032279) |
| 1.8 | 30.1 | GO:0005614 | interstitial matrix(GO:0005614) |
| 0.5 | 30.1 | GO:0031463 | Cul3-RING ubiquitin ligase complex(GO:0031463) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 89.0 | GO:0003779 | actin binding(GO:0003779) |
| 5.8 | 75.4 | GO:0030676 | Rac guanyl-nucleotide exchange factor activity(GO:0030676) |
| 0.1 | 52.3 | GO:0000981 | RNA polymerase II transcription factor activity, sequence-specific DNA binding(GO:0000981) |
| 0.8 | 42.8 | GO:0005089 | Rho guanyl-nucleotide exchange factor activity(GO:0005089) |
| 1.4 | 41.1 | GO:0001540 | beta-amyloid binding(GO:0001540) |
| 4.4 | 35.4 | GO:0008429 | phosphatidylethanolamine binding(GO:0008429) |
| 0.4 | 34.8 | GO:0008201 | heparin binding(GO:0008201) |
| 8.5 | 34.1 | GO:0032051 | clathrin light chain binding(GO:0032051) |
| 1.7 | 33.6 | GO:0042813 | Wnt-activated receptor activity(GO:0042813) |
| 1.3 | 33.4 | GO:0001106 | RNA polymerase II transcription corepressor activity(GO:0001106) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 90.5 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.5 | 72.4 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.5 | 64.6 | NABA ECM AFFILIATED | Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins |
| 1.8 | 57.9 | PID NETRIN PATHWAY | Netrin-mediated signaling events |
| 1.5 | 39.6 | PID NCADHERIN PATHWAY | N-cadherin signaling events |
| 1.3 | 36.0 | PID EPHA FWDPATHWAY | EPHA forward signaling |
| 0.8 | 35.9 | PID TAP63 PATHWAY | Validated transcriptional targets of TAp63 isoforms |
| 0.7 | 33.0 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.9 | 32.4 | NABA BASEMENT MEMBRANES | Genes encoding structural components of basement membranes |
| 0.9 | 31.0 | PID HNF3A PATHWAY | FOXA1 transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 51.1 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 2.3 | 50.1 | REACTOME SIGNALING BY BMP | Genes involved in Signaling by BMP |
| 3.8 | 49.7 | REACTOME DCC MEDIATED ATTRACTIVE SIGNALING | Genes involved in DCC mediated attractive signaling |
| 3.0 | 44.7 | REACTOME UNBLOCKING OF NMDA RECEPTOR GLUTAMATE BINDING AND ACTIVATION | Genes involved in Unblocking of NMDA receptor, glutamate binding and activation |
| 1.4 | 44.5 | REACTOME INWARDLY RECTIFYING K CHANNELS | Genes involved in Inwardly rectifying K+ channels |
| 1.8 | 40.5 | REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION | Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression |
| 2.5 | 37.0 | REACTOME SHC1 EVENTS IN EGFR SIGNALING | Genes involved in SHC1 events in EGFR signaling |
| 0.3 | 34.8 | REACTOME GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK | Genes involved in Gastrin-CREB signalling pathway via PKC and MAPK |
| 2.1 | 26.8 | REACTOME SYNTHESIS SECRETION AND INACTIVATION OF GIP | Genes involved in Synthesis, Secretion, and Inactivation of Glucose-dependent Insulinotropic Polypeptide (GIP) |
| 0.9 | 26.7 | REACTOME G ALPHA Z SIGNALLING EVENTS | Genes involved in G alpha (z) signalling events |