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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 Myf6
Z-value: 2.78
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 |
|---|---|---|---|---|---|---|
| Myf6 | chr10_107493348_107493519 | 1304 | 0.431917 | 0.85 | 1.7e-16 | Click! |
| Myf6 | chr10_107493731_107493882 | 931 | 0.561436 | 0.81 | 7.1e-14 | Click! |
| Myf6 | chr10_107499841_107499992 | 5179 | 0.205017 | 0.18 | 1.9e-01 | Click! |
Showing 1 to 3 of 3 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 |
|---|---|---|---|---|---|
| chr6_126740592_126740784 | 19.94 |
Kcna6 |
potassium voltage-gated channel, shaker-related, subfamily, member 6 |
14 |
0.98 |
| chr8_9770576_9770782 | 18.02 |
Gm47312 |
predicted gene, 47312 |
201 |
0.66 |
| chr3_134146920_134147071 | 17.48 |
Gm44361 |
predicted gene, 44361 |
113 |
0.96 |
| chr9_75625075_75626579 | 15.15 |
Lysmd2 |
LysM, putative peptidoglycan-binding, domain containing 2 |
68 |
0.96 |
| chr14_14983885_14984321 | 13.63 |
Nek10 |
NIMA (never in mitosis gene a)- related kinase 10 |
53528 |
0.11 |
| chr14_69028957_69029191 | 13.05 |
Stc1 |
stanniocalcin 1 |
164 |
0.85 |
| chr18_36197046_36197216 | 11.36 |
Nrg2 |
neuregulin 2 |
101 |
0.97 |
| chr16_41532913_41533104 | 11.22 |
Lsamp |
limbic system-associated membrane protein |
29 |
0.99 |
| chr14_14350947_14351733 | 11.06 |
Il3ra |
interleukin 3 receptor, alpha chain |
1719 |
0.23 |
| chr7_99267195_99268129 | 10.69 |
Map6 |
microtubule-associated protein 6 |
173 |
0.76 |
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 |
|---|---|---|---|
| 0.5 | 62.6 | GO:0071805 | potassium ion transmembrane transport(GO:0071805) |
| 0.5 | 37.4 | GO:0007156 | homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156) |
| 0.6 | 32.2 | GO:0051965 | positive regulation of synapse assembly(GO:0051965) |
| 1.2 | 27.0 | GO:0001964 | startle response(GO:0001964) |
| 0.2 | 20.2 | GO:0016358 | dendrite development(GO:0016358) |
| 1.0 | 18.5 | GO:0031290 | retinal ganglion cell axon guidance(GO:0031290) |
| 1.2 | 15.2 | GO:0035641 | locomotory exploration behavior(GO:0035641) |
| 2.0 | 13.9 | GO:0021942 | radial glia guided migration of Purkinje cell(GO:0021942) |
| 1.1 | 13.3 | GO:0060080 | inhibitory postsynaptic potential(GO:0060080) |
| 0.6 | 13.2 | GO:0007214 | gamma-aminobutyric acid signaling pathway(GO:0007214) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 59.4 | GO:0045211 | postsynaptic membrane(GO:0045211) |
| 0.7 | 41.7 | GO:0008076 | voltage-gated potassium channel complex(GO:0008076) |
| 0.2 | 28.3 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.9 | 28.0 | GO:0032281 | AMPA glutamate receptor complex(GO:0032281) |
| 0.9 | 24.3 | GO:0032809 | neuronal cell body membrane(GO:0032809) |
| 0.1 | 17.5 | GO:0005578 | proteinaceous extracellular matrix(GO:0005578) |
| 0.5 | 15.3 | GO:0042734 | presynaptic membrane(GO:0042734) |
| 0.9 | 11.1 | GO:0017146 | NMDA selective glutamate receptor complex(GO:0017146) |
| 0.6 | 10.8 | GO:0060077 | inhibitory synapse(GO:0060077) |
| 0.2 | 10.7 | GO:0005913 | cell-cell adherens junction(GO:0005913) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.0 | 30.7 | GO:0005251 | delayed rectifier potassium channel activity(GO:0005251) |
| 0.6 | 15.6 | GO:0005104 | fibroblast growth factor receptor binding(GO:0005104) |
| 0.6 | 14.8 | GO:0005540 | hyaluronic acid binding(GO:0005540) |
| 0.2 | 14.7 | GO:0004222 | metalloendopeptidase activity(GO:0004222) |
| 0.2 | 13.8 | GO:0005179 | hormone activity(GO:0005179) |
| 4.5 | 13.6 | GO:0005006 | epidermal growth factor-activated receptor activity(GO:0005006) |
| 0.4 | 10.9 | GO:0005272 | sodium channel activity(GO:0005272) |
| 1.0 | 10.5 | GO:0004970 | ionotropic glutamate receptor activity(GO:0004970) |
| 2.6 | 10.4 | GO:0016286 | small conductance calcium-activated potassium channel activity(GO:0016286) |
| 0.0 | 10.4 | GO:0001077 | transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001077) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 22.1 | NABA ECM AFFILIATED | Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins |
| 0.1 | 21.7 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 1.2 | 18.7 | PID ERBB NETWORK PATHWAY | ErbB receptor signaling network |
| 0.6 | 16.8 | ST MYOCYTE AD PATHWAY | Myocyte Adrenergic Pathway is a specific case of the generalized Adrenergic Pathway. |
| 0.3 | 9.4 | PID BMP PATHWAY | BMP receptor signaling |
| 0.6 | 9.1 | PID SYNDECAN 3 PATHWAY | Syndecan-3-mediated signaling events |
| 0.3 | 8.3 | PID REELIN PATHWAY | Reelin signaling pathway |
| 0.3 | 8.1 | PID NETRIN PATHWAY | Netrin-mediated signaling events |
| 0.2 | 6.9 | PID TRKR PATHWAY | Neurotrophic factor-mediated Trk receptor signaling |
| 0.3 | 6.6 | PID EPHRINB REV PATHWAY | Ephrin B reverse signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 34.8 | REACTOME VOLTAGE GATED POTASSIUM CHANNELS | Genes involved in Voltage gated Potassium channels |
| 0.6 | 24.0 | REACTOME POTASSIUM CHANNELS | Genes involved in Potassium Channels |
| 1.7 | 18.6 | REACTOME DOWNREGULATION OF ERBB2 ERBB3 SIGNALING | Genes involved in Downregulation of ERBB2:ERBB3 signaling |
| 0.7 | 16.1 | REACTOME ADHERENS JUNCTIONS INTERACTIONS | Genes involved in Adherens junctions interactions |
| 1.0 | 15.3 | REACTOME UNBLOCKING OF NMDA RECEPTOR GLUTAMATE BINDING AND ACTIVATION | Genes involved in Unblocking of NMDA receptor, glutamate binding and activation |
| 1.0 | 11.5 | REACTOME GABA A RECEPTOR ACTIVATION | Genes involved in GABA A receptor activation |
| 0.5 | 11.0 | REACTOME EFFECTS OF PIP2 HYDROLYSIS | Genes involved in Effects of PIP2 hydrolysis |
| 0.8 | 9.3 | REACTOME DSCAM INTERACTIONS | Genes involved in DSCAM interactions |
| 0.6 | 8.9 | REACTOME SYNTHESIS SECRETION AND INACTIVATION OF GLP1 | Genes involved in Synthesis, Secretion, and Inactivation of Glucagon-like Peptide-1 (GLP-1) |
| 0.4 | 7.7 | REACTOME NITRIC OXIDE STIMULATES GUANYLATE CYCLASE | Genes involved in Nitric oxide stimulates guanylate cyclase |