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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 Zfp128
Z-value: 1.35
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 |
|---|---|---|---|---|---|---|
| Zfp128 | chr7_12881014_12881659 | 159 | 0.891712 | 0.47 | 2.8e-04 | Click! |
| Zfp128 | chr7_12880784_12881003 | 284 | 0.794322 | 0.33 | 1.5e-02 | Click! |
| Zfp128 | chr7_12881684_12881853 | 591 | 0.531332 | 0.27 | 4.4e-02 | 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 |
|---|---|---|---|---|---|
| chr13_109690660_109690826 | 5.86 |
Pde4d |
phosphodiesterase 4D, cAMP specific |
4567 |
0.36 |
| chr1_195092547_195092740 | 5.81 |
Cd46 |
CD46 antigen, complement regulatory protein |
394 |
0.77 |
| chr18_56904223_56904378 | 5.75 |
Gm18087 |
predicted gene, 18087 |
11788 |
0.2 |
| chr11_44509325_44509652 | 5.74 |
Rnf145 |
ring finger protein 145 |
9476 |
0.16 |
| chr13_25189803_25190130 | 5.73 |
Dcdc2a |
doublecortin domain containing 2a |
2512 |
0.34 |
| chr1_165110115_165110286 | 5.46 |
4930568G15Rik |
RIKEN cDNA 4930568G15 gene |
18272 |
0.15 |
| chr17_25090529_25090738 | 5.01 |
Ift140 |
intraflagellar transport 140 |
38 |
0.95 |
| chr13_74736261_74736464 | 4.80 |
Cast |
calpastatin |
684 |
0.71 |
| chr1_91251998_91252212 | 4.66 |
Ube2f |
ubiquitin-conjugating enzyme E2F (putative) |
1449 |
0.34 |
| chr17_83809218_83809497 | 4.59 |
Mta3 |
metastasis associated 3 |
13935 |
0.18 |
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 |
|---|---|---|---|
| 0.7 | 5.5 | GO:0035845 | photoreceptor cell outer segment organization(GO:0035845) |
| 1.5 | 4.5 | GO:0043382 | positive regulation of memory T cell differentiation(GO:0043382) |
| 0.1 | 4.3 | GO:0006414 | translational elongation(GO:0006414) |
| 1.4 | 4.1 | GO:0035672 | oligopeptide transmembrane transport(GO:0035672) |
| 0.5 | 3.8 | GO:2000675 | negative regulation of type B pancreatic cell apoptotic process(GO:2000675) |
| 0.9 | 3.7 | GO:0010499 | proteasomal ubiquitin-independent protein catabolic process(GO:0010499) |
| 0.9 | 3.5 | GO:2000659 | regulation of interleukin-1-mediated signaling pathway(GO:2000659) |
| 0.4 | 3.3 | GO:0002098 | tRNA wobble uridine modification(GO:0002098) |
| 0.2 | 3.1 | GO:0045116 | protein neddylation(GO:0045116) |
| 0.2 | 3.1 | GO:0045603 | positive regulation of endothelial cell differentiation(GO:0045603) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 22.9 | GO:0005783 | endoplasmic reticulum(GO:0005783) |
| 0.0 | 11.4 | GO:0044429 | mitochondrial part(GO:0044429) |
| 0.0 | 8.8 | GO:0005829 | cytosol(GO:0005829) |
| 0.6 | 4.7 | GO:0030991 | intraciliary transport particle A(GO:0030991) |
| 1.1 | 4.6 | GO:0002079 | inner acrosomal membrane(GO:0002079) |
| 0.0 | 4.2 | GO:0000139 | Golgi membrane(GO:0000139) |
| 0.0 | 4.1 | GO:0030139 | endocytic vesicle(GO:0030139) |
| 0.3 | 4.0 | GO:0031083 | BLOC-1 complex(GO:0031083) |
| 0.0 | 3.7 | GO:0031965 | nuclear membrane(GO:0031965) |
| 0.1 | 3.5 | GO:0005643 | nuclear pore(GO:0005643) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 8.8 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.0 | 8.0 | GO:0044822 | poly(A) RNA binding(GO:0044822) |
| 0.0 | 5.4 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.3 | 5.0 | GO:0001848 | complement binding(GO:0001848) |
| 0.1 | 4.9 | GO:0018423 | protein C-terminal leucine carboxyl O-methyltransferase activity(GO:0018423) |
| 0.2 | 4.5 | GO:0003746 | translation elongation factor activity(GO:0003746) |
| 0.7 | 4.3 | GO:0004064 | arylesterase activity(GO:0004064) |
| 0.1 | 3.9 | GO:0004869 | cysteine-type endopeptidase inhibitor activity(GO:0004869) |
| 0.0 | 3.7 | GO:0047485 | protein N-terminus binding(GO:0047485) |
| 0.2 | 3.6 | GO:0019206 | nucleoside kinase activity(GO:0019206) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.8 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 0.1 | 4.7 | PID AR PATHWAY | Coregulation of Androgen receptor activity |
| 0.1 | 4.6 | ST PHOSPHOINOSITIDE 3 KINASE PATHWAY | PI3K Pathway |
| 0.1 | 3.6 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.2 | 2.2 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.1 | 2.2 | PID MAPK TRK PATHWAY | Trk receptor signaling mediated by the MAPK pathway |
| 0.1 | 2.0 | PID AR TF PATHWAY | Regulation of Androgen receptor activity |
| 0.2 | 1.9 | ST STAT3 PATHWAY | STAT3 Pathway |
| 0.2 | 1.7 | PID RANBP2 PATHWAY | Sumoylation by RanBP2 regulates transcriptional repression |
| 0.1 | 1.7 | PID ALPHA SYNUCLEIN PATHWAY | Alpha-synuclein signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 12.6 | REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | Genes involved in Antigen processing: Ubiquitination & Proteasome degradation |
| 0.2 | 7.0 | REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION | Genes involved in NOTCH1 Intracellular Domain Regulates Transcription |
| 0.1 | 5.6 | REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION | Genes involved in Transcriptional Regulation of White Adipocyte Differentiation |
| 0.5 | 4.9 | REACTOME REGULATION OF COMPLEMENT CASCADE | Genes involved in Regulation of Complement cascade |
| 0.1 | 4.9 | REACTOME TRANSLATION | Genes involved in Translation |
| 0.1 | 4.6 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.2 | 3.7 | REACTOME ABORTIVE ELONGATION OF HIV1 TRANSCRIPT IN THE ABSENCE OF TAT | Genes involved in Abortive elongation of HIV-1 transcript in the absence of Tat |
| 0.1 | 3.4 | REACTOME DARPP 32 EVENTS | Genes involved in DARPP-32 events |
| 0.1 | 3.4 | REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE | Genes involved in Amino acid transport across the plasma membrane |
| 0.1 | 3.4 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |