This gene encodes a protein involved in regulating responses to cytokines by members of the Rel/NF-kappaB transcription factor family. These factors play a central role in innate immunity in response to pathogens, inflammatory signals and stress. This gene product interacts with TRAF proteins (tumor necrosis factor receptor-associated factors) and either I-kappaB kinase or MAP kinase to activate either NF-kappaB or Jun kinase. Several alternative transcripts encoding different isoforms have been identified. Another transcript, which does not encode a protein and is transcribed in the opposite orientation, has been identified. Overexpression of this transcript has been shown to reduce expression of at least one of the protein encoding transcripts, suggesting it has a regulatory role in the expression of this gene. [provided by RefSeq, Aug 2009]
Transcription factors with Perturb-seq knockdown data for TRAF3IP2. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = TRAF3IP2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of TRAF3IP2, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr6:111,477,255–111,477,926 | 128.3 kb | Distal (>10kb) Multiome | 224 | |
| chr6:111,482,095–111,484,488 | 122.2 kb | Distal (>10kb) Multiome | 1155 | |
| chr6:111,551,467–111,552,823 | 53.9 kb | Distal (>10kb) Multiome | 624 | |
| chr6:111,605,159–111,605,330 | 547 bp | At TSS | 304 | |
| chr6:111,605,423–111,606,562 | 15 bp | At TSS Multiome | 672 | |
| chr6:111,613,712–111,614,352 | 7.8 kb | Proximal (<10kb) | 33 | |
| chr6:111,615,264–111,615,508 | 9.4 kb | Proximal (<10kb) | 189 | |
| chr6:111,661,571–111,662,099 | 56.0 kb | Distal (>10kb) Multiome | 114 | |
| chr6:111,663,255–111,663,981 | 57.9 kb | Distal (>10kb) Multiome | 220 | |
| chr6:111,871,814–111,873,910 | 267.6 kb | Distal (>10kb) Multiome | 860 | |
| chr6:111,888,886–111,889,845 | 283.5 kb | Distal (>10kb) Multiome | 252 | |
| chr6:111,898,210–111,898,825 | 292.7 kb | Distal (>10kb) Multiome | 147 | |
| chr6:112,043,090–112,044,140 | 437.9 kb | Distal (>10kb) Multiome HiCAR | 680 |
Genomic view of the TRAF3IP2 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.