This gene encodes a member of the semaphorin protein family which regulates axon growth during development of the nervous system. The encoded protein has a characteristic Sema domain near the N-terminus, through which semaphorins bind to plexin, and five thrombospondin type 1 repeats in the C-terminal region of the protein. The protein product may be cleaved and exist as a secreted molecule (PMID: 19463192). Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2012]
Transcription factors with Perturb-seq knockdown data for SEMA5B. 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 = SEMA5B 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 SEMA5B, 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 |
|---|---|---|---|---|
| chr3:122,798,643–122,799,856 | 228.5 kb | Distal (>10kb) Multiome | 131 | |
| chr3:122,890,181–122,890,667 | 137.4 kb | Distal (>10kb) Multiome | 154 | |
| chr3:122,942,761–122,943,436 | 84.6 kb | Distal (>10kb) Multiome HiCAR | 336 | |
| chr3:122,975,104–122,975,992 | 52.2 kb | Distal (>10kb) Multiome | 338 | |
| chr3:123,026,031–123,028,771 | 131 bp | At TSS Multiome | 478 | |
| chr3:123,066,643–123,067,789 | 39.3 kb | Distal (>10kb) Multiome | 865 | |
| chr3:123,080,786–123,081,476 | 53.3 kb | Distal (>10kb) Multiome | 291 | |
| chr3:123,081,598–123,082,265 | 54.4 kb | Distal (>10kb) Multiome | 186 | |
| chr3:123,143,533–123,144,461 | 116.4 kb | Distal (>10kb) Multiome | 294 | |
| chr3:123,169,519–123,169,980 | 142.0 kb | Distal (>10kb) Multiome | 64 | |
| chr3:123,201,446–123,202,796 | 174.2 kb | Distal (>10kb) Multiome | 651 | |
| chr3:123,314,223–123,315,571 | 287.3 kb | Distal (>10kb) Multiome | 264 |
Genomic view of the SEMA5B 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.