SEMA6C

semaphorin 6C | KIAA1869, Sema-Y

This gene encodes a member of the semaphorin family. Semaphorins represent important molecular signals controlling multiple aspects of the cellular response that follows CNS injury, and thus may play an important role in neural regeneration. [provided by RefSeq, May 2010]

Developmental clusters: GC6

Biological processes 14 terms

axon guidance (GO:0007411)axon guidance (GO:0007411)cell surface (GO:0009986)chemorepellent activity (GO:0045499)cytoplasm (GO:0005737)negative chemotaxis (GO:0050919)negative regulation of axon extension (GO:0030517)neural crest cell migration (GO:0001755)plasma membrane (GO:0005886)plasma membrane (GO:0005886)positive regulation of cell migration (GO:0030335)semaphorin receptor binding (GO:0030215)semaphorin receptor binding (GO:0030215)semaphorin-plexin signaling pathway (GO:0071526)

Expression (TPM)

TFs regulating SEMA6C 0 TFs

Transcription factors with Perturb-seq knockdown data for SEMA6C. 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 = SEMA6C 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

Rows:

Elements linked to SEMA6C

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SEMA6C, 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.

Element	Dist. to TSS	Link type	TFs
chr1:150,875,863–150,877,222	269.9 kb	Distal (>10kb) Multiome	912
chr1:150,925,543–150,926,754	220.3 kb	Distal (>10kb) Multiome	813
chr1:150,973,876–150,975,458	171.8 kb	Distal (>10kb) Multiome	590
chr1:150,979,331–150,979,990	167.1 kb	Distal (>10kb) Multiome	562
chr1:150,981,212–150,981,672	165.3 kb	Distal (>10kb) Multiome	379
chr1:151,006,389–151,007,024	139.8 kb	Distal (>10kb) Multiome	496
chr1:151,008,116–151,008,852	138.2 kb	Distal (>10kb) Multiome	763
chr1:151,047,405–151,048,764	98.1 kb	Distal (>10kb) Multiome	714
chr1:151,059,187–151,059,842	87.0 kb	Distal (>10kb) Multiome	821
chr1:151,060,204–151,060,723	86.1 kb	Distal (>10kb) Multiome	346
chr1:151,070,369–151,071,463	75.5 kb	Distal (>10kb) Multiome	835
chr1:151,131,105–151,132,256	15.2 kb	Distal (>10kb) Multiome	247
chr1:151,145,115–151,147,333	139 bp	At TSS Multiome	709
chr1:151,156,102–151,156,289	9.5 kb	Proximal (<10kb)	213
chr1:151,165,133–151,166,350	19.2 kb	Distal (>10kb) Multiome	940
chr1:151,189,687–151,190,378	43.5 kb	Distal (>10kb) Multiome	875
chr1:151,198,185–151,199,073	51.9 kb	Distal (>10kb) Multiome	721
chr1:151,254,421–151,255,083	108.1 kb	Distal (>10kb) Multiome	770
chr1:151,281,008–151,283,557	134.7 kb	Distal (>10kb) Multiome	1121
chr1:151,327,019–151,328,343	181.0 kb	Distal (>10kb) Multiome	719
chr1:151,346,796–151,347,793	200.6 kb	Distal (>10kb) Multiome	711
chr1:151,399,359–151,400,043	252.9 kb	Distal (>10kb) Multiome	776

Genome Browser

Genomic view of the SEMA6C 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.