PLXNB1
plexin B1 | KIAA0407, SEP, PLXN5

Enables semaphorin receptor activity. Involved in several processes, including negative regulation of cell adhesion; regulation of cell shape; and semaphorin-plexin signaling pathway. Located in plasma membrane. Part of semaphorin receptor complex. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-2 DE-2.33 Developmental clusters: GC6
Biological processes 53 terms
GTPase activating protein binding (GO:0032794)GTPase activating protein binding (GO:0032794)GTPase activator activity (GO:0005096)cell migration (GO:0016477)extracellular region (GO:0005576)glutamatergic synapse (GO:0098978)inhibitory synapse assembly (GO:1904862)inhibitory synapse assembly (GO:1904862)intracellular signal transduction (GO:0035556)negative regulation of cell adhesion (GO:0007162)negative regulation of cell adhesion (GO:0007162)negative regulation of cell adhesion (GO:0007162)negative regulation of osteoblast proliferation (GO:0033689)negative regulation of osteoblast proliferation (GO:0033689)neuron projection morphogenesis (GO:0048812)neuron projection morphogenesis (GO:0048812)ossification involved in bone maturation (GO:0043931)ossification involved in bone maturation (GO:0043931)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane (GO:0005886)positive regulation of GTPase activity (GO:0043547)positive regulation of Rho protein signal transduction (GO:0035025)positive regulation of Rho protein signal transduction (GO:0035025)positive regulation of axonogenesis (GO:0050772)positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0051897)positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (GO:0051897)postsynaptic membrane (GO:0045211)protein binding (GO:0005515)regulation of cell migration (GO:0030334)regulation of cell shape (GO:0008360)regulation of cell shape (GO:0008360)regulation of cell shape (GO:0008360)regulation of cytoskeleton organization (GO:0051493)semaphorin receptor activity (GO:0017154)semaphorin receptor activity (GO:0017154)semaphorin receptor activity (GO:0017154)semaphorin receptor activity (GO:0017154)semaphorin receptor activity (GO:0017154)semaphorin receptor binding (GO:0030215)semaphorin receptor complex (GO:0002116)semaphorin receptor complex (GO:0002116)semaphorin receptor complex (GO:0002116)semaphorin receptor complex (GO:0002116)semaphorin receptor complex (GO:0002116)semaphorin-plexin signaling pathway (GO:0071526)semaphorin-plexin signaling pathway (GO:0071526)semaphorin-plexin signaling pathway (GO:0071526)semaphorin-plexin signaling pathway (GO:0071526)synapse assembly (GO:0007416)transmembrane signaling receptor activity (GO:0004888)
Expression (TPM)
PLXNB1 — as a Regulated Gene

TFs regulating PLXNB1 0 TFs

Transcription factors with Perturb-seq knockdown data for PLXNB1. 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 = PLXNB1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to PLXNB1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of PLXNB1, 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
chr3:48,187,500–48,188,989 241.0 kb Distal (>10kb) Multiome HiCAR 820
chr3:48,240,728–48,241,473 188.4 kb Distal (>10kb) Multiome HiCAR 843
chr3:48,300,947–48,301,746 128.1 kb Distal (>10kb) Multiome HiCAR 954
chr3:48,372,864–48,373,543 56.3 kb Distal (>10kb) Multiome HiCAR 49
chr3:48,428,528–48,430,504 562 bp At TSS Multiome 910
chr3:48,432,876–48,433,064 3.4 kb Proximal (<10kb) 68
chr3:48,435,863–48,436,304 6.4 kb Proximal (<10kb) 452
chr3:48,439,801–48,440,548 10.7 kb Distal (>10kb) Multiome 787
chr3:48,446,396–48,447,180 17.3 kb Distal (>10kb) Multiome 767
chr3:48,465,344–48,466,310 36.3 kb Distal (>10kb) Multiome 670
chr3:48,472,636–48,473,658 43.8 kb Distal (>10kb) Multiome 821
chr3:48,503,451–48,504,839 74.6 kb Distal (>10kb) Multiome 419
chr3:48,556,022–48,557,666 127.6 kb Distal (>10kb) Multiome 794
chr3:48,558,131–48,558,793 128.9 kb Distal (>10kb) Multiome 503
chr3:48,608,816–48,610,628 180.1 kb Distal (>10kb) Multiome 850
chr3:48,634,696–48,636,251 206.1 kb Distal (>10kb) Multiome 898
chr3:48,655,787–48,657,257 227.0 kb Distal (>10kb) Multiome 438
chr3:48,661,275–48,664,636 232.2 kb Distal (>10kb) Multiome 1248
chr3:48,685,362–48,686,531 256.4 kb Distal (>10kb) Multiome 770
chr3:48,716,958–48,717,863 287.8 kb Distal (>10kb) Multiome 634

Genome Browser

Genomic view of the PLXNB1 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.

chr3:48,177,500 – 48,727,863
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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