CRLF1

cytokine receptor like factor 1 | CISS, CISS1, CLF, CLF-1

This gene encodes a member of the cytokine type I receptor family. The protein forms a secreted complex with cardiotrophin-like cytokine factor 1 and acts on cells expressing ciliary neurotrophic factor receptors. The complex can promote survival of neuronal cells. Mutations in this gene result in Crisponi syndrome and cold-induced sweating syndrome. [provided by RefSeq, Oct 2009]

Member of: DE-7 Developmental clusters: GC3

Biological processes 29 terms

CRLF-CLCF1 complex (GO:0097058)CRLF-CLCF1 complex (GO:0097058)cell surface receptor signaling pathway via STAT (GO:0097696)cell surface receptor signaling pathway via STAT (GO:0097696)ciliary neurotrophic factor receptor binding (GO:0005127)cytokine activity (GO:0005125)cytokine activity (GO:0005125)cytokine binding (GO:0019955)cytokine binding (GO:0019955)cytokine receptor activity (GO:0004896)cytokine-mediated signaling pathway (GO:0019221)cytokine-mediated signaling pathway (GO:0019221)cytosol (GO:0005829)external side of plasma membrane (GO:0009897)extracellular region (GO:0005576)extracellular region (GO:0005576)extracellular region (GO:0005576)extracellular region (GO:0005576)negative regulation of motor neuron apoptotic process (GO:2000672)negative regulation of neuron apoptotic process (GO:0043524)negative regulation of neuron apoptotic process (GO:0043524)negative regulation of neuron apoptotic process (GO:0043524)positive regulation of cell population proliferation (GO:0008284)positive regulation of cell population proliferation (GO:0008284)protein binding (GO:0005515)protein carrier activity (GO:0140597)protein secretion (GO:0009306)signaling receptor complex (GO:0043235)ureteric bud development (GO:0001657)

Expression (TPM)

TFs regulating CRLF1 0 TFs

Transcription factors with Perturb-seq knockdown data for CRLF1. 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 = CRLF1 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 CRLF1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of CRLF1, 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
chr19:18,322,635–18,323,493	283.6 kb	Distal (>10kb) Multiome	814
chr19:18,328,417–18,328,936	278.2 kb	Distal (>10kb) Multiome	488
chr19:18,339,807–18,340,160	266.9 kb	Distal (>10kb) Multiome	249
chr19:18,340,428–18,341,393	266.2 kb	Distal (>10kb) Multiome	747
chr19:18,373,917–18,374,961	232.3 kb	Distal (>10kb) Multiome	971
chr19:18,388,239–18,388,884	218.2 kb	Distal (>10kb) Multiome	910
chr19:18,416,224–18,418,189	190.1 kb	Distal (>10kb) Multiome	893
chr19:18,418,296–18,420,432	187.4 kb	Distal (>10kb) Multiome	773
chr19:18,428,554–18,429,777	177.6 kb	Distal (>10kb) Multiome	489
chr19:18,433,114–18,434,328	172.7 kb	Distal (>10kb) Multiome	446
chr19:18,436,634–18,439,166	169.5 kb	Distal (>10kb) Multiome	799
chr19:18,521,058–18,522,859	84.5 kb	Distal (>10kb) Multiome	849
chr19:18,543,118–18,544,249	63.1 kb	Distal (>10kb) Multiome	574
chr19:18,557,570–18,558,196	49.0 kb	Distal (>10kb) Multiome	738
chr19:18,571,234–18,572,258	35.1 kb	Distal (>10kb) Multiome	972
chr19:18,588,272–18,591,023	16.2 kb	Distal (>10kb) Multiome	1174
chr19:18,593,729–18,595,402	12.4 kb	Distal (>10kb) Multiome	464
chr19:18,596,612–18,597,156	9.6 kb	Proximal (<10kb)	256
chr19:18,603,512–18,604,241	2.6 kb	Proximal (<10kb)	161
chr19:18,606,608–18,607,085	at TSS	At TSS	100
chr19:18,610,441–18,611,114	3.6 kb	Proximal (<10kb)	470
chr19:18,611,391–18,612,134	5.0 kb	Proximal (<10kb) Multiome	340
chr19:18,635,894–18,637,555	29.9 kb	Distal (>10kb) Multiome	617
chr19:18,682,925–18,684,360	76.9 kb	Distal (>10kb) Multiome	701
chr19:18,785,146–18,785,600	178.6 kb	Distal (>10kb) Multiome	247
chr19:18,831,386–18,833,070	225.1 kb	Distal (>10kb) Multiome	833
chr19:18,870,063–18,870,526	263.7 kb	Distal (>10kb) Multiome	148
chr19:18,895,036–18,896,591	289.4 kb	Distal (>10kb) Multiome	554

Genome Browser

Genomic view of the CRLF1 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.