RTCB

RNA 2',3'-cyclic phosphate and 5'-OH ligase | FAAP, HSPC117, C22orf28

Enables RNA ligase (GTP) activity and vinculin binding activity. Involved in tRNA splicing, via endonucleolytic cleavage and ligation. Located in cytosol and nucleoplasm. Part of tRNA-splicing ligase complex. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-1 DE-1.8 Developmental clusters: GC5

Biological processes 39 terms

IRE1-mediated unfolded protein response (GO:0036498)IRE1-mediated unfolded protein response (GO:0036498)RNA binding (GO:0003723)RNA ligase (GTP) activity (GO:0170057)RNA ligase (GTP) activity (GO:0170057)RNA ligase (GTP) activity (GO:0170057)RNA ligase (GTP) activity (GO:0170057)RNA ligase (GTP) activity (GO:0170057)RNA processing (GO:0006396)RNA splicing, via endonucleolytic cleavage and ligation (GO:0000394)catalytic complex (GO:1902494)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)endoplasmic reticulum membrane (GO:0005789)ligase activity, forming phosphoric ester bonds (GO:0016886)mRNA splicing, via endonucleolytic cleavage and ligation (GO:0070054)mRNA splicing, via endonucleolytic cleavage and ligation (GO:0070054)nuclear envelope (GO:0005635)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)protein guanylyltransferase activity (GO:0044600)tRNA exon ligation (GO:0000968)tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)tRNA-splicing ligase complex (GO:0072669)tRNA-splicing ligase complex (GO:0072669)tRNA-splicing ligase complex (GO:0072669)vinculin binding (GO:0017166)

Expression (TPM)

TFs regulating RTCB 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RTCB, 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
chr22:32,139,785–32,140,267	272.2 kb	Distal (>10kb) Multiome	14
chr22:32,147,169–32,147,709	264.9 kb	Distal (>10kb) Multiome	106
chr22:32,175,754–32,176,273	236.2 kb	Distal (>10kb) Multiome	106
chr22:32,202,214–32,203,260	209.7 kb	Distal (>10kb) Multiome	251
chr22:32,204,184–32,205,469	207.2 kb	Distal (>10kb) Multiome	338
chr22:32,206,463–32,207,219	205.3 kb	Distal (>10kb) Multiome	136
chr22:32,411,922–32,412,559	at TSS	At TSS	535
chr22:32,474,361–32,475,480	62.6 kb	Distal (>10kb) Multiome	819
chr22:32,502,334–32,503,331	90.5 kb	Distal (>10kb) Multiome	63
chr22:32,531,984–32,532,601	120.2 kb	Distal (>10kb) Multiome	610
chr22:32,643,108–32,643,606	231.2 kb	Distal (>10kb) Multiome	90

Genome Browser

Genomic view of the RTCB 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.