RNPS1
RNA binding protein with serine rich domain 1

This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein binds to the mRNA and remains bound after nuclear export, acting as a nucleocytoplasmic shuttling protein. This protein contains many serine residues. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2013]

Member of: DE-11 DE-11.2
Biological processes 32 terms
ASAP complex (GO:0061574)ASAP complex (GO:0061574)DNA-templated transcription (GO:0006351)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA splicing (GO:0008380)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)exon-exon junction complex (GO:0035145)mRNA 3'-UTR binding (GO:0003730)mRNA splicing, via spliceosome (GO:0000398)negative regulation of mRNA splicing, via spliceosome (GO:0048025)nuclear speck (GO:0016607)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nucleic acid binding (GO:0003676)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of apoptotic process (GO:0043065)positive regulation of apoptotic process (GO:0043065)protein binding (GO:0005515)regulation of alternative mRNA splicing, via spliceosome (GO:0000381)regulation of mRNA processing (GO:0050684)regulation of mRNA processing (GO:0050684)
Expression (TPM)
RNPS1 — as a Regulated Gene

TFs regulating RNPS1 0 TFs

Transcription factors with Perturb-seq knockdown data for RNPS1. 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 = RNPS1 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 RNPS1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RNPS1, 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
chr16:1,971,481–1,972,435 296.1 kb Distal (>10kb) Multiome 1010
chr16:1,979,111–1,980,324 288.7 kb Distal (>10kb) Multiome 296
chr16:1,983,450–1,984,851 284.1 kb Distal (>10kb) Multiome 917
chr16:1,989,307–1,993,568 275.7 kb Distal (>10kb) Multiome 706
chr16:2,003,882–2,004,348 264.0 kb Distal (>10kb) Multiome 619
chr16:2,009,742–2,010,504 258.2 kb Distal (>10kb) Multiome 752
chr16:2,022,700–2,023,923 244.8 kb Distal (>10kb) Multiome 682
chr16:2,026,629–2,027,149 241.2 kb Distal (>10kb) Multiome 249
chr16:2,047,366–2,048,252 220.2 kb Distal (>10kb) Multiome 875
chr16:2,090,476–2,092,232 176.8 kb Distal (>10kb) Multiome 344
chr16:2,135,536–2,136,505 132.0 kb Distal (>10kb) Multiome 263
chr16:2,147,864–2,149,260 119.6 kb Distal (>10kb) Multiome 679
chr16:2,149,550–2,152,180 117.0 kb Distal (>10kb) Multiome 618
chr16:2,152,861–2,153,999 114.4 kb Distal (>10kb) Multiome 734
chr16:2,154,834–2,156,329 112.5 kb Distal (>10kb) Multiome 932
chr16:2,178,140–2,179,722 89.3 kb Distal (>10kb) Multiome 318
chr16:2,205,129–2,206,297 62.6 kb Distal (>10kb) Multiome 887
chr16:2,214,212–2,215,803 53.1 kb Distal (>10kb) Multiome 953
chr16:2,223,095–2,224,285 44.6 kb Distal (>10kb) Multiome 918
chr16:2,251,044–2,252,460 16.4 kb Distal (>10kb) Multiome 996
chr16:2,267,625–2,269,111 164 bp At TSS Multiome 1044
chr16:2,339,631–2,342,283 72.7 kb Distal (>10kb) Multiome 1129
chr16:2,428,282–2,429,948 161.2 kb Distal (>10kb) Multiome HiCAR 827
chr16:2,459,524–2,460,612 192.0 kb Distal (>10kb) Multiome HiCAR 670
chr16:2,467,565–2,468,324 199.7 kb Distal (>10kb) Multiome HiCAR 450
chr16:2,470,913–2,472,223 203.2 kb Distal (>10kb) Multiome 427
chr16:2,473,455–2,476,127 207.1 kb Distal (>10kb) Multiome 719
chr16:2,501,124–2,501,877 233.4 kb Distal (>10kb) Multiome 471
chr16:2,513,006–2,514,809 245.7 kb Distal (>10kb) Multiome HiCAR 818
chr16:2,520,064–2,520,618 252.3 kb Distal (>10kb) Multiome HiCAR 624
chr16:2,531,456–2,533,080 264.0 kb Distal (>10kb) Multiome 883
chr16:2,537,433–2,538,433 269.8 kb Distal (>10kb) Multiome 498

Genome Browser

Genomic view of the RNPS1 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.

chr16:1,961,481 – 2,548,433
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
Huangfu Lab · Publications · Resources · Contact