PTBP1
polypyrimidine tract binding protein 1 | HNRNP-I, HNRPI, PTB-1, PTB2, PTB3, PTB4, pPTB, PTB

This gene belongs to the subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are RNA-binding proteins and they complex with heterogeneous nuclear RNA (hnRNA). These proteins are associated with pre-mRNAs in the nucleus and appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. While all of the hnRNPs are present in the nucleus, some seem to shuttle between the nucleus and the cytoplasm. The hnRNP proteins have distinct nucleic acid binding properties. The protein encoded by this gene has four repeats of quasi-RNA recognition motif (RRM) domains that bind RNAs. This protein binds to the intronic polypyrimidine tracts that requires pre-mRNA splicing and acts via the protein degradation ubiquitin-proteasome pathway. It may also promote the binding of U2 snRNP to pre-mRNAs. This protein is localized in the nucleoplasm and it is also detected in the perinucleolar structure. Alternatively spliced transcript variants encoding different isoforms have been described. [provided by RefSeq, Jul 2008]

Member of: DE-11 DE-11.7
Biological processes 32 terms
Expression (TPM)
PTBP1 — as a Regulated Gene

TFs regulating PTBP1 0 TFs

Transcription factors with Perturb-seq knockdown data for PTBP1. 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 = PTBP1 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 PTBP1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of PTBP1, 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
chr19:506,451–508,366 290.3 kb Distal (>10kb) Multiome 1001
chr19:510,509–511,797 286.5 kb Distal (>10kb) Multiome 739
chr19:518,865–519,356 278.3 kb Distal (>10kb) Multiome 151
chr19:530,809–533,397 266.0 kb Distal (>10kb) Multiome 856
chr19:572,071–573,594 225.0 kb Distal (>10kb) Multiome 888
chr19:588,127–589,976 209.1 kb Distal (>10kb) Multiome 526
chr19:632,653–633,806 163.8 kb Distal (>10kb) Multiome 758
chr19:639,456–640,331 157.6 kb Distal (>10kb) Multiome 389
chr19:662,267–663,864 134.1 kb Distal (>10kb) Multiome 723
chr19:679,616–681,731 116.7 kb Distal (>10kb) Multiome 832
chr19:703,387–704,718 93.4 kb Distal (>10kb) Multiome 586
chr19:708,425–709,293 88.6 kb Distal (>10kb) Multiome 317
chr19:796,668–798,362 194 bp At TSS Multiome 956
chr19:798,668–799,351 1.2 kb Proximal (<10kb) 372
chr19:821,294–822,728 24.7 kb Distal (>10kb) Multiome 254
chr19:861,664–863,223 64.8 kb Distal (>10kb) Multiome 530
chr19:892,703–893,746 95.8 kb Distal (>10kb) Multiome 715
chr19:917,038–918,169 120.4 kb Distal (>10kb) Multiome 711
chr19:924,743–926,242 128.3 kb Distal (>10kb) Multiome 796
chr19:927,058–927,629 129.9 kb Distal (>10kb) Multiome 362
chr19:982,565–983,215 185.4 kb Distal (>10kb) Multiome 590
chr19:984,046–985,154 187.1 kb Distal (>10kb) Multiome 829
chr19:1,000,142–1,000,881 202.9 kb Distal (>10kb) Multiome 399
chr19:1,020,611–1,022,069 224.0 kb Distal (>10kb) Multiome 1017
chr19:1,026,155–1,026,856 229.1 kb Distal (>10kb) Multiome 598
chr19:1,027,770–1,028,926 231.1 kb Distal (>10kb) Multiome 584
chr19:1,039,648–1,040,400 242.6 kb Distal (>10kb) Multiome 684
chr19:1,040,481–1,041,402 243.8 kb Distal (>10kb) Multiome 556
chr19:1,044,758–1,045,598 247.9 kb Distal (>10kb) Multiome 402
chr19:1,061,840–1,062,923 265.1 kb Distal (>10kb) Multiome 204
chr19:1,063,045–1,065,722 267.4 kb Distal (>10kb) Multiome 681
chr19:1,066,682–1,067,587 269.8 kb Distal (>10kb) Multiome 489
chr19:1,071,107–1,071,721 273.7 kb Distal (>10kb) Multiome 178
chr19:1,081,317–1,083,172 285.0 kb Distal (>10kb) Multiome 484
chr19:1,094,985–1,095,654 298.0 kb Distal (>10kb) Multiome 671

Genome Browser

Genomic view of the PTBP1 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.

chr19:496,451 – 1,105,654
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq