PRDM1

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PR domain containing 1, with ZNF domain
PRDM1

PDB ID : 3DAL
PDB3DAL
HGNC(alias)PRDM1 (BLIMP1,PRDI-BF1)
Gene CardPRDM1
Entrez639
RefSeqNM_001198
UniProtO75626
UCSCBrowser view
WikipediaPRDM1
Protein Familybeta-beta-alpha zinc fingers
TypePol II TF
Ensembl Exp.n/a

Function

PRDM1 (positive regulatory domain I-binding factor 1) is a protein that represses beta-interferon gene expression, and drives the maturation of B-lymphocytes into Ig secreting cells. It binds specifically to the PRDI (positive regulatory domain I element) of the beta-interferon gene promoter. Transcription of PRDM1 increases upon virus induction. It has two known alternatively spliced transcript variants that encode different isoforms.

ENCODE ChIP-seq Datasets

Indicated in the matrix are the numbers of datasets specified by lab and cell line; when the number is greater than 1, multiple ChIP-seq experiments have been performed, some upon treatments. Click the numbers to download the data files on ChIP-seq peaks, alignments, etc.

+/-
Stanford
HeLa-S3 1


Average Profiles of Modified Histones around the Summit of ChIP-seq Peaks

Average histone modification profiles are shown for the [-2 kb, +2 kb] window around the summits of TF ChIP-seq peaks, separately for peaks that are proximal ([-1kb, +1kb]) to an annotated transcript (dashed lines) start sites and for peaks that are distal (more than 1kb) to all annotated transcripts (solid lines) start sites. Proximal profiles are arranged such that the transcriptional direction of the nearest transcript is toward the right. Histone modification data were generated by the Broad team, using antibodies to pull down modified histones followed by deep sequencing of the genomic DNA associated with the modified histones. Only histone modification data from the same cell line as the TF ChIP-seq data are shown.

Mouse over a curve to reveal its identity. Mouse over a histone modification in the legend to show its curves and gray out other histone modifications in the figures. Click a histone modification in the legend to toggle on/off its curve in all figures. Click the “Proximal” or “Distal” button in the legend to show only the average histone modification profiles anchored around ChIP-seq peaks that are proximal or distal to annotated transcripts.

Average Profiles of Nucleosomes around the Summit of ChIP-seq Peaks

No Available Data

Motifs Enriched in the Top 500 ChIP-seq Peaks

The sequences of the top 500 TF ChIP-seq peaks were used to identify enriched motifs de novo, using the MEME-ChIP suite of tools. Five motifs are reported (M1 to M5), with motif name, sequence logo, and number of peaks out of the top 500 peaks that contain a site for the motif. The motifs are then used to scan the entire set of ChIP-seq peaks and the two flanking (control) regions using the FIMO tool, and two quantities are reported for bins of peaks sorted by their ChIP-seq q-values: percentage of the peaks that contain a site for the motif, and the distribution of the distances of the motif site to the summit of the peak.

Select MotifCell Line:   Lab:   Protocol:   Treatment:   Antibody:  

Cell Line:HeLa-S3   Lab:Stanford   Protocol:IgG-rab   Treatment:None   Antibody:PRDM1_(9115)   

Binding of Other Transcription Factors or Histone Marks at the PRDM1 Peaks

Select HeatmapLab:   Cellline:  

  • Comparison with the PRDM1 peaks in HELAS3 cells generated by SYDH