POLR2E
RNA polymerase II, I and III subunit E | RPABC1, RPB5, XAP4, hRPB25, hsRPB5

This gene encodes the fifth largest subunit of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA in eukaryotes. This subunit is shared by the other two DNA-directed RNA polymerases and is present in two-fold molar excess over the other polymerase subunits. An interaction between this subunit and a hepatitis virus transactivating protein has been demonstrated, suggesting that interaction between transcriptional activators and the polymerase can occur through this subunit. A pseudogene is located on chromosome 11. Three transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Oct 2015]

Member of: DE-1 Developmental clusters: GC1
Biological processes 34 terms
DNA binding (GO:0003677)DNA-directed RNA polymerase activity (GO:0003899)DNA-directed RNA polymerase activity (GO:0003899)DNA-directed RNA polymerase activity (GO:0003899)DNA-templated transcription (GO:0006351)RNA polymerase I complex (GO:0005736)RNA polymerase I complex (GO:0005736)RNA polymerase II, core complex (GO:0005665)RNA polymerase II, core complex (GO:0005665)RNA polymerase II, core complex (GO:0005665)RNA polymerase III complex (GO:0005666)RNA polymerase III complex (GO:0005666)cytosol (GO:0005829)nucleolar large rRNA transcription by RNA polymerase I (GO:0042790)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)protein stabilization (GO:0050821)tRNA transcription by RNA polymerase III (GO:0042797)termination of RNA polymerase I transcription (GO:0006363)termination of RNA polymerase III transcription (GO:0006386)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase III (GO:0006383)transcription elongation by RNA polymerase I (GO:0006362)transcription elongation by RNA polymerase I (GO:0006362)transcription elongation by RNA polymerase II (GO:0006368)transcription initiation at RNA polymerase I promoter (GO:0006361)transcription initiation at RNA polymerase II promoter (GO:0006367)transcription initiation at RNA polymerase III promoter (GO:0006384)
Expression (TPM)
POLR2E — as a Regulated Gene

TFs regulating POLR2E 0 TFs

Transcription factors with Perturb-seq knockdown data for POLR2E. 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 = POLR2E 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 POLR2E

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of POLR2E, 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
chr19:796,668–798,362 298.1 kb Distal (>10kb) Multiome 956
chr19:821,294–822,728 273.2 kb Distal (>10kb) Multiome 254
chr19:861,664–863,223 233.1 kb Distal (>10kb) Multiome 530
chr19:892,703–893,746 202.2 kb Distal (>10kb) Multiome 715
chr19:917,038–918,169 177.5 kb Distal (>10kb) Multiome 711
chr19:924,743–926,242 169.7 kb Distal (>10kb) Multiome 796
chr19:927,058–927,629 168.0 kb Distal (>10kb) Multiome 362
chr19:982,565–983,215 112.5 kb Distal (>10kb) Multiome 590
chr19:984,046–985,154 110.9 kb Distal (>10kb) Multiome 829
chr19:1,000,142–1,000,881 95.0 kb Distal (>10kb) Multiome 399
chr19:1,020,611–1,022,069 74.0 kb Distal (>10kb) Multiome 1017
chr19:1,026,155–1,026,856 68.9 kb Distal (>10kb) Multiome 598
chr19:1,027,770–1,028,926 66.8 kb Distal (>10kb) Multiome 584
chr19:1,039,648–1,040,400 55.4 kb Distal (>10kb) Multiome 684
chr19:1,040,481–1,041,402 54.2 kb Distal (>10kb) Multiome 556
chr19:1,044,758–1,045,598 50.0 kb Distal (>10kb) Multiome 402
chr19:1,061,840–1,062,923 32.8 kb Distal (>10kb) Multiome 204
chr19:1,063,045–1,065,722 30.5 kb Distal (>10kb) Multiome 681
chr19:1,066,682–1,067,587 28.1 kb Distal (>10kb) Multiome 489
chr19:1,071,107–1,071,721 24.2 kb Distal (>10kb) Multiome 178
chr19:1,081,317–1,083,172 12.9 kb Distal (>10kb) Multiome 484
chr19:1,094,985–1,095,654 87 bp At TSS Multiome 671
chr19:1,101,840–1,102,266 6.5 kb Proximal (<10kb) 571
chr19:1,103,487–1,105,654 8.6 kb Proximal (<10kb) Multiome 849
chr19:1,112,029–1,112,884 16.9 kb Distal (>10kb) Multiome 294
chr19:1,113,014–1,114,139 18.2 kb Distal (>10kb) Multiome 690
chr19:1,122,934–1,123,720 27.9 kb Distal (>10kb) Multiome 231
chr19:1,173,441–1,174,438 78.9 kb Distal (>10kb) Multiome 682
chr19:1,194,370–1,194,985 99.3 kb Distal (>10kb) Multiome 531
chr19:1,205,175–1,206,374 110.2 kb Distal (>10kb) Multiome HiCAR 746
chr19:1,237,080–1,238,434 142.7 kb Distal (>10kb) Multiome 430
chr19:1,239,513–1,242,539 146.4 kb Distal (>10kb) Multiome 889
chr19:1,244,253–1,244,857 149.2 kb Distal (>10kb) Multiome 590
chr19:1,247,981–1,252,501 155.7 kb Distal (>10kb) Multiome 1136
chr19:1,259,185–1,262,955 164.0 kb Distal (>10kb) Multiome 1070
chr19:1,265,280–1,270,235 173.9 kb Distal (>10kb) Multiome 1171
chr19:1,274,423–1,276,502 180.4 kb Distal (>10kb) Multiome 967
chr19:1,285,317–1,286,108 190.4 kb Distal (>10kb) Multiome 277
chr19:1,354,303–1,355,411 259.5 kb Distal (>10kb) Multiome 688
chr19:1,383,122–1,384,333 288.3 kb Distal (>10kb) Multiome 1228

Genome Browser

Genomic view of the POLR2E 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.

chr19:786,668 – 1,394,333
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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