RXRB
retinoid X receptor beta | H-2RIIBP, NR2B2, RCoR-1, RXR-beta, RXRbeta

This gene encodes a member of the retinoid X receptor (RXR) family of nuclear receptors which are involved in mediating the effects of retinoic acid (RA). The encoded protein forms homodimers with the retinoic acid, thyroid hormone, and vitamin D receptors, increasing both DNA binding and transcriptional function on their respective response elements. This gene lies within the major histocompatibility complex (MHC) class II region on chromosome 6. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jul 2012]

Biological processes 39 terms
DNA binding (GO:0003677)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II transcription regulator complex (GO:0090575)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)cell differentiation (GO:0030154)cellular response to retinoic acid (GO:0071300)chromatin (GO:0000785)chromatin DNA binding (GO:0031490)cytoplasm (GO:0005737)cytosol (GO:0005829)hormone-mediated signaling pathway (GO:0009755)mRNA transcription by RNA polymerase II (GO:0042789)nervous system development (GO:0007399)nuclear receptor activity (GO:0004879)nuclear receptor activity (GO:0004879)nuclear receptor-mediated steroid hormone signaling pathway (GO:0030518)nuclear steroid receptor activity (GO:0003707)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of bone mineralization (GO:0030501)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)regulation of DNA-templated transcription (GO:0006355)retinoic acid receptor signaling pathway (GO:0048384)retinoic acid-responsive element binding (GO:0044323)sequence-specific DNA binding (GO:0043565)sequence-specific double-stranded DNA binding (GO:1990837)transcription cis-regulatory region binding (GO:0000976)zinc ion binding (GO:0008270)
Expression (TPM)
RXRB — as a Regulated Gene

TFs regulating RXRB 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RXRB, 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
chr6:32,952,883–32,953,496 247.4 kb Distal (>10kb) Multiome 366
chr6:32,967,972–32,971,214 231.9 kb Distal (>10kb) Multiome 1227
chr6:32,971,467–32,973,408 228.6 kb Distal (>10kb) Multiome 1115
chr6:33,009,348–33,009,899 191.0 kb Distal (>10kb) Multiome 184
chr6:33,080,635–33,081,087 120.0 kb Distal (>10kb) Multiome 141
chr6:33,161,505–33,162,100 39.0 kb Distal (>10kb) Multiome 589
chr6:33,192,178–33,192,623 8.0 kb Proximal (<10kb) 84
chr6:33,197,559–33,197,971 2.7 kb Proximal (<10kb) 298
chr6:33,199,801–33,201,289 5 bp At TSS Multiome 1049
chr6:33,204,263–33,205,422 4.0 kb Proximal (<10kb) Multiome 762
chr6:33,207,796–33,208,014 7.1 kb Proximal (<10kb) 349
chr6:33,208,069–33,208,990 7.9 kb Proximal (<10kb) Multiome 858
chr6:33,248,132–33,249,983 47.6 kb Distal (>10kb) Multiome 961
chr6:33,271,370–33,272,508 71.3 kb Distal (>10kb) Multiome 1058
chr6:33,276,685–33,277,905 76.8 kb Distal (>10kb) Multiome 807
chr6:33,288,941–33,289,881 88.7 kb Distal (>10kb) Multiome 701
chr6:33,297,445–33,300,232 97.2 kb Distal (>10kb) Multiome 1095
chr6:33,312,436–33,314,207 112.2 kb Distal (>10kb) Multiome 795
chr6:33,317,189–33,318,504 117.3 kb Distal (>10kb) Multiome 649
chr6:33,322,636–33,323,832 122.5 kb Distal (>10kb) Multiome 941
chr6:33,346,609–33,347,126 146.1 kb Distal (>10kb) Multiome 37
chr6:33,390,888–33,392,247 190.9 kb Distal (>10kb) Multiome 993
chr6:33,409,936–33,411,502 209.8 kb Distal (>10kb) Multiome 977
chr6:33,417,606–33,419,249 217.6 kb Distal (>10kb) Multiome 973
chr6:33,419,793–33,420,532 219.5 kb Distal (>10kb) Multiome 162
chr6:33,425,590–33,426,362 225.2 kb Distal (>10kb) Multiome 665
chr6:33,431,024–33,432,096 230.5 kb Distal (>10kb) Multiome 337
chr6:33,454,074–33,454,852 253.8 kb Distal (>10kb) Multiome 906

Genome Browser

Genomic view of the RXRB 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.

chr6:32,942,883 – 33,464,852
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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