Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a member of the L13P family of ribosomal proteins that is a component of the 60S subunit. The encoded protein also plays a role in the repression of inflammatory genes as a component of the IFN-gamma-activated inhibitor of translation (GAIT) complex. This gene is co-transcribed with the small nucleolar RNA genes U32, U33, U34, and U35, which are located in the second, fourth, fifth, and sixth introns, respectively. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed throughout the genome. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jul 2012]
Transcription factors with Perturb-seq knockdown data for RPL13A. 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 = RPL13A upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RPL13A, 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 |
|---|---|---|---|---|
| chr19:49,210,032–49,211,225 | 277.0 kb | Distal (>10kb) Multiome | 366 | |
| chr19:49,337,997–49,340,482 | 148.4 kb | Distal (>10kb) Multiome | 612 | |
| chr19:49,361,283–49,362,837 | 126.0 kb | Distal (>10kb) Multiome | 553 | |
| chr19:49,362,970–49,364,306 | 123.9 kb | Distal (>10kb) Multiome | 616 | |
| chr19:49,403,611–49,404,247 | 83.7 kb | Distal (>10kb) Multiome | 305 | |
| chr19:49,432,343–49,432,785 | 55.1 kb | Distal (>10kb) Multiome | 103 | |
| chr19:49,436,149–49,436,821 | 51.1 kb | Distal (>10kb) Multiome | 248 | |
| chr19:49,441,067–49,441,861 | 46.1 kb | Distal (>10kb) Multiome | 223 | |
| chr19:49,442,072–49,444,054 | 44.7 kb | Distal (>10kb) Multiome | 914 | |
| chr19:49,451,347–49,452,239 | 35.8 kb | Distal (>10kb) Multiome | 764 | |
| chr19:49,452,723–49,453,850 | 34.2 kb | Distal (>10kb) Multiome | 847 | |
| chr19:49,476,063–49,476,551 | 11.2 kb | Distal (>10kb) Multiome | 244 | |
| chr19:49,478,796–49,479,090 | 8.5 kb | Proximal (<10kb) | 510 | |
| chr19:49,487,027–49,488,279 | 172 bp | At TSS Multiome | 964 | |
| chr19:49,495,613–49,496,661 | 8.6 kb | Proximal (<10kb) Multiome | 919 | |
| chr19:49,497,318–49,497,509 | 9.7 kb | Proximal (<10kb) | 277 | |
| chr19:49,500,403–49,501,353 | 13.1 kb | Distal (>10kb) Multiome | 405 | |
| chr19:49,512,565–49,513,700 | 25.5 kb | Distal (>10kb) Multiome | 655 | |
| chr19:49,527,651–49,528,221 | 40.3 kb | Distal (>10kb) Multiome | 354 | |
| chr19:49,533,232–49,534,476 | 46.4 kb | Distal (>10kb) Multiome | 534 | |
| chr19:49,555,629–49,557,180 | 68.6 kb | Distal (>10kb) Multiome | 294 | |
| chr19:49,580,125–49,580,813 | 93.0 kb | Distal (>10kb) Multiome | 848 | |
| chr19:49,589,601–49,594,008 | 105.9 kb | Distal (>10kb) Multiome | 994 | |
| chr19:49,638,063–49,638,728 | 150.7 kb | Distal (>10kb) Multiome | 237 | |
| chr19:49,639,671–49,642,787 | 152.8 kb | Distal (>10kb) Multiome | 1067 | |
| chr19:49,664,165–49,665,096 | 176.9 kb | Distal (>10kb) Multiome | 679 | |
| chr19:49,665,345–49,666,430 | 178.3 kb | Distal (>10kb) Multiome | 721 | |
| chr19:49,672,105–49,672,787 | 184.8 kb | Distal (>10kb) Multiome | 625 | |
| chr19:49,676,058–49,678,754 | 189.3 kb | Distal (>10kb) Multiome | 1033 | |
| chr19:49,680,433–49,681,147 | 193.2 kb | Distal (>10kb) Multiome | 435 | |
| chr19:49,690,485–49,691,761 | 203.5 kb | Distal (>10kb) Multiome | 327 | |
| chr19:49,746,188–49,746,748 | 258.9 kb | Distal (>10kb) Multiome | 283 | |
| chr19:49,766,231–49,767,440 | 279.1 kb | Distal (>10kb) Multiome | 718 |
Genomic view of the RPL13A 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.