This gene encodes a member of the cellular heterogeneous nuclear ribonucleoprotein (hnRNP) family. hnRNPs are RNA binding proteins that complex with heterogeneous nuclear RNA (hnRNA) and regulate alternative splicing, polyadenylation, and other aspects of mRNA metabolism and transport. The encoded protein plays a role in multiple aspects of mRNA maturation and is associated with several multiprotein complexes including the apoB RNA editing-complex and survival of motor neurons (SMN) complex. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the short arm of chromosome 20. [provided by RefSeq, Dec 2011]
Transcription factors with Perturb-seq knockdown data for SYNCRIP. 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 = SYNCRIP 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 SYNCRIP, 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 |
|---|---|---|---|---|
| chr6:85,449,270–85,450,999 | 192.9 kb | Distal (>10kb) Multiome | 777 | |
| chr6:85,592,894–85,594,816 | 49.1 kb | Distal (>10kb) Multiome | 1023 | |
| chr6:85,641,813–85,644,323 | 517 bp | At TSS Multiome | 1160 | |
| chr6:85,644,944–85,645,801 | 2.4 kb | Proximal (<10kb) Multiome | 220 | |
| chr6:85,669,340–85,674,412 | 27.0 kb | Distal (>10kb) Multiome HiCAR | 586 | |
| chr6:85,677,372–85,679,519 | 35.9 kb | Distal (>10kb) Multiome | 1177 | |
| chr6:85,899,026–85,900,144 | 256.5 kb | Distal (>10kb) Multiome | 210 |
Genomic view of the SYNCRIP 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.