Interaction ID
ncRI-40050664
Interaction Molecules
RP11-2B6.3 -- SFRS1
Interaction Level
RNA-Protein
Interaction Class
binding
Data Source
High-throughput data
Tags
Organism
Homo sapiens
Tissue or Cell Type
K562;HEK293T;HepG2
Experiment
eCLIP;CLIP-Seq
Description
Cross-linking immunoprecipitation and high-throughput sequencing (CLIP-seq) identified binding sites for SFRS1 in the transcriptome of cultured human embryonic kidney cells. SFRS1 was found to engage many different classes of functionally distinct transcripts including mRNA, miRNA, snoRNAs, ncRNAs, and conserved intergenic transcripts of unknown function.
Alias
SRSF1
Class
protein
UniProt id
Description
Plays a role in preventing exon skipping, ensuring the accuracy of splicing and regulating alternative splicing. Interacts with other spliceosomal components, via the RS domains, to form a bridge between the 5'- and 3'-splice site binding components, U1 snRNP and U2AF. Can stimulate binding of U1 snRNP to a 5'-splice site-containing pre-mRNA. Binds to purine-rich RNA sequences, either the octamer, 5'-RGAAGAAC-3' (r=A or G) or the decamers, AGGACAGAGC/AGGACGAAGC. Binds preferentially to the 5'-CG
| Pubmed ID | 19116412 | Journal | Genome research |
|---|---|---|---|
| Title | Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts. | ||
| Author | Sanford JR, Wang X, Mort M, Vanduyn N, Cooper DN, Mooney SD, Edenberg HJ, Liu Y | ||
| Pubmed ID | 22955616 | Journal | Nature |
|---|---|---|---|
| Title | An integrated encyclopedia of DNA elements in the human genome. | ||
| Author | |||
| Binding Site ID | Location | Conservation Score |
|---|---|---|
| 9765969 | chr9:96928592-96928642 | 0.023600 |
| 9765971 | chr9:96928596-96928644 | 0.024688 |
| 9766130 | chr9:96929395-96929438 | 0.292674 |
| 9766196 | chr9:96931005-96931018 | 0.011769 |
| 9766335 | chr9:96938138-96938243 | 0.266171 |
| 9766336 | chr9:96938142-96938206 | 0.152891 |
| 9766369 | chr9:96938219-96938238 | 0.484895 |
| 9766619 | chr9:96939178-96939228 | 0.002080 |
| 9766625 | chr9:96939185-96939231 | 0.003630 |
| 9766925 | chr9:96941466-96941519 | 0.004208 |
| Molecule | Disease | Data Source |
|---|---|---|
| RP11-2B6.3 | Carcinoma, Non-Small-Cell Lung | MNDR Database |
| RP11-2B6.3 | lymphoma | MNDR Database |
| RP11-2B6.3 | malignant glioma | MNDR Database |
| RP11-2B6.3 | stomach cancer | MNDR Database |
| RP11-2B6.3 | thyroid cancer | MNDR Database |
| RP11-2B6.3 | Urinary Bladder Neoplasms | MNDR Database |
| RP11-2B6.3 | Uterine Cervical Neoplasms | MNDR Database |