Table 1.
Putative trans-factors of FAS-ISSs identified through affinity purification.
| Associated Proteins |
|||
|---|---|---|---|
| ISS Group |
Representative ISS k-mer |
Putative splicing factors (protein motifs)1 |
Other RNA binding proteins |
| A | CTCCTC | hnRNP I/PTB2 (4 RRM + Ala-rich) | |
| B | TACAGCT | Nono (2 RRM) | La protein |
| YB-1 (CSD) | |||
| hnRNP I/PTB (4 RRM + Ala-rich) | |||
| C | CTTCAG | SFPQ (2 RRM + Gln/Glu/Pro-rich) | Nucleolin |
| hnRNP UL1 (Gly-rich + Pro-rich) | |||
| hnRNP H1 (3 RRM + Gly-rich) | |||
| hnRNP A1 (2 RRM + Gly-rich) | |||
| hnRNP A2/B1 (2 RRM + Gly-rich) | |||
| D | GAACAG | GRSF-1 (3 RRM + Ala-rich) | CSDE1 |
| hnRNP F (3 RRM) | |||
| SFRS1 (2 RRM + Gly-rich) | |||
| RBM45/CELF-3 homolog (3 RRM) | |||
| E | CAAAGGA | SFRS1 (2 RRM + Gly-rich) | several U1 snRNP core proteins (e.g., U1-70k, U1 snRNP protein A and C, SmD1, SmD2) |
| hnRNP Q (3 RRM) | |||
| hnRNP A1 (2 RRM + Gly-rich) | |||
| hnRNP A2/B1 (2 RRM + Gly-rich) | |||
| hnRNP H1 (3 RRM + Gly-rich) | |||
| hnRNP F (3 RRM) | |||
| FUS | |||
| F | AGATATT | KHSRP (4 KH + Gly-rich) | La protein |
| DAZAP1 (2 RRM + Pro-rich) | |||
| hnRNP D0 (2 RRM + Gly-rich) | |||
| hnRNP A0 (2 RRM + Gly-rich) | |||
| hnRNP A1 (2 RRM + Gly-rich) | |||
| hnRNP A2/B1 (2 RRM + Gly-rich) | |||
| hnRNP A3 (2 RRM + Gly-rich) | |||
| CIRBP (1 RRM + Gly-rich) | |||
| G3BP-1 (1 RRM + Gly-rich) | |||
| G3BP-2 (1 RRM + Gly-rich) | |||
| G | ACATGA | G3BP1 (1 RRM + Gly-rich) | GTF2I |
| hnRNP L (3 RRM + Gly-rich + Pro-rich) | |||
| H | AATTTA | DAZAP1 (2 RRM + Pro-rich) | La protein |
| hnRNP A0 (2 RRM + Gly-rich) | |||
| hnRNP D0 (2 RRM + Gly-rich) | |||
| hnRNP DL (2 RRM + Gly-rich) | |||
| hnRNP A1 (2 RRM + Gly-rich) | |||
| hnRNP A2/B1 (2 RRM + Gly-rich) | |||
| hnRNP A3 (2 RRM + Gly-rich) | |||
| I | AGTAGG | DAZAP1 (2 RRM + Pro-rich) | DHX36 |
| hnRNP A1 (2 RRM + Gly-rich) | |||
| hnRNP A2/B1 (2 RRM + Gly-rich) | |||
| hnRNP A3 (2 RRM + Gly-rich) | |||
| hnRNP H1 (3 RRM + Gly-rich) | |||
| hnRNP D0 (2 RRM + Gly-rich) | |||
| hnRNP DL (2 RRM + Gly-rich) | |||
| FUS | |||
| U | CACACCA | hnRNP L (3 RRM + Gly-rich + Pro-rich) | IGF mRNA binding proteins I, II |
| YB-1 (CSD) | |||
1
Characteristic RNA binding or splicing regulatory protein motifs are indicated (RRM: RNA Recognition Motif; CSD: Cold shock domain; Gly-rich: Glycine rich motif; etc.).
2
Based on the literature rather than affinity purification/mass spec.