MmuEX0040340 @ mm9
Exon Skipping
Gene
ENSMUSG00000022466 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:MGI Symbol;Acc:MGI:1277218]
Coordinates
chr15:97512050-97514534:-
Coord C1 exon
chr15:97514464-97514534
Coord A exon
chr15:97514258-97514356
Coord C2 exon
chr15:97512050-97512270
Length
99 bp
Sequences
Splice sites
3' ss Seq
GTTTCAAATTTCTTTTCAAGGAA
3' ss Score
8.47
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
ACTTTGAGACTGTTTTACTTCTGGAACCTGGAAATAAGCAAGCGGCGACCGAGCTTTCCAGAATCAAAAAG
Seq A exon
GAACTAATAGAGAAAGGCCACTGGGATGATGTCTTCCTTGACTCCACACAGAGACACCATGTGGTGAAAGCTGTGGATAATCCTCCTCGGGGCTCCCCT
Seq C2 exon
AAAGCACTCAAGAAGGTTTTTATTGAAGAAACTGGCAATTTGATAGAGACTGTTGATGCACCAGATAGTTCTGCCACTGTCCCTGAGAGTGATCGAGCAACGGCAGCTGTGGGCACTGGAACCAAGAAGAATCCAAGCGAGGGCGTCTCTCTGCCTGCAGGGGATAGGCCAAGAGCTAAAGTGTTGAAAATAGAAGCAGTCAGTGACACTTCAGCCCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022466-'13-15,'13-14,14-15
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=0.394 C2=0.743
Domain overlap (PFAM):
C1:
PF0051523=TPR_1=PD(32.4=45.8)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACCGAGCTTTCCAGAATCA
R:
GCCCTCGCTTGGATTCTTCTT
Band lengths:
170-269
Functional annotations
There are 1 annotated functions for this event
PMID: 23159623
The exon is required for the protein's interaction with PIH1D1, which protects the cell against apoptosis. Knockdown of the isoform containing the exon down-regulates PIH1D1 protein level, without affecting mRNA level, suggesting the inclusion isoform stabilizes the R2AP3 protein complex (involved in cell survival) of which they both belong, whereas the skipping isoform has a dominant negative effect on the R2TP complex.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: