RnoEX0076795 @ rn6
Exon Skipping
Gene
ENSRNOG00000053405 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:RGD Symbol;Acc:1303036]
Coordinates
chr7:139173430-139175991:-
Coord C1 exon
chr7:139175921-139175991
Coord A exon
chr7:139175713-139175811
Coord C2 exon
chr7:139173430-139173650
Length
99 bp
Sequences
Splice sites
3' ss Seq
TTTTCAATTTTGTTTTCAAGGAA
3' ss Score
9.45
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
ATTTCGAAACTGTTTTACTTCTGGAACCTGGAAATAAACAGGCAGTGACCGAGCTTTCCAGAATTAAAAAG
Seq A exon
GAATTAATTGAGAAAGGACGCTGGGATGATGTCTTTCTTGACTCCACACAGAGGCACAATGTGGTAAAGCCTGTAGACAGTCCTCATCGGGGGTCACCT
Seq C2 exon
AAAGCACTCAAGAAGGTTTTTATTGAAGAAACTGGCAATTTGATAGAGTCTGTCGATGCACCAGAGAGCTCTGCCACCGTCCCCGAGAGTGACCGAGCAGCAGTGGCTGTGGACACTGGACGCAAGAAGGATTTCAGCCAGGGCGACTCTGTGTCCTCAGGGGAGACACCAAGAGCTAAAGTGTTGAAAATAGAAGCAGTCGGCGACTCGTCAGCCCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053405-'22-23,'22-21,24-23
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.364 C2=0.642
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAAACAGGCAGTGACCGAGC
R:
GCCCTGGCTGAAATCCTTCTT
Band lengths:
182-281
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]