GgaEX6001105 @ galGal4
Exon Skipping
Gene
ENSGALG00000009743 | RPAP3
Description
RNA polymerase II-associated protein 3 [Source:RefSeq peptide;Acc:NP_001006231]
Coordinates
chr1:31374142-31376557:-
Coord C1 exon
chr1:31376487-31376557
Coord A exon
chr1:31376226-31376342
Coord C2 exon
chr1:31374142-31374353
Length
117 bp
Sequences
Splice sites
3' ss Seq
TTTTGTTTGTTTTTTTCCAGGAG
3' ss Score
11.18
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
Exon sequences
Seq C1 exon
ATTTTGAAGCTGTTTTGAAGCTGGAACCTGGAAATAAACAAGCAATAAATGAGCTCACTAAAATAAGGAAT
Seq A exon
GAGTTAGCTGAGAAGGAACAGTCATGTCATGAAGAATATCCTGCAGTATTGATAAAAGAATCCGAAATAAAAAATATAGTGAAACTTACTCATAATCCATTAAACCTGAAATCAACA
Seq C2 exon
AAGCCTTTGCGAAGAATAGCCGTTGAAGAAGTTGATGATGACGTGCTGAATAGTGATTTCTCCAGCTCTACTTCTTTAGTTAATAACTGGAAGAACTCAGTGAATATTGTAACAACAGAGAATTTAGATCAGGATGATCAGTTAACTTCAATGGATATTCCAAAAGCAAAGCAATTGAAAATTGAAGAAATCACTGATGTGTCGTCACCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009743-'14-21,'14-20,15-21=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=0.026 C2=0.176
Domain overlap (PFAM):
C1:
PF0051523=TPR_1=PD(32.4=45.8)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTTTTGAAGCTGGAACCTG
R:
TTTTCAATTGCTTTGCTTTTGGAA
Band lengths:
244-361
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]