BtaEX6021172 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000018690 | RPAP3
Description
Bos taurus RNA polymerase II associated protein 3 (RPAP3), mRNA. [Source:RefSeq mRNA;Acc:NM_001101930]
Coordinates
chr5:32785911-32791290:+
Coord C1 exon
chr5:32785911-32785981
Coord A exon
chr5:32786101-32786202
Coord C2 exon
chr5:32791052-32791290
Length
102 bp
Sequences
Splice sites
3' ss Seq
ATTACAAATTTATTTTCAAGGAA
3' ss Score
6.87
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
ATTTTGAAACTGTTTTACTTTTGGAGCCTGGAAATAAACAGGCAGTAACTGAACTTTCCAAAATTAAAAAG
Seq A exon
GAATTAATTGAGAAAGGACACTGGGATGATGTCTTTCTTGATTCTACTCAAAGGCAAAATGTGATAAAACCCATTGATAATCTGCCTCATCTTGGATCAACT
Seq C2 exon
AAGCCACTCAAGAAGGTTATTATTGAAGAAACTGGTAATTTGATACAGACTGTTGATGTGCGGGATAGCACTGCTACTGTGGCTGCTGCAGAGTGTAATCCAGTTACCCTGGCGAGTGTAACAGCGACCACAGGCATGACAAATAAGAACACGAGCCAAGATGACCTTTTGCCCACAAGTGATGTCCCAAAAGCCAAAGTATTGAAAATAGAAGAAATTAGTGATACTTCAGCTCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018690-'13-15,'13-14,14-15=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.088 C2=0.250
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:
ACTGTTTTACTTTTGGAGCCTGGA
R:
GGGACATCACTTGTGGGCAAA
Band lengths:
251-353
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]