DreEX0024876 @ danRer10
Exon Skipping
Gene
ENSDARG00000078233 | ctnnd1
Description
catenin (cadherin-associated protein), delta 1 [Source:ZFIN;Acc:ZDB-GENE-110208-9]
Coordinates
chr1:43513704-43515260:+
Coord C1 exon
chr1:43513704-43513857
Coord A exon
chr1:43514274-43514291
Coord C2 exon
chr1:43515195-43515260
Length
18 bp
Sequences
Splice sites
3' ss Seq
ATCTTTTTATCCTGTAACAGACG
3' ss Score
7.28
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
Exon sequences
Seq C1 exon
CTGATCGAGAACAGCGTGTGTCTGCTGAGGAATCTGTCCTATCAGGTGCATCGGGAGATCCCTGGCTGCGAGCGCTATCTGGAGTCCATTCCTGTCAATCAAGGCCCCCTCCCGTCCCAAAAGGGCGGCTGCTTCAGCTCCCGAAAGGGCAAAG
Seq A exon
ACGAGTGGTTTTCCAAAG
Seq C2 exon
GAAAACGAGAGGATGATGGGACTTCAGACACGATTGACATTCCAAAGAGAACCACACCAGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078233_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=0.571 C2=0.652
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0051418=Arm=PU(2.5=4.3)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCTATCTGGAGTCCATTCC
R:
CGTGTCTGAAGTCCCATCATCC
Band lengths:
115-133
Functional annotations
There are 1 annotated functions for this event
PMID: 32423416
The authors hypothesized that AltTEM regulation was responsible for a protein localization change in the Ctnnd1 protein (aka p120). Validation experiments using Western blot analysis of p120 in nuclear/cytoplasmic fractions for both cell types confirmed the increase of nuclear levels of the protein in OPCs in comparison to NPCs, where a cytoplasmic retention of p120 was observed. Higher inclusion, higher nuclear localization.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]