RnoEX0025204 @ rn6
Exon Skipping
Gene
ENSRNOG00000030790 | Ctnnd1
Description
catenin delta 1 [Source:RGD Symbol;Acc:1305643]
Coordinates
chr3:72013117-72014569:-
Coord C1 exon
chr3:72014416-72014569
Coord A exon
chr3:72013630-72013647
Coord C2 exon
chr3:72013117-72013185
Length
18 bp
Sequences
Splice sites
3' ss Seq
CCTTGGTGATGCACTGGAAGATG
3' ss Score
-0.57
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
Exon sequences
Seq C1 exon
CTTGTGGAGAATTGTGTTTGCCTCCTTCGGAACTTATCATATCAAGTTCATCGTGAAATCCCACAGGCAGAGCGTTACCAGGAGGCACTTCCTAGTGTGGCTAACAGTACTGGGCCACATGCTGCCAGTTGCTTTGGGGCCAAGAAGGGCAAAG
Seq A exon
ATGAGTGGTTCTCTAGAG
Seq C2 exon
GGAAAAAGCCTACCGAGGATCCAGCAAATGATACAGTGGATTTCCCTAAAAGAACTAGTCCTGCTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030790_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.258 A=0.571 C2=0.708
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0051418=Arm=PU(2.5=4.2)
Main Inclusion Isoform:
ENSRNOT00000081400fB3710
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACATGCTGCCAGTTGCTTTG
R:
CCCGAGCAGGACTAGTTCTTT
Band lengths:
108-126
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]