Special

MmuEX0013079 @ mm10

Exon Skipping

Gene
ENSMUSG00000034101 | Ctnnd1
Description
catenin (cadherin associated protein), delta 1 [Source:MGI Symbol;Acc:MGI:105100]
Coordinates
chr2:84612024-84613089:-
Coord C1 exon
chr2:84612936-84613089
Coord A exon
chr2:84612532-84612549
Coord C2 exon
chr2:84612024-84612092
Length
18 bp
Sequences
Splice sites
3' ss Seq
CCTTGGTGATGCACTGGAAGATG
3' ss Score
-0.57
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
Exon sequences
Seq C1 exon
CTTGTGGAGAATTGTGTTTGCCTCCTCCGGAACTTATCATACCAAGTTCATCGTGAAATCCCACAGGCAGAGCGTTACCAGGAGGCCCTTCCTACTGTGGCTAACAGTACTGGGCCACACGCTGCCAGTTGCTTTGGAGCCAAGAAGGGCAAAG
Seq A exon
ATGAGTGGTTCTCCAGAG
Seq C2 exon
GGAAAAAGCCTACAGAGGATCCAGCAAATGATACAGTGGATTTCCCTAAAAGAACTAGTCCTGCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034101_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.229 A=0.571 C2=0.708
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
PF0051418=Arm=PU(2.5=4.2)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000107323





     
                   









    
Main Skipping Isoform:
ENSMUSP00000107324





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000042543, ENSMUSP00000064518, ENSMUSP00000097524, ENSMUSP00000107307, ENSMUSP00000107313, ENSMUSP00000107314, ENSMUSP00000107318, ENSMUSP00000107320, ENSMUSP00000107326, ENSMUSP00000141166
          









    
Other Skipping Isoforms:
ENSMUSP00000065252, ENSMUSP00000107299, ENSMUSP00000107304, ENSMUSP00000107305, ENSMUSP00000107306, ENSMUSP00000107315, ENSMUSP00000107316, ENSMUSP00000107317, ENSMUSP00000107319, ENSMUSP00000107321, ENSMUSP00000107322, ENSMUSP00000107325, ENSMUSP00000107327
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr11:57806461-57806478 
ALTERNATIVE
HsaEX0017872
Human
(hg19)
chr11:57573933-57573950 
ALTERNATIVE
HsaEX0017872
(CTNND1)
Rat
(rn6)
chr3:72013630-72013647 
ALTERNATIVE
RnoEX0025204
(Ctnnd1)
Cow
(bosTau6)
chr15:82319170-82319187 
ALTERNATIVE
BtaEX0010330
(CTNND1)
Chicken
(galGal4)
chr5:16249521-16249538 
ALTERNATIVE
GgaEX0010414
(CTNND1)
Chicken
(galGal3)
chr5:18134181-18134198 
ALTERNATIVE
GgaEX0010414
(Q5ZJ21_CHICK)
Zebrafish
(danRer10)
chr1:43514274-43514291 
ALTERNATIVE
DreEX0024876
(ctnnd1)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGGCAGAGCGTTACCAGGAG

				
R: 
TGCTGGATCCTCTGTAGGCTT

				
Band lengths: 
116-134

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 1 annotated functions for this event 


PMID: 32423416
This event
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]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types





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