Special

MmuEX0013078 @ mm9

Exon Skipping

Gene
ENSMUSG00000034101 | Ctnnd1
Description
catenin (cadherin associated protein), delta 1 [Source:MGI Symbol;Acc:MGI:105100]
Coordinates
chr2:84440230-84443909:-
Coord C1 exon
chr2:84443806-84443909
Coord A exon
chr2:84443345-84443431
Coord C2 exon
chr2:84440230-84443060
Length
87 bp
Sequences
Splice sites
3' ss Seq
CAAATTGCATGTGTTCACAGCAG
3' ss Score
4.63
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
ATAACAACTATTCCACACTGAATGAGAGAGGAGACCACAACAGAACACTGGACCGATCTGGGGATCTGGGTGATATGGAACCATTGAAGGGAGCACCCTTGATG
Seq A exon
CAGGACGAGGGGCAGGAATCTTTGGAGGAAGAGTTGGATGTGTTGGTTTTGGATGATGAGGGGAACCAAGTGTCTTACTCCCCCATG
Seq C2 exon
CAGAAGATTTAGCGCCACTCTACCTGCTCCATATGGGCTTATAATATATTACTTTTATTTTTTGGTGGTGAAATGGACTGATGATTTTTTTCCTTTCTTCGCTGGACTATTGTGCCAACTGCCAGGCTGACTCCTACCCTTGTAGCCCAAATTGGCTGCCGTCATCCGTGAATTACCTACATCTTCCACTGAAGTTTAATTGTCCTATCCTCCCAGACCCTACTTCCAGTTTTCCCCCAAGAAACCTGACTCTGTTATTTGCATATCTTGAGAAACTGCTGCAGATTAGCTCTTTTTGCCAGCCTTCCCTGGAACTCTTGGCCTTGCATAGAGGGAGGGAGAGTGGAACTCTCTACTGGAAGCAATGGGAAGAACTGAAAATTACACACTGTCTGTTCAGCAGTCAGCATTCTGACAAACTGATGACTTTTAATCAAGACTATTTTTTCTGGTGTGGGGGGAACTTTTTATTTTGTTTTGGATGGGGAAGTGTGAGTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034101_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (No Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=1.000 C2=1.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NO

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000107323





     
                   









    
Main Skipping Isoform:
ENSMUSP00000064518





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000107305, ENSMUSP00000107306, ENSMUSP00000107307, ENSMUSP00000107313, ENSMUSP00000107314, ENSMUSP00000107316, ENSMUSP00000107324, ENSMUSP00000107325
          









    
Other Skipping Isoforms:
ENSMUSP00000042543, ENSMUSP00000065252, ENSMUSP00000097524, ENSMUSP00000107299, ENSMUSP00000107304, ENSMUSP00000107315, ENSMUSP00000107317, ENSMUSP00000107318, ENSMUSP00000107319, ENSMUSP00000107320, ENSMUSP00000107321, ENSMUSP00000107322, ENSMUSP00000107326, ENSMUSP00000107327
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr11:57815918-57816001 
ALTERNATIVE
HsaEX0017868
Human
(hg19)
chr11:57583387-57583473 
ALTERNATIVE
HsaEX0017868
(CTNND1)
Rat
(rn6)
chr3:72004303-72004386 
ALTERNATIVE
RnoEX0025202
(Ctnnd1)
Cow
(bosTau6)
chr15:82326513-82326596 
ALTERNATIVE
BtaEX0010331
(CTNND1)
Chicken
(galGal4)
chr5:16245468-16245533 
ALTERNATIVE
GgaEX0010415
(CTNND1)
Chicken
(galGal3)
chr5:18130128-18130193 
ALTERNATIVE
GgaEX0010415
(Q5ZJ21_CHICK)
Zebrafish
(danRer10)
chr1:43523508-43523602 
ALTERNATIVE
DreEX6032657
(ctnnd1)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GGAACCATTGAAGGGAGCACC

				
R: 
ACAAGGGTAGGAGTCAGCCTG

				
Band lengths: 
171-258

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 1 annotated functions for this event 


PMID: 10393933
HsaEX0017868
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: competition binding, mutation analysis. ELM ID: ELMI000915; ELM sequence: ESLEEELDVLVLDDE; Overlap: FULL


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"