Special

MmuEX0041371 @ mm9

Exon Skipping

Gene
ENSMUSG00000026927 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:MGI Symbol;Acc:MGI:1915362]
Coordinates
chr2:26240603-26241583:-
Coord C1 exon
chr2:26241510-26241583
Coord A exon
chr2:26241018-26241129
Coord C2 exon
chr2:26240603-26240665
Length
112 bp
Sequences
Splice sites
3' ss Seq
TCAGTTTTTCCTCTACTGAGGGT
3' ss Score
-7.2
5' ss Seq
ACCGTACGG
5' ss Score
4.64
Exon sequences
Seq C1 exon
CTGAAAGATGAAAACTCTAAGCTCAGAAGAAAGCTAAATGAGGTTCAGAGCTTCTCTGAAACTCAAACAGAAAT
Seq A exon
GGTGAGGACACTCGAACGGAAGTTGGAGGCGAAGATGATCAAGGAGGAGAGTGACTTCCATGACCTCGAGTCAGTAGTCCAGCAAGTCGAACAGAACCTTGAACTGATGACC
Seq C2 exon
AAACGGGCTGTAAAAGCAGAAAATCATGTCTTGAAGCTGAAACAGGAAATAAATTTGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026927-'10-9,'10-7,12-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





Show structural model

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.480 A=0.263 C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0076914=ERM=FE(13.3=100),PF0026115=Tropomyosin=FE(12.9=100),PF131661=AAA_13=FE(20.0=100),PF138631=DUF4200=FE(23.3=100),PF052669=DUF724=PU(21.0=84.0)

							
A:
PF0076914=ERM=FE(20.6=100),PF0026115=Tropomyosin=FE(19.9=100),PF131661=AAA_13=FE(30.8=100),PF138631=DUF4200=FE(35.9=100),PF052669=DUF724=FE(37.0=100)

							
C2:
PF0076914=ERM=FE(11.1=100),PF0026115=Tropomyosin=FE(10.8=100),PF131661=AAA_13=FE(16.7=100),PF138631=DUF4200=FE(19.4=100),PF052669=DUF724=FE(20.0=100)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000109737





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000028293, ENSMUSP00000050043, ENSMUSP00000077133, ENSMUSP00000109735
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:139299570-139299654 
ALTERNATIVE
HsaEX0056719
(SDCCAG3)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:103912908-103913019 
HIGH PSI
BtaEX6047184
(SDCCAG3)
Chicken
(galGal4)
chr17:7890951-7891062 
HIGH PSI
GgaEX6015438
(SDCCAG3)
Chicken
(galGal3)
chr17:8580050-8580161 
HIGH PSI
GgaEX6015438
([1])
Zebrafish
(danRer10)
chr5:50556261-50556372 
ALTERNATIVE
DreEX0064677
(sdccag3)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TGAAAGATGAAAACTCTAAGCTCAGA

				
R: 
AGCAAATTTATTTCCTGTTTCAGCT

				
Band lengths: 
132-244

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










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






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