Special

MmuINT0029133 @ mm9

Intron Retention

Gene
ENSMUSG00000026928 | Card9
Description
caspase recruitment domain family, member 9 [Source:MGI Symbol;Acc:MGI:2685628]
Coordinates
chr2:26207832-26208081:-
Coord C1 exon
chr2:26208005-26208081
Coord A exon
chr2:26207932-26208004
Coord C2 exon
chr2:26207832-26207931
Length
73 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
TCACACTGCGGGCCCCACAGGAA
3' ss Score
6.35
Exon sequences
Seq C1 exon
GGCATGGGGCCCAGCAGCAGCGAGCCCCCGGAGAAGGAGCGGCGGCGCCTCAAGGAGAGCTTCGAGAACTACCGCAG
Seq A exon
GTGTGGGGCGGCGGGCAGGACGGCTGGCGGGTGGGACACCTGTGCCTACCTGCTCACACTGCGGGCCCCACAG
Seq C2 exon
GAAGCGGGCGCTCCGCAAGATGCAGAACAGCTGGCGGCAGGGAGAAGGGGATCGCGGGAATACGACAGGCAGCGACAACACCGACACCGAGGGCTCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026928-Card9:NM_001037747:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=1.000 A=NA C2=0.970
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000028294





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000097876
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr9:139258854-139258934 
ALTERNATIVE
HsaINT0027757
(CARD9)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr11:103876265-103876348 
LOW PSI
BtaINT0031599
(CARD9)
Chicken
(galGal4)
chr17:7916071-7916152 
ALTERNATIVE
GgaINT0125938
(CARD9)
Chicken
(galGal3)
chr17:8605170-8605251 
ALTERNATIVE
GgaINT0125938
(CARD9)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAGCCCCCGGAGAAGGAG

				
R: 
CTAGGAGCCCTCGGTGTCG

				
Band lengths: 
156-229

			

		

	





	
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






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