Special

MmuINT0010421 @ mm9

Intron Retention

Gene
ENSMUSG00000015143 | Actn1
Description
actinin, alpha 1 [Source:MGI Symbol;Acc:MGI:2137706]
Coordinates
chr12:81297382-81298000:-
Coord C1 exon
chr12:81297913-81298000
Coord A exon
chr12:81297461-81297912
Coord C2 exon
chr12:81297382-81297460
Length
452 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCACTCTCTCCCTGGACAGTTG
3' ss Score
10.42
Exon sequences
Seq C1 exon
AGACTTCAGCTAAAGAAGGGTTACTCCTGTGGTGTCAGAGGAAGACAGCCCCATATAAAAATGTCAACATCCAAAACTTCCACATCAG
Seq A exon
GTGAGTGCTGCAGCCAGGAGGAGGCTGGCCTGTCTCCTCAAGGCCTCCCCTGCCCCACCCTTGGTTGGAAGAGAGTTGGTGGGGGGGAGGGGGCGTCTTCTTGGGAAGGGTATGTCCCTTTGAATCTGCCATCCCTCCCTGTGGTGTCTTGGACCTGACTGCTGCCCATCACACCTCTGTTGATATTTGTGACACTGTCAAGACCCCCAAGATTGTATCAGGAAGCCCAGGGTTCCAGATCAACAGACTAAGGCTTTAGTGAACGGGTTGGGTAGGTGGGTGTGGTGGGTTCATCTCGACTTGCCAACCACTCAGAAAACCTTGACCCTAATCCCTGGGAATGTGGCAGGCAGAAAGTCTCCCTTCCCTTCCCTGTCTTCTAAATCCTACTTCAAAGGGTTGCATAATAAACATCAGAAGTCATGTTCCTCCCCCACTCTCTCCCTGGACAG
Seq C2 exon
TTGGAAAGATGGTCTTGGTTTCTGTGCCTTGATCCACCGACACCGGCCCGAGTTGATTGACTATGGAAAGCTTCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015143-Actn1:NM_134156:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (disopred):
  C1=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0030726=CH=PU(24.0=83.3)

							
A:
NA

							
C2:
PF0030726=CH=FE(25.0=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000021554





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000021554f446A, ENSMUSP00000127176
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr14:68909397-68909954 
LOW PSI
HsaINT0003171
(ACTN1)
Human
(hg19)
chr14:69376114-69376671 
LOW PSI
HsaINT0003171
(ACTN1)
Rat
(rn6)
chr6:103405149-103405597 
LOW PSI
RnoINT0012601
(Actn1)
Cow
(bosTau6)
chr10:81051884-81052395 
LOW PSI
BtaINT0013309
(ACTN1)
Chicken
(galGal4)
chr5:27540719-27541816 
LOW PSI
GgaINT0057638
(ACTN1)
Chicken
(galGal3)
chr5:30556571-30557668 
LOW PSI
GgaINT0057638
(ACTN1_CHICK)
Zebrafish
(danRer10)
chr13:36225657-36225799 
LOW PSI
DreINT0025690
(actn1)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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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