Special

MmuINT0145568 @ mm10

Intron Retention

Gene
ENSMUSG00000046329 | Slc25a23
Description
solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 23 [Source:MGI Symbol;Acc:MGI:1914222]
Coordinates
chr17:57053241-57053699:-
Coord C1 exon
chr17:57053547-57053699
Coord A exon
chr17:57053349-57053546
Coord C2 exon
chr17:57053241-57053348
Length
198 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CAGCCATGTTATACCCTCAGATC
3' ss Score
6.96
Exon sequences
Seq C1 exon
GTCCACGCCTCAAAGTCCAACCGGCTTAACATTCTAGGGGGCCTGAGAAACATGATTCAAGAAGGGGGTGTCTTGTCCCTCTGGCGGGGCAACGGCATCAACGTGCTCAAGATAGCCCCCGAGTCTGCCATCAAATTCATGGCTTATGAACAG
Seq A exon
GTAGGACAGGGACAGGGACAGAAGAGAAGGTATTCAGCATTGAAAAGCAGATAGTAAACACAAGGGCTTGTGGGCTTAACTTGCGGTCCCCAGCACCACGCCTCCTGCTGGTCAGCACTGTGGCAAGCAGAGAATGTTGGAATGCAAGGACCCCAAGGTTCCCAGGTACCCAGTCCCACAGCCATGTTATACCCTCAG
Seq C2 exon
ATCAAGCGGGCCATCCGGGGGCAACAGGAGACACTGCACGTTCAGGAGCGCTTCGTGGCTGGTTCCCTGGCCGGGGCCACAGCTCAAACCATCATATACCCCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046329:ENSMUST00000040280:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0015322=Mito_carr=FE(53.8=100)

							
A:
NA

							
C2:
PF0015322=Mito_carr=PD(11.8=24.3),PF0015322=Mito_carr=PU(28.9=70.3)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000040198





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000128348, ENSMUSP00000132169
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr19:6454089-6454322 
LOW PSI
HsaINT0151740
(SLC25A23)
Human
(hg19)
chr19:6454100-6454333 
LOW PSI
HsaINT0151740
(SLC25A23)
Rat
(rn6)
chr9:9994408-9994574 
ALTERNATIVE
RnoINT0136916
(Slc25a23)
Cow
(bosTau6)
chr7:19239656-19239708 
BtaINT0134626
(SLC25A23)
Chicken
(galGal4)
chr17:4798844-4798963 
ALTERNATIVE
GgaINT0125617
(SLC25A25)
Chicken
(galGal3)
chr17:5433848-5433967 
LOW PSI
GgaINT0125617
(F1NYW3_CHICK)
Zebrafish
(danRer10)
chr1:54306594-54306794 
ALTERNATIVE
DreINT0149978
(slc25a23a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTCCACGCCTCAAAGTCCAAC

				
R: 
ATGATGGTTTGAGCTGTGGCC

				
Band lengths: 
248-446

			

		

	





	
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
  • 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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