Special

MmuINT0145571 @ mm9

Intron Retention

Gene
ENSMUSG00000046329 | Slc25a23
Description
solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 23 [Source:MGI Symbol;Acc:MGI:1914222]
Coordinates
chr17:57183134-57186759:-
Coord C1 exon
chr17:57186609-57186759
Coord A exon
chr17:57185087-57186608
Coord C2 exon
chr17:57183134-57185086
Length
1522 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AGGCTTCCAACCACCTCCAGCCT
3' ss Score
3.28
Exon sequences
Seq C1 exon
ACCCTGAAGAATCGCTGGCTTCAGCAGTACAGCCACGAATCCGCTAACCCAGGCATTCTCGTGCTCCTAGGCTGTGGCACCATCTCCAGCACCTGTGGCCAGATTGCCAGTTACCCTCTGGCACTGGTCCGTACCCGAATGCAGGCCCAAG
Seq A exon
GTGAGAAGTGTGGGCAGGAGGCTGGGGTAGGAAAGCCAGCCACTTGGGTTCCACCTGCTCCCACGTAACTGTGTAGGAAGAACCAGGATCCTTGTGAGTTTGGGTGGCCTTCATAAACCCTTCCTCTTGTCTGGGCTTCTGTTTACCCATCAGTGACCCTGAAGAAGGAGGCTTTTACCTTATCGGCCTGAGAGTTCAGTGGTGTCAAAAGTACAGGGAAGTACCACAGACAACATTGTGGCACTTCTGGGCCTGCCAGTAACTTGAGCTGTTATTCAAAACTGAGAGAAAAAAAGGGAGTGGAGGTTGCTTAGAACAACATTAGCCAAGGTCAAGGAAGGACAGTTTGCTGGGTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTGTTTATTTATTTTGTGAGACAGGGTCTCACTATGTACCCCTGACTGGCTGGAACTCACTATGTAGCCTAGGCTGGCCTTGATCAGAAAGATCTCCCAAATGCTTGGGTTAGAGGCATGGCCAGCAGACCTGGCCATATTATCATTGTTTTTAGGCAAGATCTCACTGTGTGGCCCTGTCTGGCCTGGAATTCACAGAGATCCCTCATTCCTGGGGATGAGGACAAAGGCAACATAAGTCATTCCATGATCAGATGTGATTTAGAAGAGGTAGGAACCCAGCTTAGATTAGGTACCACAGAGGGCTCCTCCAAACAGCCAGCTTTGGGATGGAGAATGGAAGGAAAAGTAGACACTAACCCTGAAGAGAAGGAGAGAATTAACTTTAAGGATGGGGGTATTTCTCACCTCTTGTCACACACAGACACTCATGTATTCACACATGCACTCTTACATACAGACACATGTATGTATTCTTATACACAGAAACACATATGCACTTACACACACAGACATGCACTCACACATGAACATATGAACTTTCACACATGCATATGCACACACAAAGACACACTGCACACTCATACATGCACACATACATTTATGCACCCTCTCTCTCTCTCTCACACTCACTCTCATATAGTTGTACATATGTACTCTTATACACAAACACACATATGCAGTCTCACACATACTAACAGACACACTCTCACACATGTACACGCAAGTCACAGATATGCACTCTCACACATGCACACACAGACACATATATATATGCACTCTCACAATGCATACACACAGGCACACATGCACTCCCACACATGTACACACAAACTTTCACAGTACATATGCGCATACACAGACAAATATACACAGACTCATGTACATGTTCTCATGCATGTATATACCTGGTGTTTCCATTCATCCCCAAATGTAGTCCCTAAGATTGACAGTTCCTAAGCCCACAGACACCCTGAGTCTTGTGGTAGGTCCCACTGTTCCTCTGTCTTACCCTTCTGCCTTCTGTTTAAATGGCCGCCTAGCTCAGCCCTAGGATGAGGTAGGAGGGAGAAATGAGATGGGGAAGCTTTGGTCTTACCAGGCTTCCAACCACCTCCAG
Seq C2 exon
CCTCCATTGAGGGTGGCCCGCAGGTCTCCATGGTGGGTCTACTTCGACACATCCTGTCCCAGGAGGGTGTATGGGGCCTCTACCGGGGCATTGCCCCCAACTTCATGAAGGTCATTCCAGCCGTGAGCATCTCCTACGTGGTCTACGAGAACATGAAGCAGGCTCTGGGGGTCACATCCAGGTGAGGGACAGGGAGCCTGTCCCCCTAAAACTCCCTCATCTTCATCATGGTATCCCCTACGCTGATATCTTCAACCACAGAGACTGATGGCCTGACCAGTGGATCCTAACCCCACACCCCAAGGCACTGGACCCCAGTACCCAAATCCCCGATCCTAGCCCTGTGTCCTGACCATGGTACCACTGCACCCCACACTTGAGCCACAGGATCCCAGGACTTGATCCCCAACTTCACAACCAGACCTCGAAGCCCCAACCACTGGACCCCACATATCAGCAGCCTGACACTTGATATGTAAAACTATCCATACCCTGGCCCCAAACCCTTCTTCCCAAGCACCTTGACCCTGTCATCTACACCCCAAAGCTGGACCCTGCTTTTCCCTGCCCCACTGGTTGCTAGACCTCACTATGCAGCAGCAGGTGACCCCAATGCCCCAAGCATGGGAACACTCATCCATGTACCCCATAGCCCAGCTCTCAGAGCCCTCAGGCACCAGACCCAGTGCCCTAATGCCACACTGGACCAGAGATCCCTAAACTTGCTGCTGAGTTCCCTGTAACCTGCCTCACAGCCCAGCCCCTGGATTCTAGGAGCCAAGAACTCTCAGCCACAGGGTCCTGACACAGCAAAGCCAAGATCCTGGGCTCTGCCACTGGGTCCCTGGATCCCTGGATTACAGGTCCCTTAACCCAACCAATGCATTTTCCTCTGTTTGAGGTTCCATATTCCCCCATTTTTACTGCTAGGTCTACATTCCAAGCACCACCCTCAATCTCTCACCACTGGACCCCAAGTCCCAATCCACTGGATTCTGTCTCCTGGAAGCATGGGTGCGAGAGCTCCAGGGTCCCTCATGTGGATCCCACATGCCCCAGCTGCTAAATTCCAGATCCCAGATTCCTTCAACCCCTTCTCTGGACCACATTCATAGAAGGCCAAACTTCCAAACACCTTCATACTCCAAGGTCTTTGCTCCTATACCCCAAATGTCACTCCCCAAGTCTAGATCCCAATAGCCCAGTGACAGCATCTCATATCCCAGACACACCCTGGAGCTGATTCCCAATGCATGGAAGCATGCCATCCAAAGAGTCTTCTAGAAGCTCAAGACGCCAGACCAGTGGCTCCCTACCAGGCAGTAAGGAATGGGACATATGAATGCTGCATTGCACCTCAGCTAGGACACACCTCCCTTCCCACCCCCACCCCCAAATCACTTTGTTCCCCGTCCCCCTCTCTCTGCAATGTCTTCCACATTCCCCTGCCTTCCTTCCAGGCTAGTAACTCCCAGATCCCAGGTCCCTCTGGGAGGGCTGAATCTGCTTGTTCATGGGTTGGGAGCTACCAGGGGAAGTCAGGGACACCACCAAGGGGACCACCTGCCTCTCACACTGCCAGTCCTGCTCAGGCCTCAGAAAGTTGCAATCAAGGACCAACACACAACATCCTTCATGAAACCCAGCATCCAGTATGCAAATTAAGTATCCCCAAGCTGACTCGGAGTCTATTTTTCTACCAGAGAACAAAGTCCCCTGGCTCCCACCACATTCCCATACCCTCCACACTTCAAGATTGGATTCTGAGCTTAGACCTGGGGTACCCCGCTCCACCTCTCAGTCTTTAGGGGGACCTCATCAAGGGACTGAGAGGAAAACTGGGATGTTGGGGGGGCATGGTTTCCACCTCTCCCTCCAACCTACACCAAGTCCTACCTCCCTGCCCATGTGTGTCATTTCAAGGAAAAAAAGAATAAATTTTCTAAGCTATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046329-Slc25a23:NM_025877:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.011 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0015322=Mito_carr=PD(17.2=19.6),PF0015322=Mito_carr=PU(62.5=68.6)

							
A:
NA

							
C2:
PF0015322=Mito_carr=PD(61.1=93.5)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000128348





     
                   









    
Main Skipping Isoform:
ENSMUSP00000040198





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000132169, ENSMUSP00000132962
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:6442160-6444150 
LOW PSI
HsaINT0151743
(SLC25A23)
Human
(hg19)
chr19:6442171-6444161 
LOW PSI
HsaINT0151743
(SLC25A23)
Rat
(rn6)
chr9:9999429-10001777 
ALTERNATIVE
RnoINT0136919
(Slc25a23)
Cow
(bosTau6)
chr11:98758632-98758733 
LOW PSI
BtaINT0134645
(SLC25A25)
Chicken
(galGal4)
chr17:4797335-4797775 
ALTERNATIVE
GgaINT0125620
(SLC25A25)
Chicken
(galGal3)
chr17:5432339-5432779 
LOW PSI
GgaINT0125620
(F1NYW3_CHICK)
Zebrafish
(danRer10)
chr1:54301091-54303308 
LOW PSI
DreINT0149981
(slc25a23a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GCCAGATTGCCAGTTACCCTC

				
R: 
GGGGTTAGGATCCACTGGTCA

				
Band lengths: 
348-1870

			

		

	





	
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






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