Special

MmuINT0071190 @ mm10

Intron Retention

Gene
ENSMUSG00000091455 | Otogl
Description
otogelin-like [Source:MGI Symbol;Acc:MGI:3647600]
Coordinates
chr10:107881351-107881801:-
Coord C1 exon
chr10:107881695-107881801
Coord A exon
chr10:107881477-107881694
Coord C2 exon
chr10:107881351-107881476
Length
218 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CCACTGTCTGGCCATTGCAGCTG
3' ss Score
7.82
Exon sequences
Seq C1 exon
AACTGATGACGATGAAACTTACTGTCGAGCAGCCACAGAGTACGCTAGAGCCTGTTCCCACGCCGGCTTCCCCATTCAAGACTGGAGGGATGACTTTCCAGCATGCA
Seq A exon
GTATGTTTGTATTTTCAAGCCATATATTTTACAAAACAAAAACGAAATCAATTTTGTCCCAGAACTCAGAATTCAGTTTACCTAGCTTCTCAACCTAACTTACTACAAGATTTTTAAAAAAATGTTCACATATTTGTAAATTTACACATTTCCTGAACACTCAGTTTTGAAAGAAAGACGATAAAATTGACTCACAACCCACTGTCTGGCCATTGCAG
Seq C2 exon
CTGATAAATGTGACGATAGCTTCGTCCACCGGGACTGTATCAGTTGTTGCCCTCCGAGCTGCACATTTGAGAAGCAGTGTCTTGGGAGCAATCTTCACTGCCTTGATGGATGCTATTGTGCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091455:ENSMUST00000165341:11
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:
PF087426=C8=FE(51.4=100),PF0182612=TIL=PU(8.1=13.5)

							
A:
NA

							
C2:
PF087426=C8=PD(5.4=9.3),PF0182612=TIL=PU(72.2=90.7)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000129467





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr12:80251800-80252075 
LOW PSI
HsaINT1025825
(OTOGL)
Human
(hg19)
chr12:80645580-80645855 
HsaINT0020265
(C12orf64)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr5:9826930-9827670 
BtaINT0106287
(OTOGL)
Chicken
(galGal4)
chr1:39708601-39709291 
GgaINT0111081
(OTOGL)
Chicken
(galGal3)
chr1:41659070-41659760 
GgaINT0111081
(OTOGL)
Zebrafish
(danRer10)
chr18:6039215-6041748 
LOW PSI
DreINT0109108
(otogl)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
ATGACGATGAAACTTACTGTCGAGC

				
R: 
CGTCTGCACAATAGCATCCAT

				
Band lengths: 
228-446

			

		

	





	
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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