Special

MmuINT0071214 @ mm9

Intron Retention

Gene
ENSMUSG00000091455 | Gm6924
Description
otogelin-like [Source:MGI Symbol;Acc:MGI:3647600]
Coordinates
chr10:107240634-107243848:-
Coord C1 exon
chr10:107243570-107243848
Coord A exon
chr10:107240752-107243569
Coord C2 exon
chr10:107240634-107240751
Length
2818 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGC
5' ss Score
9.05
3' ss Seq
ATTTCCTCTTGTCATCTCAGAAA
3' ss Score
7.38
Exon sequences
Seq C1 exon
CATTGGCTCTTGTTTCCTTGGAATCTGCTGAAAGGCCCAACTACTTTCTCTATGTCCACGACAATGACACTCTTAGCTTGAAGCTGTGGCGGGCAAACTCAGAATTTCATCAGAGAGCAACATTTTTCCACCACCAAGGCCTCTGGATTCCTGGCTACAGTGCATTCGAATTATACAGCAAGAAAGGCTACTTCATCGTTTTTATGGGTTCCAGTGTCAAAGCGTCAAAATACGATGACTCGGAAGAATTCAAGCAGTCAAGTAGCTTTAGCATAGAAG
Seq A exon
GTGCGCTTCCCGAGTGCTCCAAAGAGGAGCACAGATTCTTAGGCCGTGAAGACTATGTCAGATGCTAACATTAGGTATCCGACTCTCTGTGCAGGCCATGTGAGATGCTAATATTAGGTATCTGAGTCATGTGATCCTAACCTTTTTTCTCCTCAGGCTACTTATCAGCTAAACAGAAGGAATAATGCTGATTTTATCTACTATGTTAAATGCATGGCTATAAATGACTTAGAATAACTCTAATAACTTTATAATTATTTCTCCATATATTACTAATAGTACTTATTGGGTTTTTGCATCAGAATCCAGTTACTCACATCTAATGAAATTGTCTATTATTTGTATCTGCTTTTTTTTTTTTTCATACGAAGAACTTTATATGTATCTGGCTCTTAGACCCAAAGAAAACGTATTTATCTCTGTCTTCTGAATCCAAGAGTGACTAGATTGATTGGCCTCTGGGAAGTTTCTTTAGTTTAGGAGATGCTCAATCTGATTTCTAAGGAAGAGCCTTTGTGGTCTACACTGAGGAGATCTACACATCAGGAAGCAATCCTCTCTTTGTACAGCTGAGGTCCTGCTCTGTTTTCAAAACGAAGCAGCTTGGTTTCTCTCTGAAGTCTCCCAAACACTTCTCCGTTTTCATTGATCCCCTGAAGAAGATCAATACTGCTAATCACTTGCCTTCTCTACTGTGCACGGGCTTCTGAAAAGCTCTTTAATGGGTGGATTTCAGAAAACCCAAATCGCGCTTTAGAAGTATTCTATAGCATAAATCCCTGGGTTCAAAGGTTTTAAGGCTGGCAGGAGTTTTGTATAAATGCAACTGATAGTGCTGATAGTCCTAGCAAGGGGCTCAAAGCAGGGCTCCAGGAGTCCCGATGGTTTCTGCACTGTGTTGTCCAATGAGACAGAAGGGGTCAGGACAAGGAGCTTTTAACATTTTCCTATAGGTGTTGGGAATCCACAGATGCGTAGAACTTATAGTGAGCTAGTGTCCTTACCCCCAGCTCCCCTGCTCAGGATAGCGGGTCAGAGTAGGTAGTGTCTTATCTTTACATACACCAGATGCCCTTCAGCAGAAAGAACAGCACTCTGGGTTCCACTGACATATCTAAGCACAGACTTTTCAGGACACCCTGGCTTAGGGAGGGAGGCCCAGGTTATTCTCAACAGATTTCCTTTGTATTTGCATAGCACATTCCTATGGCATTCTCCAGTGTAAGAAGCCCAAGTGGAGCTCTAAAAGTTGGGCATAGCCAAGGCCATCTGGGGACATTTCTTCTTCCTCTAGGCTCCTGAAGGGGGGAGGGGGGGGAAACATAGTGACATGCTTGTATAACATTCTGTAGAGTGCTGTGATTATTTTAATTGATTTTATGTAAAGTTGATCTTAATAAGCTTCCATTTCCCCTTTAATCTAGATGTCTGCTCTACTTGAGTCAGATCTAGCAATCCCACTCATGGTACTGTGAAGGACGGTCAGTGGCATCAAATGAGATACTGAGCACTCGAGGTTTCATCCACTGGGAGACTCGAGTGGTCTCTTCTGGTCTTAAAGCCAGTCGAAGCAGGGACTCCAGCTGAGCTCTGCATATACAAGCAATCTTTCGGAAACAGCCCATTTCCTTGTCACACTTTAGAATTAAAGTCTTCATGGGAGAAGATTCAAGATATAGGTTTAAATGAGATGTTATGTGTTGAGGTGAATCTCTATCCCAAATATGTCCCAGCAATGAAAACATGACTCAGTTAATATGAATACATGCTGTGCGCTCTGATTGGGCAGATCTACTGCTATATTACTATCTTCTCCATCTATGAGACCCCTTAGAACTTGTAGTTTCTCCAGGCCATGTGCTTCTGCTCTGCTTTTCTTCTTCCTCCTCCTCTGCATCCTCTCCCTCTTCCATTTTCTCATCTCTTCCACCTTCTGCCCCACCTTCCCTTTTATCTGCCCAATCATCAGCTCTCCTTTATTTTGCAAATTAAGGTGATGAGCAGGTTTACCGGAAATCACCTGAGTGCTGACTCATTCTTTGTTTGAAGCCACTTACAGGAGAACTGAATTAAATCAAATATAATTAGCCCCAGGGCTATCCACAACAGTTATGGTCCTATAAATCAGAGCTGTTCCAGAAAGGCTTCTCCATGATGTGGGAAAGAAAATACATTGCCAGCGTTTGCAGGAGAAAAGTCTTTAAGCAAAGGATCTTCTAGAATTACAGACGTTTAGCTTTCAATCACGCTGATTTATACTTTTGCATTCAAGAAATACTTACCATGTCTCCATGTCCGAGACAATGTGCTAGGTTTTGTGGGAAGGAAAAGGATGAAATGTTTTTCATCTCCAGAGTTTTTTTCTCCTGAGATGTGTTTTTATTCTATTTTCCTTATCGATTGGGGGCTGGCAAGGTGCTTGGATATTGTCATGAAGACACATTTCATTTTAGATTACCACTAATGCTTCCCCGCCACAGCTGTGCAAGGATAAAACAGAATAAAATAATGTTGTTAAAAAGGAAATTTCTCAACTCCTATGATGGGAAAACCAGCGAAAGTGTCACTAAACGTAAGAGACAGGAAAGCATTAAAATCTTTGGTGGGTAGCTATGCATTTAATTATTCAACATGAGCAGCAGGTCTTCTGGTCCCCAGGGAATTGTGACACTTTTACCCGGCAGTCTTGCTGGTTATAAAATACTACAGTGAAAGAGGAGCCAAATATCACAGGAGTTCATACTGGAAGTTATTAGTTTTCAAAATATGTGCCTCAATGTGCCCAGTGCATAATCCCAATTTCCTCTTGTCATCTCAG
Seq C2 exon
AAATCCAGGCAGTGGTCCCTTACAGGAGGATGTGCGAGTGGAGATACGAACCTTGTGCTACTCCGTGTTTTAAAACATGCAGTGATCCAGAGGCCTTAGCCTGTACATTCCTTCCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091455-Gm6924:NM_001177567:33
Average complexity
IR-S
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:
PF052708=AbfB=PD(76.7=97.9)

							
A:
NA

							
C2:
PF0182612=TIL=PU(49.1=67.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000129467





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:80320701-80323722 
LOW PSI
HsaINT1025845
(OTOGL)
Human
(hg19)
chr12:80714481-80717502 
HsaINT0020289
(C12orf64)
Rat
(rn6)
chr7:51893859-51896431 
LOW PSI
RnoINT0106119
(Otogl)
Cow
(bosTau6)
chr5:9899429-9901658 
BtaINT0106311
(OTOGL)
Chicken
(galGal4)
chr1:39751345-39751926 
LOW PSI
GgaINT0111104
(OTOGL)
Chicken
(galGal3)
chr1:41701814-41702395 
LOW PSI
GgaINT0111104
(OTOGL)
Zebrafish
(danRer10)
chr18:6074988-6075165 
LOW PSI
DreINT0109080
(otogl)
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






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