Special

MmuINT0071197 @ mm9

Intron Retention

Gene
ENSMUSG00000091455 | Gm6924
Description
otogelin-like [Source:MGI Symbol;Acc:MGI:3647600]
Coordinates
chr10:107303650-107306658:-
Coord C1 exon
chr10:107306534-107306658
Coord A exon
chr10:107303860-107306533
Coord C2 exon
chr10:107303650-107303859
Length
2674 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
ACAGTTTCTTCATCTGTTAGTTG
3' ss Score
4.91
Exon sequences
Seq C1 exon
TTCTCCATCAGGCATGATCGAAGGAACCCCACAGCTCCACGCACATGCGTGGAGAGTCTCCTCCACGTGTTTCGCGCCTGTCCATGTCCCGATGGTGGATCCCTGCAATATTAACCAACAGAACA
Seq A exon
GTAAGTCCTCCTTTCTACACTTAGACTTAGGGGAGATGTTCAATATGCAACATTAATTTCATAATCTTATGTTATGATTTTAAATTATGATTTATTCATTACGCCAAGAGCCCCGCTGTTCCTTGTGTGCTTTTTGGTCAAGCCTATGCTACGTCCACGATTTTTAAGTGCAATTAAGGCTATTGAAAAGAACAACAAACAACCCATTCTTTTACATTTTAAAAATGTACACGTCATATGTATTTATGACTTTCTTCCTTTCAAACACAGGCTGTATTTTGGAGGTTTCGGAGGCAGGAAACACTCGAAGACTGCGGTTATAGTTTCAGGATGCTCAGCAACAGTCTCATAGTGTGAGAGCGCAAGCGCATCTCGTCTTTATTCCTACTCAGATCATCTGTTGTCGCTCTGTAAGCAGGGAGCCCACACCCAATGATTGGCTTGTGCTATTAAGTGGGCAACTCTCTGAGAGAGTCATGTTCCAGCTTTGCAATTTGCAGGAGCAACACAATTCACATGACTAGAATTTTACACACACACACACACACACACACACACACAGACACACAGACACACACACACATCTGACACTGGCTGAATCCATGTTCAGTCTCCACATTTTGTACTCGTTGTGTGTGAGTGCTAGGCTGCCTGTTTACTAGCTTTTATTGTAAGCTTAGTTCGAATGTACTAGGGAAGAACAGATAAACTTGCACTCAACACATAACAAAAGACAGCAATTGTTTTATCCCAATGAGGGCTGTTTATTCTCCCTGTCTCTGTCTCTTTCTCTATGTCTCTCAGTCTCCTTCTGTCTCCGTCTCTATGTCTCCCTTTCTCTGTCTCTCTCTAATCTCAAGATTAGAGTCTTGGCTTTTATGTTTTACTACTTTTAAATCCAGTTCCTTTTTCCCTCCATTCCATCTCCGTATTTTAAAAACAAATTTACTTCTTCAGGTAGTTTCACTTGACTTCTCGCGTCTTGTTTCTAACTCTGATGACTTCCTTTTCGCCATTGAGGTGACTTTGTTATTAAGTTCCTATGTAAAGGTTTCGGTGGAGTTCCCTTGATGAGCTGCCTCTTCCAGCTGTCTTATTTTATAGCTGTCACTACGCACCATTTTATCGTATTTTCCACCCCCCCACCCCCCCACCCCACTATGTCTTCTGTGGTATGCGCTTCAGGGTTTTCTTTTCTTTTTTACTTTTGCTGGAAATTGTGATTTCATAAAAATCCCAAACAGGTAAATTCACAAAGACAGGAAAAGAAAAGAAAATAGACAAAAACCAACTACTCTCAACAGAACTCTGGATATTTTTCTCACGAGAATTTTTTTTTTTGAGTTACTCTTTACTTAATGACAGTGGAAATATGTTTTGATCTGCAAATTCTTAGAGCACAACGGAGTGGCCTTGCCAGTGCGTTATTTTGCTCTTTCAGGACTCTTGGGATAAGGAATTTGTCCACCAACAGTGTATAGTCATTTGTTTCCCATATGTACGCTTATTTAAGGCAATAAAATAGTAGTTGGGTAACTACCAAGATATTTATTAATAATAAATATGCCTTCGATCTGGGAGGAGTGGGATGGTGAATACGATCTAAATACATTGTAGACCATTCTTAAAGAATTAATGAAAATGTTATCTTACAAACTGAATACGCTTGACATTCTCAACAAAACGCATTCAGTATTGTTCCTTGAGAGTGAAAAGGACCTGTTATCCAGCAGTCATTTAGTGACACTGACAATATGAAGACTGACTGAGTTTTATCTCTGAGGGAATCAGTTCAAGTGAGGTCCACTTACATCACAGAACCTTGGACCTCACCTTATCTCCTTTCTCTGAAATGACAGTATCTCCCCGGGCTTGTCACACCTGTTTGGCCAGTCCTGAGCAGGGTTGTTCTTGCTCAGCACTGACTTGAAGGCGTGATGGTAGGATCCTGCTTTAAATAATATAGTGATAATTACACCTCATAGACATCAGAGTGGACTCTAATCCCTAATTTCTATTCATTATTCTCCCATTTATTCTACCATTTTTTCACACGTGGATTTATTAATCAAACACAACTGAGCTTCTCATGTTTGGACACTGTGCATTGTGCTGAATGACTGTGGCATCTGCCCCATTATCTTTCACCCATGAGATTCCATTGGGATGCAGTGATTGCCTGTCCTGGGAATAATGGTGTTTTCTACAAACCTGTCATTACACCATCATTAGGAAGCACTTTTGTTATACACGGGGAGGTCTGGAGATGATAAGCCCCAGTTCCTCACAGCAGGCTTCCCGAGGTGATCCTCCAACATGGGCTCACTGTGGTTATCACTTGTACCAATCCTTTTGTTGGTTATGTTATTCAGGTACACTAGATTTTTTTCTTTTTTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCCTTCCTTTTCTTTTTTCTTTTTTTTGGTTTGGCTCAAAGAGGATTGAATGTGGACTCAACGCTGTTTCCTGTGTAAGTTACTGAACTTCCTGGGACTCACTTAAAGGATATGTTTCTAGAAAAGGAAGATACTTGAGTAGTTTTGGTACCCCATTCTTAGGGTAATCTCTGGTTGGTATAAGAAAGACTCACAGTTTCTTCATCTGTTAG
Seq C2 exon
TTGGGTATGCAGCACACTGTGATGTCATCCACCAGGAGCTCTTTGCTCCTTGCCATGTCTACGTCAGTCCCGGGCTGTACTACCAGTTGTGTCGCCACGATGCCTGCAAATGTGGGAGCCCCTGCCTGTGTAACGCTCTCGCCCACTACGCCTACCTGTGTGGTCAGCGTGGTGTGCCCATTGATTTCAGAGCTCACATCTCCTTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091455-Gm6924:NM_001177567:18
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:
PF0009420=VWD=PD(3.3=11.6),PF087426=C8=PU(0.1=0.0)

							
A:
NA

							
C2:
PF087426=C8=WD(100=100.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000129467





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr12:80262094-80265000 
ALTERNATIVE
HsaINT1025832
(OTOGL)
Human
(hg19)
chr12:80655874-80658780 
HsaINT0020272
(C12orf64)
Rat
(rn6)
chr7:51825406-51828160 
LOW PSI
RnoINT0106101
(Otogl)
Cow
(bosTau6)
chr5:9839622-9842854 
BtaINT0106294
(OTOGL)
Chicken
(galGal4)
chr1:39716899-39718673 
GgaINT0111089
(OTOGL)
Chicken
(galGal3)
chr1:41667368-41669142 
GgaINT0111089
(OTOGL)
Zebrafish
(danRer10)
chr18:6047688-6051025 
LOW PSI
DreINT0109063
(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"