Special

MmuINT0004964 @ mm9

Intron Retention

Gene
ENSMUSG00000070332 | 4933422H20Rik
Description
RIKEN cDNA 4933422H20 gene [Source:MGI Symbol;Acc:MGI:3588186]
Coordinates
chr11:115307720-115308134:+
Coord C1 exon
chr11:115307720-115307882
Coord A exon
chr11:115307883-115308071
Coord C2 exon
chr11:115308072-115308134
Length
189 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
AAGCTTGTCCATCCCTCCAGGAA
3' ss Score
7.95
Exon sequences
Seq C1 exon
GAGTTCCCCAAACTGAAGCACTTCCCTGCCTGCGTGGAACCCTTGCTAGGCACCAACTGTGAGGAGACACAGAGCTTCCTTCAGCTGCCAGAGACCCTGTCGCAGCTCCGGATCAGGCTGATGGACATAGGGCTTAGCTTTATCAACCAGCTTCTCTTGAAGG
Seq A exon
GTCAGTCTCTGCGAGGTCTGGAGTCTGTAACTTGGGAGTGGGCCCTCCTCACCTCTAGTGGTTGTGGCGCCCCACCTGCCTGTGTACCACCCTTCCCAGGTCACATGGGCTCCGGGATGGGCCAAGCCTCTGTCTGGAAGGAGGCTGGGCTGTAAGAGTGGCCTCAGCAAAGCTTGTCCATCCCTCCAG
Seq C2 exon
GAATCAGGATGAGCTCCTATGAGGTGCTGCCCGGAACTGTGGAGAGAAAGACACTGCTCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070332-4933422H20Rik:NM_001033775:6
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:
NO

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000091442





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000091442f5408A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr19:56994920-56995141 
BtaINT0005729
([1])
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCCCAAACTGAAGCACTTCCC

				
R: 
TGGAGCAGTGTCTTTCTCTCCA

				
Band lengths: 
219-408

			

		

	





	
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






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