Special

MmuINT0056017 @ mm9

Intron Retention

Gene
ENSMUSG00000013787 | Ehmt2
Description
euchromatic histone lysine N-methyltransferase 2 [Source:MGI Symbol;Acc:MGI:2148922]
Coordinates
chr17:35042287-35043003:+
Coord C1 exon
chr17:35042287-35042401
Coord A exon
chr17:35042402-35042854
Coord C2 exon
chr17:35042855-35043003
Length
453 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TCTGTCTCTTCCTGTCTAAGGGG
3' ss Score
7.87
Exon sequences
Seq C1 exon
AGCGGTTCTAGTGGCCGGCGCAAGGCCAAGAAGAAATGGCGGAAAGACAGCCCGTGGGTGAAGCCATCTAGAAAACGGCGGAAACGAGAGCCTCCGAGGGCCAAGGAGCCAAGAG
Seq A exon
GTAAGACGGCTCCTCTGCTCTCAGGTCCCCTCCTCCGGCCCCAGAGAGCAGCACACACTCGGATGCTCGTGCATGTTCACTGTGTAGACCGCATGTGCGCACGCGCCCAGGACCTGTGAGCCCCCACTCTCACTCTCTCTGTCTCTGTGTCAGGAGTGAATGGTGTGGGTTCCTCAGGGCCCAGTGAGTACATGGAGGTTCCTCTGGGGTCCCTGGAGCTGCCCAGCGAGGGGACCCTCTCCCCCAACCACGCTGGTAATTAATTGCCAACTGCCGGGACAGGGAGCCACCAGGGGGTGCCCATGGGGGTGGAGGGAAACCCTGCCACAGCTGGGGTGTCCATGCCAGGCTTTGGGGTTCTAGAACATGGTGGGGTGGCTGGGCGGAAAGGAGGGGACCCTCCCAGTGGGTGAGGGGCAAGGCCTCCATCATCTCTGTCTCTTCCTGTCTAAG
Seq C2 exon
GGGTCTCCAATGACACGTCTTCACTGGAGACAGAACGCGGGTTTGAGGAGCTGCCCCTCTGCAGCTGCCGCATGGAGGCTCCCAAGATTGACCGCATCAGCGAGAGAGCAGGGCACAAGTGCATGGCCACAGAGAGTGTGGATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000013787-Ehmt2:NM_147151:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.731 A=NA C2=0.233
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF041477=Nop14=FE(27.7=100),PF0334410=Daxx=FE(18.8=100)

							
A:
NA

							
C2:
PF041477=Nop14=PD(6.9=20.0),PF0334410=Daxx=PD(29.7=94.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000094955





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000013931, ENSMUSP00000109667
          









    
Other Skipping Isoforms:
ENSMUSP00000077208, ENSMUSP00000121838
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr6:31856525-31857004 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr23:27282986-27283131 
LOW PSI
BtaINT0024997
(BAT8)
Chicken
(galGal4)
chr17:2049627-2051504 
ALTERNATIVE
GgaINT0126644
(EHMT1)
Chicken
(galGal3)
chr17:2456930-2458807 
LOW PSI
GgaINT0126644
(F1P2X9_CHICK)
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
AGCGGTTCTAGTGGCCGG

				
R: 
CTCTCCATCCACACTCTCTGT

				
Band lengths: 
264-717

			

		

	





	
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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