Special

MmuEX0036977 @ mm9

Exon Skipping

Gene
ENSMUSG00000029913 | Prdm5
Description
PR domain containing 5 [Source:MGI Symbol;Acc:MGI:1918029]
Coordinates
chr6:65836079-65851853:+
Coord C1 exon
chr6:65836079-65836172
Coord A exon
chr6:65837922-65837982
Coord C2 exon
chr6:65851768-65851853
Length
61 bp
Sequences
Splice sites
3' ss Seq
TCATCTGACTTTACTTGTAGGAA
3' ss Score
9.16
5' ss Seq
GAGGTATTA
5' ss Score
6.46
Exon sequences
Seq C1 exon
ACACACACAGGAGAAAAGGAGAAAGTCTGCCCATATTGTGGCCAGAAATTTGCCAGCAGTGGGACCCTGAGAGTTCACATCCGGAGCCACACAG
Seq A exon
GAAGAGTGAACAGCAGAGAAGCACAAACGACTAATGTTACTCATTACTTTGAATGTTTGAG
Seq C2 exon
GTGAGCGCCCCTATCAATGCCCGTACTGTGAAAAAGGTTTCAGTAAAAATGACGGACTGAAGATGCACATTCGTACTCACACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029913-'22-19,'22-17,23-19
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
In the CDS, with uncertain impact





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.117 A=0.381 C2=0.136
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF156161=TerY-C=FE(41.9=100),PF042167=FdhE=FE(44.9=100),PF134651=zf-H2C2_2=PD(85.7=56.2),PF102764=zf-CHCC=PD(85.0=53.1),PF132481=zf-ribbon_3=PD(88.9=50.0),PF134651=zf-H2C2_2=PU(38.5=31.2)

							
A:
NO

							
C2:
PF156161=TerY-C=PD(35.1=89.7),PF042167=FdhE=PD(21.7=51.7),PF134651=zf-H2C2_2=PD(57.7=51.7),PF134651=zf-H2C2_2=PU(38.5=34.5),PF0013017=C1_1=PU(11.8=20.7)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000031976f2653A





     
                   









    
Main Skipping Isoform:
ENSMUSP00000031976





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000031973, ENSMUSP00000079979
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr4:121696503-121696563 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr6:4650974-4651038 
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: 
GCCAGAAATTTGCCAGCAGTG

				
R: 
TGGTGTGAGTACGAATGTGCA

				
Band lengths: 
138-199

			

		

	





	
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
  • 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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