Special

MmuEX0011725 @ mm9

Exon Skipping

Gene
ENSMUSG00000020385 | Clk4
Description
CDC like kinase 4 [Source:MGI Symbol;Acc:MGI:1098551]
Coordinates
chr11:51080673-51085524:+
Coord C1 exon
chr11:51080673-51080833
Coord A exon
chr11:51081667-51081733
Coord C2 exon
chr11:51085302-51085524
Length
67 bp
Sequences
Splice sites
3' ss Seq
TTTTCTCCTTGTTTGTACAGATG
3' ss Score
9.73
5' ss Seq
ACAGTATGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
ATGCGGCATTCCAAACGAACTCACTGTCCTGATTGGGATAGTAGAGAAAGCTGGGGCCATGAAAGCTACAGTGGAAGTCACAAACGCAAGAGAAGGTCTCACAGCAGTACTCAGGAGAACAGGCACTGTAAACCACATCATCAGTTTAAAGACTCGGATTG
Seq A exon
ATGTTCCATTGGGGCTGTTTACCAGATTGCTTTCTAAATTAGCCAGCTGGGGTTACTTTAAAAAACA
Seq C2 exon
TCACTATTTAGAAGCAAGATGCTTGAATGAGAGAGATTATCGGGACCGGAGATACATTGATGAATACAGAAATGACTACTGCGAAGGATATGTTCCAAGACATTACCATAGAGACGTTGAAAGCACTTACCGGATCCATTGCAGTAAATCCTCAGTCAGGAGCAGGAGAAGCAGCCCTAAGAGAAAGCGTAATAGACCCTGTGCAAGTCATCAGTCGCATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020385_MULTIEX1-1/3=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact





	

	
ORF disruption upon sequence exclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.119 A=0.000 C2=0.312
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF078926=DUF1667=PU(64.0=91.4),PF053316=DUF742=PU(44.6=94.3)

							
A:
PF078926=DUF1667=PD(34.0=73.9),PF053316=DUF742=FE(29.7=100)

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000123133





     
                   









    
Main Skipping Isoform:
ENSMUSP00000090820





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000115894, ENSMUSP00000118972, ENSMUSP00000120822
          









    
Other Skipping Isoforms:
NA
  



Associated events







Other assemblies


mm10




Conservation


Human
(hg38)
chr5:178622393-178622459 
ALTERNATIVE
HsaEX0015708
(CLK4)
Human
(hg19)
chr5:178049394-178049460 
ALTERNATIVE
HsaEX0015708
(CLK4)
Rat
(rn6)
chr10:36721731-36721796 
ALTERNATIVE
RnoEX0021858
(Clk4)
Cow
(bosTau6)
chr7:41118364-41118430 
ALTERNATIVE
BtaEX0009269
(CLK4)
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: 
CTGGGGCCATGAAAGCTACAG

				
R: 
TCAATGTATCTCCGGTCCCGA

				
Band lengths: 
171-238

			

		

	





	
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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