Special

MmuALTA0004249-2/2 @ mm9

Alternative 3'ss

Gene
ENSMUSG00000068917 | Clk2
Description
CDC-like kinase 2 [Source:MGI Symbol;Acc:MGI:1098669]
Coordinates
chr3:88972617-88973624:+
Coord C1 exon
chr3:88972617-88972845
Coord A exon
chr3:88973537-88973539
Coord C2 exon
chr3:88973540-88973624
Length
3 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CCCCCCCCACCCCCCGACAGCAG
3' ss Score
6.61
Exon sequences
Seq C1 exon
CAGCTATGATGACCATTCGTCCGATCGGCGGCTGTACGATCGGCGGTACTGTGGCAGCTACAGGCGCAATGACTACAGCCGGGACAGAGGGGAGGCTTACTACGACACAGACTTTCGGCAGTCCTATGAATACCATCGAGAGAACAGCAGTTACCGAAGCCAGCGCAGCAGCCGAAGGAAACACAGAAGGCGGAGGAGACGGAGCCGGACATTCAGCCGCTCATCTTCA
Seq A exon
CAG
Seq C2 exon
CACAGCAGCCGGAGAGCCAAGAGTGTAGAGGACGACGCTGAGGGCCACCTCATCTACCACGTCGGGGACTGGCTACAAGAGCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068917-5-7,5-6-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact





	

	
Protein isoform when splice site is used (No Ref)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.684 A=NA C2=0.291
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0006920=Pkinase=PU(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000113861





     
                   









    
Main Skipping Isoform:
ENSMUSP00000113390





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000088445, ENSMUSP00000122634
  



Associated events







Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr1:155238499-155238586 
ALTERNATIVE
HsaALTA0001925-2/2
(CLK2)
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr3:15426335-15426422 
ALTERNATIVE
BtaALTA0007369-3/3
(CLK2)
Chicken
(galGal4)
chr25_JH375217_random:7974-7975 
Chicken
(galGal3)
chr25:1647896-1647992 
ALTERNATIVE
GgaALTA0007356-2/2
(Q5ZJ82_CHICK)
Zebrafish
(danRer10)
chr19:9238797-9238890 
ALTERNATIVE
DreALTA0008047-2/3
(clk2a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GAAACACAGAAGGCGGAGGAG

				
R: 
TCAGCGTCGTCCTCTACACTC

				
Band lengths: 
93-96

			

		

	





	
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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