Special

MmuINT0154062 @ mm9

Intron Retention

Gene
ENSMUSG00000061207 | Stk19
Description
serine/threonine kinase 19 [Source:MGI Symbol;Acc:MGI:1860085]
Coordinates
chr17:34973375-34973848:-
Coord C1 exon
chr17:34973722-34973848
Coord A exon
chr17:34973512-34973721
Coord C2 exon
chr17:34973375-34973511
Length
210 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ACGCGCTTGCTCCACCACAGGCT
3' ss Score
6.34
Exon sequences
Seq C1 exon
CTTTCCCGGAATCCTGAAATCCGGGTTATGAATCGCAAGAGACGGCTCCTGGCGTCTGAGGCTTTTGGGGTGAAGCGGAGGCGGGCGCCGGGGCCCGTGAGAGCGGATCCTTTAAGAACAAGAGCAG
Seq A exon
GTAACCATGGCAACCTGGGCGCGGAAAGCCCGAGGGTATCCACCCTTGGAGGAGGGGGGGGAGGAGGAGGAGGAGGAGGAGGACCTAGGGTAGTAACCATGGCAACCCAGGCGCTGGGCAGCGACTCTGAGGGCTGGGGCGTCCGAACCTCCGCGCTGTCTCCACCCTCGCTCTCCACCCGGACCTGACCACGCGCTTGCTCCACCACAG
Seq C2 exon
GCTCGGCGCGCGAGGCCATCGAGGAGCTCGTGAAGCTGTTTCCCCGGGGGCTGTTCGAGGATGCGCTGCCGCCCATCGCGCTGAGGAGCCAAGTGTACAGTCTGGTGCCAGACCGGACGGTGGCCGACCTACAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061207-Stk19:NM_019442:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion (1st CDS intron)





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.200 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF104944=Stk19=PU(2.2=14.7)

							
A:
NA

							
C2:
PF104944=Stk19=FE(20.2=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000076686





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000124667, ENSMUSP00000125311
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr6:31972512-31972620 
ALTERNATIVE
HsaINT1043192
(STK19)
Human
(hg19)
chr6:31940289-31940397 
Rat
(rn6)
chr20:4516811-4516981 
LOW PSI
RnoINT0004977
(AABR07044389.1)
Cow
(bosTau6)
chr23:27206260-27206413 
ALTERNATIVE
BtaINT0142441
(STK19)
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: 
TTCCCGGAATCCTGAAATCCG

				
R: 
CAGTTGTAGGTCGGCCAC

				
Band lengths: 
262-472

			

		

	





	
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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