Special

MmuINT0052590 @ mm9

Intron Retention

Gene
ENSMUSG00000035711 | Dok3
Description
docking protein 3 [Source:MGI Symbol;Acc:MGI:1351490]
Coordinates
chr13:55625842-55628998:-
Coord C1 exon
chr13:55628693-55628998
Coord A exon
chr13:55625942-55628692
Coord C2 exon
chr13:55625842-55625941
Length
2751 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GACTTAAATCTATTCCTCAGGGT
3' ss Score
7.25
Exon sequences
Seq C1 exon
AAATGCTGGCGCAAAGTGTGGGCTCTGCTGTATGCGGGAGGCCCATCAGGGGTAGCTCGGCTAGAAAGCTGGGACGTGCGTGATGGTGGCCTGGGACCAGCAGGCGACAGGTCCACAGGGCCCAGCCGTCGAGGGGAACGCCGGGTCATACGCTTGGCTGACTGTGTATCTGTCCTGCCTGCGGATGGCGAGAGCTGTCCCAGGGACACTGGTGCCTTCCTGATTACCACCACTGAGCGAAGCCACCTGTTGGCTGCACAGCACCGCCAGTCCTGGGTGGACCCCATCTGTCAGCTGGCCTTCCCG
Seq A exon
GTGAGTATGACATGAACTAGCCTGCTGGGACCACCTCACCCCGCTCACCCATGTCCTTGCTTAGTCAGATCCTGCCACATGGTAAACATTGCCAAACCCTGTGAATATGAGCAACAGCTTAGAAACCCATAGAAGGATCCTATATTCTATGCATGTTATAGAGAAAATGAAACCGTAGGTCAGGAGGATGTGTGGGCCTGAGCCCTGAATGACAAGAGCAAGCCCCCAAGGCAGTGGTCTGAGACAGGTGTCTGAGCCAAATGGACAGGTACTGGAATACAATGGTATCATGAGCAAAGGCCCTGGGGCAGGAAAACATGGTGTGTGTAAAGGAGCAGAAGTAGGCCAACCAGCGGCTTAGGCACACAAGTGTGAAGACATTGGAATGTTCAGTGAGAGCCTATTGAATCCACTTTGGGCCACGTGTGGGTGAGAGGTTTTCTGATGGACCAAAGGGGATGGCTTTGGGTATTAAAGCCAGAGACTAATGGTGGTAAAGTCTCTGGGTTCATGACAGAAGAGACAAACACGCCTGACTTCCTCAGCAAGTTGATCTTGGGAGGCAGAGCAGCTGGAGAGATGGCTCAGTAGTTAAGAGCACTGGCTGCTCTGTGGAGGGCCTGGGTTCAATTCCCAGCACTCACATGGCAGCTCACAACTATAAGTCCCAGGGGTTCAGACACCCCTTTCTGACCTCCATGGGCACTGTACGTATGTGGCACACAGACACAGCATCCTTACATATAACAATAGGTAGTAACCACTTTAAAAAAAAATCCATCAGCCAGGCGTGGTGGCACACGCCTTTAATCCCAGCACTCGGAGGCAGAGGCAGGTGGATTTCTGAGTTCAAGGCCAGCCTGTTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAAACAAAAACAAAAAAAAAAAAAAAAAAAAAATCCATCATGACGTCATTATACGGCTGCCGTTCTCCCACTTGACATATAGCCCAGAGAATGAAAGGTGTGGGCAGAACGTGGGCCAGTGCTCACGGCAGCACTGTGTAATCCTCCACACTGAGACATCACGTGACCATCCCCCAAGGAAGAGAAAAACAGGACCTTGGGCTGGGCCAGGTGCCACAGTCTATGACCTCAGCACTTGGAAGGCAGAGGGAGAAGGATCAGTTCTGTGGCCAGCCCCAGGCCAGCCTGGGCTACTTGAGACCCTGTCTCAAAACCAAGATAAAGAACAGCTAATGCTGAAATATGACATAAGACACCAAAGGGCAACATGTGCGATTTCCTAATGTTTAAACTTCACAGGACTCTCAGAATAAGGCTATCTGCATAGCCAGGCGGCAGGTGCATGTGGTGCACAGGGAGAGGGTTCCGACAGCTGCCTCATGGGGACACGCTTCCGTTGGACACAATGACAGGTTCTGGATTAGGTGCTGCTGACAACTGTACAAACTTGTGAATGTACCAAAATCCACCAAACTGGGCGCCTTAAAATAGCAATGTTGAGGGCTGGGGGAATGAGTCTGTAGTTAAGAGCACTGACTGCTCTCCCAGAGTAGCTGAGTTCAGTTCCCAGCACCCACATGGCAGCTCACAGCTGTCTGTAACTCCAGTTCCAGAGGACCTGACACCCTCACACCAATACTCATAAAATGAAATTGGAAAAATAAAAAAGAATAGTAGTATTGATTTGTATTGTTGGTTTGTTTTGAGACAAAGGTTTCTCCGTGTAGCCCTGGCTCTTCTAGAACTTACTCTGTAGACCAGGCTAGCTCTGATCCACCTGCTTACCTCCCAAATGTTGAGATTAAAGGCATGCACCGCTTGCACAGCTACTACCATACCACTGCCCAGTTTATCACTTTTGTTTTTTTAATTAAGACATGCACAGAGCCAGGCAGTGGTGGCACACTCCTTTAATCCCTGTGTTTGGGAGGCAGAGTCTGGTCAGTCTCTGAGTTCAAGGCCAGCCTGGTGTACAAGGAAATAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAATAAGAATAAAAAAGGAAAGAAAGAAAAGCACAGCTGGTCAGTGGTGGCACACACCTTTAATCCTAGCACTTGGGAGCCAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGCTCTACAGAGTAAGTTCCAGGACAGCCAAGGCTACACAGAGAAACCCTGTCTCAAAAAACAAAAACAAAACAAAAGAAGAAAGAGAGAGAGAGTAAAATAGAAAAAAGAAAAGCACAGGACGAAGTAAAGGAAGAGGAGGCGGGGTTTGGCTTTGGCAGTGCTCATGGGTCAAGGTGATCATGGTGGCCATTTCCTGACAGATAGGACTGGATGTAGGATGGAGGTCAGGGGAGGTCAAGGGAGACCTGTAAGTGACTATAGAAGAAGCCGGGACATTTGCTTGGTGCTACCCCTGCCTCTATACTGCTGCATGCCACCCAGAGCTATATGCAAGCCAGCACATGTGCTTGCAGTTGCTTAGTGCCTTATGGCACCAGGAATAGCCTTACTCCAAGACCAGCACTGCCAGTGGAGCCCAGTGGGGAGTGCTGCCCCATAGTACAGATAGGAAATGACTCAGGAGAGCCCGGCAGTGTGGGTCAGAGTGGGACCTGGCGGTGGAAGTTTTGTCTGCTGAGCCCATGGAAGGGAACGGGGAAAAAACAGGGTGGGCTCTAACGGACGACTTAAATCTATTCCTCAG
Seq C2 exon
GGTACCGGAGAATGTTCGTCAGGATCAGGACAGGCTGAGAGTCCAAAAAGGGGCTTTGTTCCCATGGAGGAAAACTCTATCTACTCCTCCTGGCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035711-Dok3:NM_013739:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.186 A=NA C2=0.544
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0016924=PH=PD(85.5=98.0)

							
A:
NA

							
C2:
PF0217412=IRS=PU(1.0=2.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000046695





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000046695f3440A
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr5:177505111-177508236 
ALTERNATIVE
HsaINT0051464
(DOK3)
Human
(hg19)
chr5:176932112-176935237 
ALTERNATIVE
HsaINT0051464
(DOK3)
Rat
(rn6)
chr17:9640498-9642773 
ALTERNATIVE
RnoINT0050514
(Dok3)
Cow
(bosTau6)
chr7:40363605-40365766 
BtaINT0052080
(DOK3)
Chicken
(galGal4)
chr13:9507300-9507380 
ALTERNATIVE
GgaINT1011787
(DOK3)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
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






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"