Special

MmuINT0052604 @ mm9

Intron Retention

Gene
ENSMUSG00000027560 | Dok5
Description
docking protein 5 [Source:MGI Symbol;Acc:MGI:1924079]
Coordinates
chr2:170655569-170658571:+
Coord C1 exon
chr2:170655569-170655688
Coord A exon
chr2:170655689-170658381
Coord C2 exon
chr2:170658382-170658571
Length
2693 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGT
5' ss Score
9.45
3' ss Seq
ACGTTTTGTTTTTCTCCCAGAGA
3' ss Score
8.99
Exon sequences
Seq C1 exon
ATCTTGAGGCAGACGAATGGTGCAAAGTTCTCCAGATGGAGTGTGTGGGGACCAGAATCAATGACATCAGCCTCGGAGAGCCTGATTTATTGGCTACCGGGGTGGAACGCGAGCAGAGCG
Seq A exon
GTATGTATGCCAAGTTTGCGCCGCCCATCTCTCTCCTAAACTGTTTTGCTCCCGTATGATGACACACAAGGCGTCCTCATCCTATACATTCTGAGTTATAAATATGTATGAAGAAGTTATAATAGCAGTCTATGTAAATGACGCAGTGAATGCTTTCCTCAAACGTTCTGTAATCTATAGTAGAAAAAAATCAACATTAATGGTTTCAGTCAGAAATGTTGAGGATCACAAGGTGTGCCAACGGAATGGAAGATGCTTATGAATATCCAACTGTTACATTTGCACAGAAGTCCCACCCTAGAGATGGTAGGACTCCCCCTCATTTTGTAGATGAGGTAAACACCTTGTTCCAAACGTACTATGGGCATTTGAAACTAGACTATGATCGTAGGCCTCTATTTACTACGATCAGACTTCAAAGTGTGATAATTTTCACCTTGCTGTTTCACTTAAAGTATGTTTGAACACTGTCCAATGTTCTTAATAGAATTTAACCCCAACCCTGAATATTTCATCAAGTTTAAACCCACTTAAAAACGGTGATTTAAAAGTAAAATTCAACCCCTGAGCCAACTCAGCTCAACACAGCATCGAGGAATAAATCTTTTAAAATAATCATGACCAAAATATTCATGAACACTTTAGCAAAAATCAATGTTCATTCATAGTCTGAGCCTAGAATAATTGCTTCATCTCCAAATAGCTCAGCCTAGTGGCTGGGGGATTGGATGCCACGGGTCTGCTTCAAAGCCTGCCTTGATCTACGAGCTCTTGTCAGAGTGGCGGGGGCTCTGGGTCACCTGGATGGATGGCAGACATGACTCAGGTGGAATTGCATTGGTGGTCTCCATGCCCACTCCAGTTGTTAGTTAAAACTGTGCTCCCTCCCTCCCAAGCAGTGCTGTGTCCTCATGACACATTTACAGTCTTTGCCCACCCTGAATGTACTGTCCCTACCACAATCTGTGGCCGCACAGCTGTTGTTCATCAAGACCTGGAAGTGTTAGCTTGAGCAGAGTTGCCTCTTGCCAGATTGGGAACTAGGGCCACAGAGAGGGGAAGTCACTTCCCATGGCAATTCACCTCTCCCCCCCCCCCCCCCCAGACCTTACTTCTGTGGTTCAGTCAGTCAGTGTAATGTTGGACAAAGGGGAGCTAGCCAGGGTGCTGGGGACACAGTCCTGGGCTTTGTTAGCATGGTAGGGCTCAATTGTTATGTTCTCTAGAATGGCCAGGTCAGCACATAGCTTTCAGACATTTCTGCCTGCGGCATAGTAGAAATGCACAGTGCTAAAATTCAAATTAAAAACCATGCCTAAGGTTTCCTTTTATGCTGCCATTTTGGTAGGCTTGGGGTTACTCTCATTATGGGTTCTTACAGAACTCCAGTATTTCTTTGAAAGTATTTTATATAGTCTTATTTTGTAGGGGTTCAAATAAGTACAATTAAAATGGTTTCTCACCAAAAGCATGCTGGGCAAGCACTCTCCCACTGATCTCTCTCCCGCAAACCCCACTAATTTATCTTATAGCAAATCAATTTGCCTCTAAGAGAATCCATTAACAATGACCCCCCCCCCTTTACCTATGACATACTGAAGACAATTTTAAAGTCATGGGCCCAGAACTCTCAGGGGACATAATGTGTTTCATGATAGTTTCTAGAAATCCCTCAACGTTTGGCTATTGATAGTTTAAAATAAATTTATAAGCTTAAATAGCAGGTGACTAAGCCCATTCATGAACACAATCTTGATATTGCTATTTACCAACTTCAGATAAAATAGATAGATTTGGATGATCCCTCCTATTATAGAATAGCTAATTTTGAACATTCCTAATATAAAACTGTTAGCATCACACTATCCTGTCAGCCATCTGGGATCTGCTCTAGGATGGATGGATAGAATTGTGCTTGCAGGTGCTGTAGCATTTTTGTTCACGTTTCATTTAGAGGTTTTTGACTCTGTAACTTTTTATGTTACTGACTTTTCTAAATAGCAGTAATAAAAGCAGTGTAACTGCCTGCAGGTGAGCTCTTGTTTACAGCCACCAGCTAAGTTAGTTATCACAGTCTCGGTGACATTTTCAACAGTCACCCAGGAGGCAGAGGGCTATCTTTTTTTGCAGCGTTGACTAAGGAAAGTTCTTTGTTCAAACTCGAAGAATATCCCTTTGACATCGTCACAATTGCACGCTGTTACTGTGGAGCGTGGTTTAAATAATTTTACTGAGCCGATGGTAGAACTGTAAGCTGACCAGTGTTACTTTAGGACCACAAATCACAGATACAGCCTTCTACACTGTATCTTTTGTGAATATGAAAGTGTAGGTGTAATTAATGTGTGCTCTGCAGGGGAAAAATTGCTTTTAGCGGTTTCATGGCTCTGATCTTTTATTGGCGTACATTTTTTTTTCCCACGATGCAAATTGAAAAGGTCTACAGATGATCTTTGTTCGTGTAAATAGTGCTTAGTGTGGGTTGACACCCAGAGTGTATCATTATGCTGTGTAACAGCACCTGCATTTAAAAACTCATTTTTTTCTGCGACAGTTCATTTATAACGTTTATCTTCCTGAACACTCCACCAACCCCTAGCATGTACATATTTGTTAATGCTTTTTGTGTTCCTGCGATGTCTTTGCTCTTTCATTTCTGGGGATTTTAGACTAACGTTTTGTTTTTCTCCCAG
Seq C2 exon
AGAGGTTCAATGTGTATTTGATGCCATCTCCTAACTTAGATGTACATGGCGAATGTGCCTTGCAGATTACATATGAGTACATCTGTCTTTGGGACGTCCAGAATCCCAGAGTTAAACTCATCTCTTGGCCGCTAAGTGCCCTGCGGCGTTATGGACGAGACACCACGTGGTTCACTTTTGAGGCAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027560-Dok5:NM_029761:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0016924=PH=PD(14.3=36.6),PF0217412=IRS=PU(2.0=4.9)

							
A:
NA

							
C2:
PF0217412=IRS=FE(64.3=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000029075





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr20:54588807-54591615 
ALTERNATIVE
HsaINT0051478
(DOK5)
Human
(hg19)
chr20:53205346-53208154 
ALTERNATIVE
HsaINT0051478
(DOK5)
Rat
(rn6)
chr3:168438566-168441212 
ALTERNATIVE
RnoINT0050528
(Dok5)
Cow
(bosTau6)
chr13:82696458-82699410 
LOW PSI
BtaINT0052091
(DOK5)
Chicken
(galGal4)
chr20:12607316-12608066 
ALTERNATIVE
GgaINT0011716
(DOK5)
Chicken
(galGal3)
chr20:12225648-12226398 
ALTERNATIVE
GgaINT0011716
(DOK5)
Zebrafish
(danRer10)
chr24:14909681-14916874 
LOW PSI
DreINT0059470
(dok6)
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"