Special

MmuINT0170622 @ mm9

Intron Retention

Gene
ENSMUSG00000063626 | Unc5d
Description
unc-5 homolog D (C. elegans) [Source:MGI Symbol;Acc:MGI:2389364]
Coordinates
chr8:29830089-29834878:-
Coord C1 exon
chr8:29834693-29834878
Coord A exon
chr8:29830467-29834692
Coord C2 exon
chr8:29830089-29830466
Length
4226 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
TCATCTTTTTTTCTTACTAGGAA
3' ss Score
10.69
Exon sequences
Seq C1 exon
GCATTGAGAATGCCAGCGACATTGCTTTGTACTCCGGCTTGGGTGCAGCCGTGGTAGCTGTTGCGGTCCTGGTCATTGGTGTCACCCTCTACAGACGGAGCCACAGTGACTACGGAGTGGATGTCATTGACTCTTCTGCATTGACAGGTGGCTTCCAGACCTTCAACTTCAAAACAGTTCGTCAAG
Seq A exon
GTCAGCGGCATAGGTCCCCCAACACCTCATCCTTAGGACCACTGGCTGCACTTACACAGGTGTCCTCCGTGTTCTTGATACTGTGCAGAGGTAGCTTGTGGTCCTGGGAGCCGCTACCAAATTGTTTCCATTCATTAACACACCATATTTGATAAAATGATTTTCTTGGTCCTCAGCAACTGTGAGGATGTATGGGTCTCAATTTATTATTGGCAACATCCAATGAAATAGTTCAACATTTGATACAGAGCACTCCTCTCAAATTATCCAACTTCATCTTTGAAGAACCCTAGTTTTAGTTTATGTGTTTAATTTTATTAACTAAGATACTGAGTACTAAAAACTGAGGACACAGCCCCAGAACAAAACTACCCAAAACCTTTATTACACTGGTTTTTAAAATTTCTTTAATTTCAAATAAATAAAAAGGGTTTAGATGATATCGGAGGGATCAGGTATGTGAGGACAAAATGAAATACCAGCCTAAATTACTTTCAGCTATTGCCAAGGCTGACCAATCTTTTGTTGTGGAGAAAGAAACATTTTTCATGTCAAGGCACAGAGATGCTCTTTTTCAGAACAGAGAGAGTCATTTAATCCTCTATTATGAAGCAAACCTATCCCTGAATACAAGGTGGGGATGAGACACATTTGGTTTTAATATTATGAAAAAAGTAACTGTCTCTCTTCAAAGGATGAAGTTTTGGACCGTTACCCTCATTTTCTATAATGTCCCCTTTATTTCTATTCATTGTATAGATATCACCTATTCTAAAGGCTAGACAGTTTCTGCACTCAGCATTTATTGGGTAGACAGATTGCTGAAGTAGAAGCCCAAACCTGCTAGAACAAGCAACTGAGATAAAGCTTAGAGAATAGGCTTCTCCCCTTGGCTTTTATTTTTGGGTACCTTGGTGTTAAGCCATTATTTTTAAGCCACTATTGTGTACAAGTTCACCTGCTTTGAAGTCAGTTACGTTAGAATATGAAACCGCTATGAAGCAAAACAGTTATTCTGAGTCACCATTTCACAACTATAAAACAGGAATGCTAACATCCTCCTCATGGTGTTCTTGTGAAAATGAATATGCTGAGACTAACCTGGGGAAGCCCTTGGCATTTGAGGAGAGCTCATTCTCTCAAGATAGCTCTAGATGCTCACGTGTCCTCTAACCATGGGACAGCAGCATGCTCTGTGGAGCAGCAGGCAATGAATATGAGAGGGAGGTAGTTGCCTGGCCTGAATACGTTTGGGCGACAGTGATTTACATAGATTGGCCAATGTCCTCATGGAGGAGTGATTCAGAACATCAGTATATTGCGAATCTCTAAAAAGAAATCATCTTATCAGATCGTCTGACCATTCTGTTTATTTTTGGCTAAGAATCTCATAAATCTCAGGATAGAAGACAAAAACTCTTTTGTTAACTGCTACCATCCCCATATCCATTGCCAATGAATCTCATTTTTATAGACTGTGACTTTGACCTCCACTGTCTTCAAGGTGATAGCTTGATGAACAACATGTCCGGTACCCCAAGAAGGGGAACAGCAAGAATGTTAAGCAGAATTTTGTCCTAGTTTTCTTTCTGTAATGAAATTGTAATTAAATACCCCCCCCAAGAGAAAGTTAAGGGAAAGATAGTTTATTTGGTTTACAATTGCAGATGGTAGCCCATCATTGCTGGGAAGTCAAGGTTGATATTTGAAGCAGCTAGCCACAGGCATCACGGTCTATATCAGAGAAAATGAATGCTTATGCTTTTACTTGTTCTCAGCTCACATTCTCTGCTTGTACATAGTTCAACACCCAGGGAACGATGTTGCTTTAGAAGGCAGCTTCTTCCCATATCACTTAATATAACCAAGACAATTCTCCACAGACGTGATGGAAGGCCAATCTGATTTTGATAATCCCTTATGCCAGGAGATTCACGCTGAGCCAAGTTGACAGTTAAATTAAAACTAACCATCGAAATCATCTTGGGTATGGTAGATGTAGACGACTTGTTCCACAAGTGTAAAGCCCTTGGGTTCAATAGATAAGAAGATAGAAGGGAGGGATGGAAGAAAGATAAAAAGTCAGGCATATGGAAAGAATACAATGCTTAGGTTAAATGAGGAAAATTGTTTTTTAAAGAGAAGGGAGGGGTAACAAGACAGCAGGAAGAATAGCTGGCCTTAATCAGGCTTCGGTCAGGTTGGCAACCAACACTTTCAACTATAGACTTATACATTTGAGTGTGTATATGTGTGTGCTTTCCCTGTGTGCTTTTCTATGTCTGTCTGTCTGTCTATCTCCACTCTCTCTTCTCTCTTCCCTCTCTCCCCTCATGTGTGTGTATATTTTCTCTGTCTCTGACTTTCTCCCTGTCATCTCTGTTCTGCCTCTGTTTCTGTCTCTTTGTGTGTTTTTCCTTTTTGTTTTCTGTCTGTCTGTCCCTCTCTCTTTTTCTCCCTCCTCTGTCTGTCTCTGTCTCTCTTTTAATTTCTCTGTCTCTCTCTACCTTTGGCTCTCTGTTTCTGTCTGTCTCTTTCTCTATCTCCCTGTCTCTCTGTCTAGCTCTCTGTCTGTCTGTCTGTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGCATCTGGGTATTTTCCATGTCTGTGCTAAGTATCAGAAATATTTTCCCCCATATGCTAAGCAAGTCTTTCAAAAGTAGCCAAAAATTAAGATATGAGTTTTTGAAGTCTCCATGGAAACTGCTATTTCAAACTGTTTTCAAATGTGCTGTGTTCTTTAGTCCTCCTTTTTTCCTGTGGAAGACCACAGACAGGAGCAAGGTTATCATCTATTGAACTCTGTGTGGTCCTGTTAAAAAAGACTGCTTGATGGTGGCTGCATCTTAGCACAACAGCCCCTAGATGGAAAAGGGGCAACATCAAAGGGCCATTATAGTTGCATTATCTTTTTGTGTATTTTCTCTGTGATTCTTGATTCTTAGCCTATCCCAACAAGGGGTGAGAAAATCCACAGTGATGGCTCCCCTCATGGCACTGTTACAAATTGGGAAAATAGACAAACAATAGAGACTAATACAATACAACCTAGAATTGAAGCATTTTCAAAAATACCACATTTAAAACATGTTTTTTTTGGTCAGGTCCCAAAAGAATATTGCTTAATATGATTTGGGTTTCTACTTGAGCTGTCATATTGACGAACTGGTAAGGGTGGGAGGCTGGGGAGTGAGGGTTATTCTGTTATTTACTAATAAATGCGATTACTTCATCACGAGAAAAATATCACAGCCTTTTTAATATCTGGCTTGGAAAAAAAATGGTGAGCCCAGCAGATGACTAGAGCACTGTCCAATTTCTGCTGTGTTGTGTGAAGACTGTTTTGTTCATTTTTTTTTAAACCAGCAAGGTACCTCCTTTCTGAGATGCTCCCACTTGCAATCCAAGCCACTCTCTGCTGCAGCATTCTTTCCCTCACAGAGTGACATCTGTGATGTTCAAGTACATTGGCCCCTCAGACTTAGAGTGATTCATAAGTCCCCTGAACTATTTGCTCCAAAGCATGCTTGCTCCCCCGGCTCCAGGAGCTGCTTAGAATTTTACAAGGAATTTTCCACCTCCTCTGTGGGCTCTTGTCTGCAGCACCAAGAGTCACTACACGGTAGCATCTCTTGCTATTTAAAAGGAACAGATGTTATTTTGCTCCTAACTGGGTTGCAAAACATCTTTCTGGTTTTTGTTTTTTTTTTTTTTCCTTTCCTTTTCTTTTTTAACTTTTCTTTGCCAGTTAAGATAATCACACAAACACTACCTGAGGCAAGTGGCCCTAATCCAGTGTCAGACATGTTTGTCTTGAAAAGGAGGCATGTCAAGAGTGTTAGATGTGAGGGCAGTGAGGGCATGATATTCAGAAACTGACCTGGAAGGTCAGAGGTCCCCATTCCCAGCCACTGGCATGGTTCCACCTAGGTTAGCAGGGGAAGCTAATACCAATCAGTACATCCAACGCCAATACAAGATGTTCTCCTTTTAATAGAGGCAACTGCAAAAAGAGTGATGGAGGTGTCTTTTAGTGTCTGAGTGACAGATCATCTTTTTTTCTTACTAG
Seq C2 exon
GAAATTCTCTACTACTGAATCCTGCCATGCAGCCAGATCTGACTGTGAGCCGGACATACAGCGGGCCCATCTGTCTGCAGGATCCGCTCGACAAGGAGCTCATGACAGAGTCCTCACTCTTCAATCCTTTATCTGACATCAAAGTCAAAGTCCAGAGCTCATTTATGGTTTCCCTGGGAGTGTCTGAGAGAGCGGAGTACCATGGCAAGAATCACTCGGGGACTTTCCCCCATGGAAACAACCGCGGATTCAGTACAATACATCCCAGAAACAAAACGCCGTACATCCAAAATCTGTCATCACTGCCGACAAGGACAGAGCTGAGGACAACTGGTGTCTTTGGCCATTTAGGGGGACGCTTAGTAATGCCAAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063626-Unc5d:NM_153135:10
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=0.242
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
NO

							
A:
NA

							
C2:
PF0079115=ZU5=PU(20.6=16.5)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000131104





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000077670, ENSMUSP00000128521, ENSMUSP00000131508
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr8:35722396-35726151 
ALTERNATIVE
HsaINT0177914
(UNC5D)
Human
(hg19)
chr8:35579914-35583669 
ALTERNATIVE
HsaINT0177914
(UNC5D)
Rat
(rn6)
chr16:67522587-67526996 
LOW PSI
RnoINT0160648
(Unc5d)
Cow
(bosTau6)
chr27:30993456-30997867 
LOW PSI
BtaINT0157603
(UNC5D)
Chicken
(galGal4)
chr22:1888176-1889628 
ALTERNATIVE
GgaINT0136164
(UNC5D)
Chicken
(galGal3)
chr22:1902867-1904319 
ALTERNATIVE
GgaINT0136164
(UNC5D)
Zebrafish
(danRer10)
chr5:26745046-26754622 
LOW PSI
DreINT0171894
(unc5db)
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"