Special

MmuINT0170581 @ mm9

Intron Retention

Gene
ENSMUSG00000025876 | Unc5a
Description
unc-5 homolog A (C. elegans) [Source:MGI Symbol;Acc:MGI:894682]
Coordinates
chr13:55100983-55103914:+
Coord C1 exon
chr13:55100983-55101285
Coord A exon
chr13:55101286-55103826
Coord C2 exon
chr13:55103827-55103914
Length
2541 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TGACCCCTCTGCTTTTACAGGAA
3' ss Score
11.24
Exon sequences
Seq C1 exon
ACAATCCCCATCTGCTCACCATCCAACCGGACCTCAGCACCACCACGACCACCTACCAGGGCAGCCTGTGTCCCCGGCAGGATGGACCCAGCCCCAAGTTCCAGCTCTCTAATGGTCACCTGCTCAGCCCACTGGGCAGTGGCCGCCATACGCTGCACCACAGCTCCCCCACCTCTGAGGCTGAGGACTTCGTCTCCCGCCTCTCCACCCAAAACTACTTTCGTTCTCTGCCCCGCGGTACCAGCAACATGGCCTATGGGACCTTCAACTTCCTCGGGGGCCGGCTGATGATCCCTAACACAG
Seq A exon
GTAGGCCCCTAGAACTCCCCAGAGAACATGAGAGGTAAGACTAGTCTTGTCATCTTTTCGTCCCAGAGTGCACCAGCCTCGTGCAGAGTGGCCCAGTCTGGCCAGTATAGGAAAGGATGCAGTTGGCGCTATAGCAAAGCTGTGGAAAGGGTCTCCTTGTTGCTTGTGGACACGAAAGGATTGTATGTTCATTTATCACACAGTCAGCCTTACATGTTGATAGGTGCTGCATCGGGCCCTAACACCAGACCCCAGAGGCTCACAAAACAAGACAGCAGAGCACCCCTTAGAACCTGCCCCCTCCCAGCGTCCTCCATCTCATCCACCACTCCACAGAAGTGCCTCAGACAGGGTCCCTGAGACCTCTTGTTAGAAGATCCACAGACCCTCCAAAGGCCATCTTTGGAGAAATCTCTGCAACCTCTGACAAGGCTGACCACCCCACTCTGACATTCTCTGTTCCCTCTCCTTAGGTGACCCCACATACTCCTGTTCTTGCCCATCCCTGGCTGTTCCGGTATAGGCGTTCCTCAGGGATACCCCTCCCCAACCCACCCCCACTTCCGCCCGTGCCATTTCTGAGTGATCTCACCTACTCCTCCATCCCAGCCCCCAGTTCTTGCAGAGCATTGGAACTCTGCATTCAGCTGCCTCTTGGACAGCTCCATCTGCCTGTCTCACAGCACCTCGGAGTCTTTGTGCCGAAAACAGAACCGTCTCCCACCCTTTCTCTCAGCTACCTCCTCCCTGGCTTTCCCCGGCTCACGGTTGGCACAGTGTCATTGCTTAAGCTAGAAACTGGCCTGGGGTCACCTTGGGCTCCTGCTCTTTCTATTCCCACCCCCTCGCTATAAGTCAGCTGTATCACATGATGTTGCATGCTCCCCCTTCCCAATAGCTCCTGTCTCCTCCTGCTCCTCATCCTGCCCTGGTGCGTCACCACACCCAGGCTAGCACCTCCCTTACCTCAACCGCGGCATCTACACATTTACTGAATGAATCTAGAGTTGATTATGCCCCCTCCCCACTCAATCCCTTCTAAGGTTCCCAGTTGCTCTCTACAGAGCCCCAGTGACAAGGCTAATGCAACCCACCCACTGCTGGCTAGCCGCTGTGTGCTTTTCCCTCCTATATGCAGTTCTGTATGTGACAGCCCCTACAGACCTTTGGCACCTGAACACATGACACTGTCCCTGGCTCATAAGTAATGGTCTTTCTACCTTTCCTCCTGGCTCATCTGTTGTTGCTGCCTGTGCCTCATACACCCCTCAGGACAGGGCATGAGAAATTCTCATAGCTCAGTGAAGTGAGCTGGTCCCTGTTAGCTGTAACAAAAAGGCAGACAGATGGTGGGTATTCCGTGGCCCCTGCAGTGTGCCCACCCCTGTGTCCCTCTCTGTTGTCTAGTTGCCTCTCTCCTTGCTGGACTGAGAAAGCTAGCGCCCTTTTTCCTCTTAGCTTTCTGAGTGGCCAGCATGAGTATTCAATCTTGAATACTACTCTCCAGCAGGCATTCACACCAGGAGGTGTGTGACTGCCCCCGACTCCAGGCAGCATCAGGTTCTACGGTCAGCACAGGTTAGTGAAGGAAGCAAAAGATTCGAGCACATGGGTTCGAGCTGTCTGTGAGACAGCTCGGTGGTAAGACCCATCACTCGGTGGTAAGACACGGACAGGTACACATCGTAGAGCACACTTAAACCACTCGACAGCTTCAGTGTCGGGAGGCTGTGTGACCCTATGGAACCATCACTGTGAGTTTGTAGAATATAAGTGTCCTTACATAGCCCTTGAACAGCCTGAGAGTCCAGCCCAGCAAACAGTGGAGCTATCTGCTGTTTTAGGGGCAAAGTCACAGAATGTCTCCCCTTTTCCTGCCCTCAGAGCAGGACCTCAATGCTGCTCTCCGTGATGTCTCAGCCCTGCCCTTGCTGTCTCCACTACAAAACTCCCCTTCCTCCACACACTGATACCACTCCTGGGGCAGAGGCGCATCAACAGACCAGGAGGACATTGGAGCCGTAGATCTTGGCCCTTGAGGGCTATTATAGACCTGCCCCCCATCCCCGCAAGGATGGAGACAATGACAGGAAGAGACCAGTTCTTAGAGGGGACAGGACTAAGGGGGGAGGAGCTTGAGCAAGACCAAAGGCCCCTGTTCTGGAACCGCTGAACGTAGCAAAGTTGGGCAGAGGGACCGACTGCTGGGATGACAGTCAAGAGCCTTCCATGGCAGGCCTGGAAGATGGGGAAGGTTTTAAGCAGAAAGTACCCTGGTCCCAAAGAACGGAACAGGATGTAGGACGCACTTCCTTGGTGTCTTCTTGCCCTACTTTAGCTTCTAGCTGGGTTGCCTCAGATGTTCTTGGAGTCTCCCTGACTCAGAGTCGTGCCTATGTGGGTGGTGGACAGTATGGCAGTCCTTGAAACACCTCTGTCCCCAGACAAGGGCGTCTGAAGAGGAAACTCGTGGGTCTGGCTAGTTCCTGGGTAGTTATTGGGTATCTGTAGCCACAAGCCGTGACCCCTCTGCTTTTACAG
Seq C2 exon
GAATCAGCCTCCTCATACCCCCGGACGCCATCCCCCGAGGAAAGATCTACGAGATCTACCTCACTCTGCACAAGCCAGAAGACGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025876-Unc5a:NM_153131:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.217 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF150691=FAM163=PD(49.0=89.1)

							
A:
NA

							
C2:
PF0079115=ZU5=FE(28.2=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000026994





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000105621, ENSMUSP00000116585
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr5:176874567-176877191 
ALTERNATIVE
HsaINT0177858
(UNC5A)
Human
(hg19)
chr5:176301568-176304192 
ALTERNATIVE
HsaINT0177858
(UNC5A)
Rat
(rn6)
chr17:10156446-10158976 
LOW PSI
RnoINT0160597
(Unc5a)
Cow
(bosTau6)
chr7:39687355-39689652 
LOW PSI
BtaINT0157551
(UNC5A)
Chicken
(galGal4)
chr13:9655113-9655174 
LOW PSI
GgaINT0019310
(UNC5A)
Chicken
(galGal3)
chr13:10412182-10412243 
LOW PSI
GgaINT0019310
(UNC5A)
Zebrafish
(danRer10)
chr13:29080981-29082052 
LOW PSI
DreINT0171867
(unc5b)
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"