Special

MmuINT0132004 @ mm9

Intron Retention

Gene
ENSMUSG00000004952 | Rasa4
Description
RAS p21 protein activator 4 [Source:MGI Symbol;Acc:MGI:1858600]
Coordinates
chr5:136567064-136567679:+
Coord C1 exon
chr5:136567064-136567177
Coord A exon
chr5:136567178-136567617
Coord C2 exon
chr5:136567618-136567679
Length
440 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGC
5' ss Score
8.89
3' ss Seq
GACTCTCTCTCCACCCCTAGCCG
3' ss Score
8.56
Exon sequences
Seq C1 exon
GACAGCCACTGTGTGGAAGACCCTGTGCCCCTTCTGGGGTGAAGACTACCAAGTACACTTGCCCCCCACGTTCCACACGGTGGCCTTCTATGTCATGGATGAGGATGCCCTTAG
Seq A exon
GTAAGCTCACCTGCTCTGCAGCCGGACCAGGATGTGACCATTGCTGTGACTGCTGGTCTCTCTCTGCGTCCTCTTTATAGCCTGGTGGGGATGTCCAGAGGGCCTGAGGAGAGGTGGGACTGTGCCTGTGTATTGACCTGCCGCACACAAATGTATGCATATGTGCACGCATGTGAGCACAAGTATGCATTGTGGTATGACCTATGAAGTGGGCACCCAGAGGGCATGGGTTTGGTGTGCTGAAGATCTCAAATGCAGAAGTGTGTCATGTACCATGAGAGTGTCTACAGCCTGCACAGGCATTCTGTGTTCTGCTCTATTGTGCCGTCCTGCAACTGATGGCTCCCTGGAGGATGGGGGCAGAGCTATAAGGGCTGAGCTTGCTGGGCTCTAGGCAAACTGGTTTCATAGTTCAGCTCTGACTCTCTCTCCACCCCTAG
Seq C2 exon
CCGGGACGATGTGATCGGGAAGGTCTGCCTCACGAGGGACGCGCTAGCCTCTCACCCAAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004952-Rasa4:NM_133914:3
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:
PF0016825=C2=FE(46.3=100)

							
A:
NA

							
C2:
PF0016825=C2=PD(11.0=40.9)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000037869





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000098136
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
No conservation detected
Human
(hg19)
chr7:102150108-102150625 
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
chr25:35070972-35071452 
LOW PSI
BtaINT0001037
([1])
Chicken
(galGal4)
chr19:4172921-4173117 
ALTERNATIVE
GgaINT0129966
([2])
Chicken
(galGal3)
chr19:4139100-4139296 
ALTERNATIVE
GgaINT0129966
([3])
Zebrafish
(danRer10)
chr5:58628242-58634230 
DreINT0124785
(rasa4)
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"