Special

MmuINT0131224 @ mm9

Intron Retention

Gene
ENSMUSG00000024096 | Ralbp1
Description
ralA binding protein 1 [Source:MGI Symbol;Acc:MGI:108466]
Coordinates
chr17:66208313-66210945:-
Coord C1 exon
chr17:66210596-66210945
Coord A exon
chr17:66208475-66210595
Coord C2 exon
chr17:66208313-66208474
Length
2121 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
TCTGAATCTGTTGTCTGCAGATC
3' ss Score
8.68
Exon sequences
Seq C1 exon
GAATCAAATCAAAGGTAGATGAGCTAAAAGCAGCCTATGACCGAGAGGAGTCTCCAAACTTAGAAGAATATGAGCCTAACACTGTAGCCAGCTTGCTGAAGCAGTATTTGCGAGACCTTCCAGAGAATTTGCTTACCAAAGAGCTTATGCCCCGGTTTGAAGAGGCTTGTGGGAAGACCACAGAGATGGAGAAAGTGCAGGAATTCCAGCGCTTGCTCCGGGAACTGCCGGAGTGCAATCATCTTCTGCTTTCCTGGCTCATTGTGCACCTGGACCACGTCATTGCGAAGGAGCTGGAAACGAAGATGAACATCCAGAACATCTCTATAGTGCTGAGCCCCACCGTGCAG
Seq A exon
GTACGGTCCTGTCCACACACACACTTTTGGTACTGGCACTGGGAAACTGGGGAACTCGTCTGTTGCTGAGTCTCATGGAAAACAGTGAATCTAAGGGGAATAACGGATCTGCCTGGTCACAGATCTTCTCTGTCCAGGTGCAGGCAGTGCCAGCGTGTAGGGGAGCGAGCGTATTTGTCCTTTTGCTTAGTTGTGAAATGCGAATATCCTGTCAGCTTGGATCAAGCCAAAGGGCTGTAATGTTCGTATGGCAGTTCTTTCTGAGGACTTCACCTGTGAGATGGATATAGAGAGAGATGCTACATTGCCTCTTTGTTTGGTTGGTTTGGTTTGGTTTTGGTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAGTCCTCCTGCCTCTGCTTCCCGAGTGCTGGGACTAAAGGCATGTGCCACCACGTCCAGCTGCTACTTTGCCTCTTAATCGGAGAAGTCATTGAGGGAATTGAGTAGTATATTGCTTGTATTGTTTTTGTTTTGTTTTAAACACTTGCATATCTGGCATCCTATTGTATATGTATGTTGAAGTTCATATGTAGGAATTTCATGTGTGTTGCCCATACATGTAGATGTATGCATGTTTATGTGGTGGTCATAGGACAACTTTGTTATTGTTGCTTAGGCACCAACCATCCACCTTTTTTCTCTTCTTATACAGGGTCCCTCACTGGCCAGCAGGCTTCAGGGACCCTCCCCAGGCTGGGATTATAGGTGTGCACAACCATGCCCAACTTTTTTTTTTTTTTTAATGAGAATTAAGAAGCTTGACCTCAGCTCTCTTGTGCCTGCGTGCTTTATTGGCTAAGCTATCTTCCTACAGAGCCTTTACCACTACTCAGTTGATGCTGCCAAAGAAAGACTTTGCATTTAGAAGAGCTGACATTTTACTGTGTCAGAAACGGGGGGTGGGGGTGGGGGGTGGAGAGATGGCTCAGCAGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGAAACCACATGGTGACTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGTTATAGTGTATTCATATAAATAAATAAATCTTAAAAAGAGAGAGAGAGAGAGAATGAAGAAAAAAGAGAGGGGAAAAAAGGAGACACTGGTTCTTTTTTGTTTGTTTGTTTGTTTTTGTTTGTTTTGTTTTGTTTTGTTTTTTTTAGAGAGACAGGGTTTCTCTGTAGCCCTGGCTGTCCTGGAACTCACACTGTAGACCAGGCTGGTCTTGAACTCACTCAGAGATCCCCCTGCTTCTGCCTCCCGAGTGCAGGGACTGATGGTGTGCCCACTCTAATTTTTAATTGAAGCCCTCTTTTTGGTTGGCATGTGAGGTCCTGACCATATGTCATTGTAATTATTATAATTATATATATTTATAATTAATTATTATAAGAGGATGGTGCTTTCTTTTGCTAAAGATACTTAGTTGTTGGTTATGTTTTAAAAACAAACTGTTTCTTACATGTCTCGAATATCATGATCACCTTTGTTAGCCTGGATTTGGAATTAGTCAGTGCTGCATTGTTACTCAGTATTGCCCTAACGTGGGTGCTTGAACTACAGAAGCTCCAAGAGTAAGAGAAAGTCTGAGCCAGGCAAAAGCCGTCCTGCCCTTCTGGCTTCCTAGGATGGGAACATCTGGGAACAGTGGAGCTTGTGTGCTGGAGAGCTCTATACACCTGAAGGTGCGCCACCGCCCAGCTGTCTGCAGGAGCATCACTCTGTGTGGACGGGTCTCCGAACATGTAGGAAATGACCGTTGACGGATGACTAGAAAGTGCACATTGATGGCGGTGTGTCTTGTGCCCTTTCCCGGCTTGCCAGCTATACTGCCTGAGAACCTGACTCAAGCCGGGCTTTCACCTAAACTGATCATTAGTGAAGCCTGTTCTGTCCCCCGTGGAGACCTGCATAGTATCCAGAGTTAAAGGCTGCATAGTGTGACTGGCGAAGGTAAAGATCACTTTCATGGTCTTACGCACCTCTGAATCTGTTGTCTGCAG
Seq C2 exon
ATCAGCAATCGGGTCCTGTACGTGCTTTTCACACATGTGCAAGAGCTCTTTGGCACCGTGGTCCTGAAGCAAGTAACAAGACCTCTGCGCTGGTCCAACATGGCCACGATGCCCACACTGCCAGAGACCCAAGCAGGCATCAAGGAGGAGATCAGGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024096-Ralbp1:NM_009067:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.063 A=NA C2=0.111
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF097264=Macoilin=FE(21.8=100),PF0062022=RhoGAP=FE(80.6=100)

							
A:
NA

							
C2:
PF0062022=RhoGAP=PD(2.7=7.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000024905





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000129448
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr18:9522510-9524593 
LOW PSI
HsaINT0136882
(RALBP1)
Human
(hg19)
chr18:9522508-9524591 
LOW PSI
HsaINT0136882
(RALBP1)
Rat
(rn6)
chr9:113589167-113590879 
LOW PSI
RnoINT0123822
(Ralbp1)
Cow
(bosTau6)
chr24:42067655-42069034 
LOW PSI
BtaINT0121940
(RALBP1)
Chicken
(galGal4)
chr2:98412617-98414219 
LOW PSI
GgaINT0094427
(RALBP1)
Chicken
(galGal3)
chr2:101176635-101180885 
GgaINT0094427
(Q5ZLT6_CHICK)
Zebrafish
(danRer10)
chr2:53229582-53233239 
LOW PSI
DreINT0124129
(ralbp1)
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"