Special

MmuINT0172697 @ mm9

Intron Retention

Gene
ENSMUSG00000009621 | Vav2
Description
vav 2 oncogene [Source:MGI Symbol;Acc:MGI:102718]
Coordinates
chr2:27134711-27137509:-
Coord C1 exon
chr2:27137421-27137509
Coord A exon
chr2:27134728-27137420
Coord C2 exon
chr2:27134711-27134727
Length
2693 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
CTGATCTGCTTCCTTTACAGGTT
3' ss Score
12.06
Exon sequences
Seq C1 exon
GGGTACCTTCTACCAGGGATACCTGTGTACCAGATGTGGCGTCGGGGCACACAAGGAATGCCTGGAGGTGATCCCCCCCTGCAAGATGA
Seq A exon
GTGAGTACTCGGCAGTGTGTGGAGATGGGCCCCGCTGCTGCTCCTCATCGTGAGGACCACTTGTTCATGTCTGCCTTTTAATCCAAGGGACACACCTGAGAGGCACTGAGGCCAAGGGAAGGGATGATCAAAAGCTATAGCTGTAACTCCTCACCAAAGTTCTTGTGACTTTTCCGTCCGTCTCCTCCATCTCTGCCCCACACCCACACCCTGGTCCCAGGGTGTTCTCAGCAGGAATGCAGGCTTCTGTCATAAGTGGCCCCGCTCCTGGCTCTGGCACTATGTGCTTGTTCTCATGTCATTTTTCAGATGAGGTGGCTTGAGGCCGAGCCTCGCTGGTGCCAGGCACAGGAACTCGACCGCGGAGGCTAGGAGTGTGTGATTTGGGAATGCGTTTGGAGTTTTGTAAATGGTGTTCCATCTCATAGTGACTAGTGCTCGCCAAAAGCCGATGACAGTTCTGAGAGGTGTCAGGGCCTCACAGCTCTGTATAAGTAGTAGATCCTGCTGAGTGCCAGGATCCATTCTCTGTGCTTCAAATGGGAGGTCCCTGTCCTTGCCACCACTGGGGACATACTGCACTAACACAGGAACCACCAACCAGAGGCCAGCTCACTCTGAGTCCCCGGGGCTGAGCTGTGACAGAATTTCTTCTAGCAGGACAGCTTTGTATCAGCCCTCTGTGCAGTATGGATCAGTCCTCCCGTGCTTGACAGAGTCCTGGGATCATTATCTGGCTATTGAGCATACACCCTGTCACCTTGGTCTCTCTGGTCCAGATCAGCCCCAGAAATTGGGTCTTGACAGTAGCTTTGATTTGGTCAATGTCGCCCTCTTGTGGCCATGAGCCCCTCATGCACGGCAACTGCCATAGTTGCTTCCTACTTTTTTCGATTCTAAAAGTTAACAAACTTAGTTATTAATATAGAATTAAAAGAATTAAGGCAGAAAGTAAACAAAAGGATATAGGATTGGGCATGGTGGCACACACCTTTAATTCCAGCACTCAGAAGGCAGAGGCACACACAACTCGTGGTTGAAGCCAACCAAGGCTATAAAGCAAGACTCTGTCTCAACAGAGGAGAAGCAGTGTGGTCAATGAGCTTGTTTAGACATAAAAGCATGGTGGGTGAGTGTGTGTAACTTAGTAGGCAGAGTACCTTCAGGAGGTGGAGGCAGGAGGATCGGGGTCAAAAACATCCTTGGTTATAGAGTGAGCTTGAGGCCAGCCTAGGCTCTGTGAGACGCTGTCTCAGGATGCACAAACAAAGCCACAGAAGTAACTGAAGACAATGTTTAGGCATATTTTAGGTTTTCTTTTTGTTCTTTTTCTTTCTTTTTAGAAAATACATTTTCAGAGTTACTCCCTCCTCTTTTTTTTTTTTTTTTTTCCTTTTCTTTATTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGATCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGTGCGCCACCACACCCGGCCTTCCCTCTGCCCCTATCTTAATGATTAAGATACTTATTACCTGTAGAAGAAGTTTGAAATGTAGAGAAGGAAAAGAAGGTGGAGGGACGAGTCAGAGTTCCTTTAGGCACCAACAGGCACGTTGGGCATTTCCTTCTTATATCAGTGGGGTCATTGATCATTACAGTGGTCATTACAACCCCTGGCTGGCTCTAGACATCGTCCCAGTGTCTAGACACACACACACACACACACACACACACACACACACACACACACACACACATGCTAGGATGTAACCCATGGCTCCATCGGTCCTCTGGTAGGGAATGCTGTTGCTCTCCAAGCTATGTTCCCTCTGATCTGCTCTAAGGCTAAGCGTTGGTTAGTTTTCCCCTGTGAACTGCAGCAATACCACAACTAAAGTAGATGGACTGTGTGGCCCCCATGGGAGCCCAGATGCCCCTAGGGAGATACCAGCCCCTCCTGAGAGCCTTTCCATGGAGAGTCCTTCTCTGGGCAGAGCAAAAGCTGTGTTGCCATCCTGTGGAACATTGCTACCCACCATCATGTGTGAAAGAGTTTGTAAAAAACTCAGATGTTCCCAGAGCAGTCTTCAGCCACAATAGTTGGGGTTATTGAGATCCCCCAGTCATACACTGTAGCTGTAATGACCCTTGTTTTGACCCATGCTGAGGAGGAAGGACCACCTACCAATGACTGGGGTATGTCTTCCCTCCCACATGATAGCTGAGTGACTAGTGTCCTTGGGTGTGTGGGACTGTCTTAGAGGATGATAGCAAAGGGGACCTGTACATCCACCTCTGTATCGCCTACCTGTGGCAGGTATCACCAACAAGGTATGGAAATTGTCCTGTGAGCCCCAGGCACCATCAGGTGACTCTGGCAGTTGTCACCATTCAGAGTTGGCCTGTGTAGAGAAGCCCAGGCTTTCTCATGTACGACTTCCGGTCTGCGAGCTCCCCATGGCTCCTTAGAGCCGGAAGTCAGAATATGCTGTCAAGGTAACTTTCATAGGTACGAGGCTGGGTCTATATGTGTCTATGATCAGCCTCTGAAGGTCAGCCAGCCCTCCAGTCGGGGGAATGCATACTGTGAAGGCCATCTCTCTGTCAAGGCTTCTACTTTGACCCCTGATCTGCTTCCTTTACAG
Seq C2 exon
GTTCACCTGCAGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009621-Vav2:NM_009500:17
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=0.667
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0013017=C1_1=FE(57.7=100)

							
A:
NA

							
C2:
PF0013017=C1_1=PD(0.1=0.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000062782f322A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000062782, ENSMUSP00000062782f324A, ENSMUSP00000062782f5847A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr9:133780711-133783502 
LOW PSI
HsaINT0179937
(VAV2)
Human
(hg19)
chr9:136645833-136648624 
LOW PSI
HsaINT0179937
(VAV2)
Rat
(rn6)
chr3:5826986-5829003 
LOW PSI
RnoINT0162647
(Vav2)
Cow
(bosTau6)
chr11:104661717-104666203 
LOW PSI
BtaINT0159540
(VAV2)
Chicken
(galGal4)
chr17:7057108-7057645 
ALTERNATIVE
GgaINT0124880
(VAV2)
Chicken
(galGal3)
chr17:7736634-7737171 
LOW PSI
GgaINT0124880
(VAV2)
Zebrafish
(danRer10)
chr21:17996381-17997041 
DreINT0173540
(vav2)
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"