Special

MmuEX0046729 @ mm10

Exon Skipping

Gene
ENSMUSG00000001750 | Tcirg1
Description
T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3 [Source:MGI Symbol;Acc:MGI:1350931]
Coordinates
chr19:3896050-3896721:-
Coord C1 exon
chr19:3896604-3896721
Coord A exon
chr19:3896270-3896447
Coord C2 exon
chr19:3896050-3896192
Length
178 bp
Sequences
Splice sites
3' ss Seq
ATTCCCTTATTTGTGTGCAGAGC
3' ss Score
7.91
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
Exon sequences
Seq C1 exon
TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC
Seq A exon
AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG
Seq C2 exon
GGTGGAGTTCCAGAACAAGTTCTATTCAGGCACCGGCTACAAGCTCAGCCCCTTCACCTTCACTGTGGACAGTGACTAGCTACCCACTGCAATCCCTGCTTCTCCGAAGTGGGACAGGAATAAAGAGCTGGCTGGCCCAGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001750-'49-49,'49-48,51-49
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact





	

	
Alternative protein isoforms (No Ref, Alt. Stop)





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF0149614=V_ATPase_I=FE(4.8=100)

							
A:
PF0149614=V_ATPase_I=FE(7.3=100)

							
C2:
PF0149614=V_ATPase_I=PD(2.6=77.8)

						

					

				








    
Main Inclusion Isoform:
ENSMUSP00000001801





     
                   









    
Main Skipping Isoform:
NA





     
      









    
Other Inclusion Isoforms:
ENSMUSP00000120531, ENSMUSP00000122474
          









    
Other Skipping Isoforms:
NA
  



Associated events






Other assemblies


mm9




Conservation


Human
(hg38)
chr11:68050487-68050664 
ALTERNATIVE
HsaEX0064214
(TCIRG1)
Human
(hg19)
chr11:67817954-67818131 
ALTERNATIVE
HsaEX0064214
(TCIRG1)
Rat
(rn6)
chr1:219127962-219128139 
HIGH PSI
RnoEX0089361
(Tcirg1)
Cow
(bosTau6)
chr29:46222493-46222670 
HIGH PSI
BtaEX6103970
(TCIRG1)
Chicken
(galGal4)
chr5:207378-207549 
HIGH PSI
GgaEX1057770
(TCIRG1)
Chicken
(galGal3)
chr5:98382-98553 
HIGH PSI
GgaEX1057770
([1])
Zebrafish
(danRer10)
chr1:44174984-44175155 
HIGH PSI
DreEX6032764
(tcirg1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
CCCTTCTGAGATCTTCATGCACC

				
R: 
GGCCAGCCAGCTCTTTATTCC

				
Band lengths: 
250-428

			

		

	





	
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
  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • 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"