Special

MmuINT0158273 @ mm9

Intron Retention

Gene
ENSMUSG00000001750 | Tcirg1
Description
T cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3 [Source:MGI Symbol;Acc:MGI:1350931]
Coordinates
chr19:3898980-3902035:-
Coord C1 exon
chr19:3901891-3902035
Coord A exon
chr19:3899120-3901890
Coord C2 exon
chr19:3898980-3899119
Length
2771 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TGTATACTGTCTGCCTGCAGCTC
3' ss Score
10.12
Exon sequences
Seq C1 exon
AGTGAGGAAGGAGTGAGTGCTGTCGCTCACCGCATCCCCTGCCAGGACATGCCTCCAACCCTCATCAGGACCAACCGCTTCACCTCCAGCTTCCAGGGCATTGTGGATGCCTATGGTGTGGGCCGCTACAGGGAAGTTAACCCTG
Seq A exon
GTAAGATCCATTGCTCCCTCAGTGGAGGTCATCCCTCCATCCTCTGTTTGGGTGCAAACCTTGAGAGGGGTGGGTAGAAGTTAGGCCCTTGCCTTTGGGGTACAAACCTTGAGAGGGGTGGGTAGAAGTTAGGCCCTTGCCTTTGGAGTGCAAACCTTGAGAGGGGTAGGAGCTGGGTCCACCCCATCCTTTAACAGAGACATAGTCCCCAGTTCAATCTCCAGGGAGGTTATTGGGTACCCTAGTCCCAGTTGGGACTTTACACTTGTCTCAGCATTAAATCCACAGGGAACCAACTTGGAACAGTTCAGAAAACAGATGTGGGAATGGCTTAAAGTCCAGCTCACTTGTTTTGATGAGTTTCTTAGTTTCTGTAGGTCATATTTTTTCTGGTCTGCAAAATGGGAATAATAGTACAAACCTCAGAGAAGTGTTAGGATGGCTAGTAGTTGTTATAGGGCCCCAAACCAACCTATAATTGTGACTTACTTGGCCACACTGCAATGTTGTTTGTTGAGGGGTTGTTGTTGTTGTTGTTGTTGTTTTATGAAGTTGGAATGAAAAGGGTTGAGGATGTGGCTCAGTTGATAGATGAATCCACCTGCCTCATGGATTCATGAAGCCCTGAGCTCAGTCTTCAGCAGAAACTAAGCATGGTGGTTAAGTCTATAATCCTAGCACTTGAGAGATGGAGGCAAGGGGATCAAGAATTCAGGCATCTTCAGCTACGTAGAAAGTTCAAGGTTGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCGAAGGTCAGGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGATCACGAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAGTTCAAGGTTCAGTGGGTAAAGTGCTTACAGTAAAGTCAGGAGGCCTTTGTGATAGGCAAGACCAGTCTGAGTCCATGTACTCTCCAGCCCCTTTTCTGTGTGTATGTGTAGTTTGTTTTGTAGTTTTGAGACTGTCTTTTTTCCTTTCTTTCTTTCTTTCTTTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTGGGGGGTGGGGTGGGGGTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACTACGCTGGCCTCGAACTCAGAAATCCTCCTGCCTCTGCCTCCCAATTGCTGGGATTAAAGGCGTGCACCACCACACCTGGCTGGCTGACTGGCTTGCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGGCTGTCTTTCTTCCTTCCTTCCTTCCTCCCTCCCTCCCTCCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCGCTCTTGGTCTTTTGAGATCTCTATGTGTAGTCTTGTCAGTCCTGGAACCTAGGCTGGCCTTGAACACGGTTATCCACAGCCTCTACATCTTGAGTGCTGGGATTAAAGGTGTGTGCAGTTGCCTCTGGATTGAGACAGGGTGTTACACTGGAGCCCAGGTTGGTCTTGAGTTCATGGTAATCATCCTGCCTCGGCTTCCTGAGTTCTAGAATTACAGGTATGAACCATAATGCCAGGCTTATAGATCTTAAACATAACACTCAGGGACAGAGAAATGGTTATTGAGTAAAGGCATGTGAATAATTCTGACAGCCTGAGCTCAATTTCCAGGGCCTTCTATAGGAGTAGCACCAACGCCTACAAGTTATCCTTTGAGCTGCATACATGCATACCTTCCTCTCAGTAAATTAGCAAGTAAATGTTATTCAGACAAACAACAATAACAACAAACACCCACTGAGCAACAGAGCCAGTTAGGAGCTGGCTAGGCCAGTAGAGCCTGAAGAAGAGTGGGGAGCTCCAGAGCCCATGTAGGTTCAGCAGTGCGTGGTTGTAATTACAGTGGAGGTGAGATGTGGGCTGGAGCCAGGCAGCTCCTTTCTAGTGAGGTTCCAGGCTAACTATAAGCACTGTCTCTAAATGGAGGAGTGACCCACTGTTGTTTCTGATCTACATGCACATGCGCGCACACACAAATAAAACAAAAACAGTCGGGAGGATCATTTCAGGAGTTCAAGACCATTCTGGACCACTCTGCAGCTGCCCTATCTTTAAATAACTGACAGCTAGCTGGGCAGTGGTGGCGCACACCTTTAATCCGAGTACTTGGGAGGCAGAGGCAGGCAGATTTCTAAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTTCACAGAGAAACTGTCTAGAAAAACAAACAAAACAAACAAACAAACCTGACAGCTAGAACTGCTAAACCTATGTCCACAGCCTGGCACCTGCCAGGCCTGCCTGTGGCACTCATTTATAATAACCCTATGGGGTGGCACTGAGATCTCCATTTTACAAGTGGAGAAATAGGCTCAGGAAATTTAAATAACAAGCCTTGGGTGGCATAGATTGATAGTTGTAGGCTCTGAAATGTGCCAAGTGGTCCCTGCCTCATAAACTCGCTCTTGGCTGGTCCTGAGAGGCCTCTGTGGCAACTCAGACAGGGAAGTGATACTCAGTCTCCCATGGGGACCTCCTGACTGTATACTGTCTGCCTGCAG
Seq C2 exon
CTCCCTACACCATCATCACATTCCCCTTTCTCTTCGCTGTGATGTTTGGCGATGTGGGGCACGGACTGCTCATGTTTCTCTTTGCCCTGGCCATGGTCCTCACTGAAAACCGTCCAGCTGTGAAGGCTGCACAAAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001750-Tcirg1:NM_001136091:10
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=0.059
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0149614=V_ATPase_I=PU(48.4=97.8)

							
A:
NA

							
C2:
PF0149614=V_ATPase_I=FE(50.5=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000001801





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000114768, ENSMUSP00000120531, ENSMUSP00000122474
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr11:68045103-68047432 
ALTERNATIVE
HsaINT0165054
(TCIRG1)
Human
(hg19)
chr11:67812570-67814899 
ALTERNATIVE
HsaINT0165054
(TCIRG1)
Rat
(rn6)
chr1:219130943-219134297 
ALTERNATIVE
RnoINT0148862
(Tcirg1)
Cow
(bosTau6)
chr29:46218002-46218442 
Chicken
(galGal4)
chr5:205336-205411 
LOW PSI
GgaINT0057523
(TCIRG1)
Chicken
(galGal3)
chr5:96306-96381 
LOW PSI
GgaINT0057523
(TCIRG1)
Zebrafish
(danRer10)
chr1:44187855-44187973 
LOW PSI
DreINT0161335
(tcirg1a)
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"