MmuINT0158279 @ mm10
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
chr19:3896795-3897169:-
Coord C1 exon
chr19:3897038-3897169
Coord A exon
chr19:3896903-3897037
Coord C2 exon
chr19:3896795-3896902
Length
135 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
TTGATGCTATCTCTTCTCAGGAT
3' ss Score
9.63
Exon sequences
Seq C1 exon
GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG
Seq A exon
GTAGACGCAGCAGAAAGGATTACAGGGAAGGCAGGCTGCATGAGGGGTGACCTCTGCTTCCCTGCAGGCTGTGCTGCAGGGTGGGTGGCACGGGCTATTTCAGGGGCTGGAGCTGTTGATGCTATCTCTTCTCAG
Seq C2 exon
GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001750:ENSMUST00000001801:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.611
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(5.3=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTACAGTACGTGCTGGTG
R:
CAGTTTCTTCATCCCCTGGGC
Band lengths:
235-370
Functional annotations
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