MmuINT0158278 @ 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
chr19:3897038-3897681:-
Coord C1 exon
chr19:3897468-3897681
Coord A exon
chr19:3897170-3897467
Coord C2 exon
chr19:3897038-3897169
Length
298 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
CCTTGTTTTCTTGCCCACAGGAA
3' ss Score
12.54
Exon sequences
Seq C1 exon
GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG
Seq A exon
GTAGGCCAGTTACAGAGAATGGCTGACCTTTTCACTGGGGATGCTCTAGTTCAGTCACTGGGTCACCAGGAGCTGCAGAGCCATCTGAGACATGGGTTGTGGGCTGGACTACCACCAGACAGTGATGTCAGAGCCAATGGACTAAAGTTTGGGTCTCAGGTGTTGAGAACCTGAAGTCCTTCCTTAAGAGGTCCTTGTTAGTGTCCCTGGGAGGAACTACAGTTCCCAACGATCAATGACCACACCAAGTGACTGGTTCCATGCACTGTGCATGGTTGCCTTGTTTTCTTGCCCACAG
Seq C2 exon
GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001750-Tcirg1:NM_001136091:15
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=0.205
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(8.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.3=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:
AGACCTTGCCTGAGCTCATCT
R:
TGAGTGTTTCTTCTGTGGCGG
Band lengths:
292-590
Functional annotations
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
Other AS DBs: