RnoINT0148875 @ rn6
Intron Retention
Gene
ENSRNOG00000017220 | Tcirg1
Description
T-cell immune regulator 1, ATPase H+ transporting V0 subunit A3 [Source:RGD Symbol;Acc:735136]
Coordinates
chr1:219135489-219135876:-
Coord C1 exon
chr1:219135788-219135876
Coord A exon
chr1:219135616-219135787
Coord C2 exon
chr1:219135489-219135615
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CCCCTCCAGCTCTGTTGCAGTTT
3' ss Score
4.1
Exon sequences
Seq C1 exon
ATGGCAGCTGTCCATACGGAGGGACCCACCACTGAGAGAACACCCCTGCTTTCAGCCACCCCAGGGCCACATGCAGACCTGAAGGTCAA
Seq A exon
GTGAGTGGGGGCAGTTTGTCTTTTCTTGACAGCCTGAGGGCACTGACCAAAGACAGGGACCCTTTGGCCCCTGAGTCTCTGTTTGTTGTGTTTGGGGGGGGGGTTCCCTGTGGGTGCTTCCTACTGAGCTGGCTTGGGAGGAGGCTGCAGTCCCCCTCCAGCTCTGTTGCAG
Seq C2 exon
TTTTGTGGCAGGTGCTGTGGAGCCTTGCAAGGCTGCAGCCCTGGAGCGCCTGCTTTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTAAGGAGACTGAGGGGCAGCTGGAGGACCCGGTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017220:ENSRNOT00000023425:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=NA C2=0.116
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=PU(6.0=83.3)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(10.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGTCCATACGGAGGGA
R:
CGTCACCGGGTCCTCCAG
Band lengths:
212-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]