RnoINT0010197 @ rn6
Intron Retention
Gene
ENSRNOG00000014268 | Abca2
Description
ATP binding cassette subfamily A member 2 [Source:RGD Symbol;Acc:620238]
Coordinates
chr3:2653293-2653652:+
Coord C1 exon
chr3:2653293-2653404
Coord A exon
chr3:2653405-2653488
Coord C2 exon
chr3:2653489-2653652
Length
84 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GATGTCTTACGTTGTTCCAGGGT
3' ss Score
8.32
Exon sequences
Seq C1 exon
CTTTCTACACGGCAGCACCGCTGACATCGGCCGGCATCCTGCCTGTCATGCAGTCGCTTTGCCCTGATGGCCAGCGTGATGAGTTTGGCTTCCTGCAGTATGCCAACTCCAC
Seq A exon
GTGAGTGCCCCTACCCCATGCCTTGGGAGGCAGCTTCCCCCACCCCTACCCCATAGCAATGGCTGATGTCTTACGTTGTTCCAG
Seq C2 exon
GGTCACCCAGCTTCTGGAACGCCTCAACCGTGTAGTGGAAGAGAGCAACTTGTTTGACCCAGAGCGACCTAGCCTGGGCTCAGAGCTTGAGGCACTGCACCAACGTCTGGAGGCCCTCAGCTCGGGCCCTGGCACCTGGGAGAGCCACTCAGCTAGACCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014268:ENSRNOT00000020339:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCAGTATGCCAACTCCAC
R:
CAGGTCTAGCTGAGTGGCTCT
Band lengths:
182-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]