RnoINT0010218 @ rn6
Intron Retention
Gene
ENSRNOG00000014268 | Abca2
Description
ATP binding cassette subfamily A member 2 [Source:RGD Symbol;Acc:620238]
Coordinates
chr3:2654196-2654760:+
Coord C1 exon
chr3:2654196-2654306
Coord A exon
chr3:2654307-2654541
Coord C2 exon
chr3:2654542-2654760
Length
235 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCCTGTGCCTTGTCCCCAGGAG
3' ss Score
11.07
Exon sequences
Seq C1 exon
GTCTATCGCTTGCTTTTTGGTCCTTTACCTGACCTGGATGGAAAGTTGGGGTTCCTCAGGAAGCAGGAGCCCTGGAGTCACCTGGGTAGCAATCCTCTGTTCCAAATGGAG
Seq A exon
GTGAGGCGCCTGACTCTGGGAGAGGGGTGGAAGGAAAGGCTCTTCCTTAGTTACACATAAATTCTGGGGACCTGTGGTGTGTATGGGAAAGCAGAGGCCAGACAGCGACTCCAGTGCACCCCAGCACAGAGCCAGTGCAGTGGATGGTCACAGCAAGGTCTTGTGCTGCCTTAGGAAGGGCCTTGCTCATTTCTTGGTGTGTAAGCTTTACCAGTCCCCTGTGCCTTGTCCCCAG
Seq C2 exon
GAGCTGCTGCTGGCTCCTGCCCTTTTGGAGCAACTCACATGTGCTCCAGGCTCTGGGGAGCTGGGCCGGATTCTTACCATGCCTGAGGGTCATCAGGTAGACCTTCAGGGCTACCGGGATGCTGTCTGCAGCGGGCAGGCTACAGCTCGTGCCCAGCATTTCAGTGATCTAGCCACTGAGCTCCGGAACCAGCTGGACATAGCCAAGATTGCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014268:ENSRNOT00000020339:6
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=0.014
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACCTGGATGGAAAGTTGG
R:
TCTTGGCTATGTCCAGCTGGT
Band lengths:
292-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]