RnoINT0010193 @ rn6
Intron Retention
Gene
ENSRNOG00000014268 | Abca2
Description
ATP binding cassette subfamily A member 2 [Source:RGD Symbol;Acc:620238]
Coordinates
chr3:2662207-2662727:+
Coord C1 exon
chr3:2662207-2662443
Coord A exon
chr3:2662444-2662520
Coord C2 exon
chr3:2662521-2662727
Length
77 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGAA
5' ss Score
0.93
3' ss Seq
TCACCCCCGCCTCTCTGCAGAGG
3' ss Score
9.3
Exon sequences
Seq C1 exon
ATGTGAAGGAGTCCCGGAAGGATGCACTGCCTGGGGCAGAGGGCCTGACGGCTGTGGAGAGTCAAGCAGGCAACCTGGCTCGGTGCTCAGAGCTGGCACAGTCCCAGGCTTCACTGCAGTCTGCATCTTCTGTGGGCTCCGCCCGTGGGGATGAGGGTGCTGGCTACACCGACGGCTACGGTGACTACCGTCCCCTCTTTGACAACTTGCAGGACCCAGACAGTGTCAGCTTACAAG
Seq A exon
GTGGAAGCTAATGGGGAGGCTGGGGAGGGTCCAGAAGGGTGGCATGGTCCTGGCTACTCACCCCCGCCTCTCTGCAG
Seq C2 exon
AGGCTGAAATGGAGGCCCTGGCTCGGGTAGGCGAGGGCAGCCGCAAGCTAGAGGGCTGGTGGCTGAAGATGCGGCAGTTCCATGGGCTCCTGGTGAAGCGCTTCCACTGTGCTCGCCGGAACTCCAAAGCGCTCTGCTCCCAGATTCTGCTGCCTGCCTTCTTCGTCTGTGTGGCCATGACTGTGGCATTGTCTGTCCCTGAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014268:ENSRNOT00000020339:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.043
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCCAGACAGTGTCAGCTT
R:
CAGCAGAATCTGGGAGCAGAG
Band lengths:
178-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]