RnoINT0010251 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225751692-225752004:+
Coord C1 exon
chr2:225751692-225751797
Coord A exon
chr2:225751798-225751929
Coord C2 exon
chr2:225751930-225752004
Length
132 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
TGTTTGTTGCATTGTTCAAGGGT
3' ss Score
5.67
Exon sequences
Seq C1 exon
GTATGGAGGAATTTCCATTGGAGGGAAGCTCCCTGACATCCCCATCAGCGGGGAAGCACTTGTGGGCTTCTTAAGTGACCTGGGCCAGATGATGAATGTGAGCGGG
Seq A exon
GTATGTAAAGACTTTTGGGATGAATTTTTGACTTGTTTAAATGGTAAGAGGTGGAAATTATCTTAAATACTACAGAAGAAGGGAAGGAGGAAAAAAGACCCAAACCATTTCTTGTTTGTTGCATTGTTCAAG
Seq C2 exon
GGTCCTGTCACCAGAGAGTCTTCCAGAGAGATGTTAGATTTCCTCAAACACCTCGAAACCAAAGACAACATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.080
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(14.3=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGAATTTCCATTGGAGGG
R:
CTTAATGTTGTCTTTGGTTTCGAGGT
Band lengths:
178-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]