RnoINT0010413 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98256931-98257364:-
Coord C1 exon
chr10:98257191-98257364
Coord A exon
chr10:98257045-98257190
Coord C2 exon
chr10:98256931-98257044
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CACACTCCTGTTGTTTTCAGATC
3' ss Score
10.7
Exon sequences
Seq C1 exon
AACAAAGTGTGGTTCCAGCTGCGGGTCTCCGGCCTCTTCCCTTCCGCTTACTGGTTCGGGCAGGCACTGGTGGATATTCCGCTCTACTGCTTCGTCTTCCTCTTCATGTCTTTAATGGACTACCTCTTAGGCTTCCCAGATGCCACGCTTATTGTTATAACTCACGTTCTACAA
Seq A exon
GTAAGTGCAAAACGACTGGGAAATGCAAACCTCTTTCACGGGCAGCGCTGTGCCAGGCACTAACTGTGGGACCCCTGTTTGGAGCATGCGTGTTCTCCTGCCTCGCATTAGTCTCTCTCTGAGACCCACACTCCTGTTGTTTTCAG
Seq C2 exon
ATCCCGTGTTCTGTCGGCTATGCCATATCCCTGATCTTCTTAACATACGTGATTTCCTTCATTTCTCGCAAGGGGAAAAAAAACAGCGGCATTTGGTCACTTTGCTTCTATATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:25
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=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(27.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCCCTTCCGCTTACTGGT
R:
CAAAGTGACCAAATGCCGCTG
Band lengths:
244-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]