DreINT0023745 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38647007-38647504:+
Coord C1 exon
chr12:38647007-38647174
Coord A exon
chr12:38647175-38647406
Coord C2 exon
chr12:38647407-38647504
Length
232 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGC
5' ss Score
5.66
3' ss Seq
TTTAAATCTCTGATCCTCAGCAA
3' ss Score
4.2
Exon sequences
Seq C1 exon
CTATGAATGAGCATTTAGACATGTTCTCCACCGAGGCTGATTTGGAGAATGCCAGCCTCTATGAACCTGAGGGCTACGTTGGAGTGGTCTTTTTGGATTCGATGTCATATCGTCTGCGATTCCCGTACAGCCAGCTTCCTCTACCTAGTGACTTCACCGAGTCCATAA
Seq A exon
GTAAGCATCACACACACACACACACACACACACACACACACACAAACCACTGATTTCATGAAGTTACAGCAGTGGCAGCACCCTGTTTTGCTGCGGCTTTGGTTAATTGGCAAACTCCTTTTTAATGCAAATGACATTAGCTTTGTAACTGTTTGATCTATAATGAAAGGAGCTGTTGAAGAACTAACACTCTTGAGTTTTTTTTTTTTTTTTTTAAATCTCTGATCCTCAG
Seq C2 exon
CAAGCTGTTACACCAACTATGTCAACTGCCGTGCCGCCAACTACTGGTATTCTGGATTCATACGACTACAGTCTGTCATTGATGCTGCCATTATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:4
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(14.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.3=100)
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:
ATGAGCATTTAGACATGTTCTCCACC
R:
CTGTATAATGGCAGCATCAATGACA
Band lengths:
260-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]