DreINT0023522 @ danRer10
Intron Retention
Gene
ENSDARG00000074635 | abca1a
Description
ATP-binding cassette, sub-family A (ABC1), member 1A [Source:ZFIN;Acc:ZDB-GENE-031006-12]
Coordinates
chr1:51975797-51976115:+
Coord C1 exon
chr1:51975797-51975921
Coord A exon
chr1:51975922-51976016
Coord C2 exon
chr1:51976017-51976115
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
ATGATGGTTTGTGTCTCCAGTAA
3' ss Score
5.67
Exon sequences
Seq C1 exon
ATTGTGCTTCCCGCTGTGTTCGTGTGCATCGCTCTGGTCTTCAGCCTCATCGTTCCTCCTTTCGGGAAATATCCCAGCCTCGCTCTGGAGCCCAGCATGTATGAGGAGCAGTTCACCTTTATCAG
Seq A exon
GTACACACTGCCATCCACACGCTTTACATTTTAATCCCATGAGCCTTGGAGAGTCTGATGGTGATGGTGATGATGATGATGGTTTGTGTCTCCAG
Seq C2 exon
TAATGACGCACCAGAAGACAGACACACAAACAGGCTGCTTGATGCTCTGAAGGACAGTCCGGCTTATACTGACCAGTGCACAGATGGGAAAAACACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074635:ENSDART00000142465:28
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=0.147
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGTCTTCAGCCTCATCGT
R:
GCACTGGTCAGTATAAGCCGG
Band lengths:
172-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]