DreINT0023719 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38659934-38660245:+
Coord C1 exon
chr12:38659934-38660072
Coord A exon
chr12:38660073-38660154
Coord C2 exon
chr12:38660155-38660245
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
CTGTGTTTTCTGTAACACAGATC
3' ss Score
7.67
Exon sequences
Seq C1 exon
ATCCTCCTTTTGGATGAGCCTACAGCTGGTATGGACCCAGTGTCTCGGCACCAGGTTTGGTCTTTACTGAAGAGCCGTAGAGCAGGCAGAGTTACAGTTCTCAGCACTCACTATATGGATGAGGCTGATATACTTGCAG
Seq A exon
GTGCTTCTCTCATTTTTCTCTTCCATCAGTCATTTTCTCAGTCTCTTTTCTCATGCACCTCTCTGTGTTTTCTGTAACACAG
Seq C2 exon
ATCGTAAAGCTGTCATCTCGCAAGGACAGCTCAAGTGTGTTGGCTCTTCTTTGTACCTGAAGACCAAGTGTGGAGTTGGGTATCATCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:15
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:
PF0000522=ABC_tran=PD(5.4=17.0)
A:
NA
C2:
NO
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:
CCTACAGCTGGTATGGACCCA
R:
GAGCCAACACACTTGAGCTGT
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]