DreINT0023568 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6183171-6183525:+
Coord C1 exon
chr14:6183171-6183290
Coord A exon
chr14:6183291-6183376
Coord C2 exon
chr14:6183377-6183525
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
GCTGTCTATTTGATCACCAGAAT
3' ss Score
5.42
Exon sequences
Seq C1 exon
ACGGAACTCTGCCGGTGCGCAGACAGAGACGACATGCATTTGGTGCTGATCACCAGAGCTGCCTGAAACCCCTGACCGAAGACGATAGCTTTGACTGCAATGAATCTGAGGGTGATCCAG
Seq A exon
GTAGAATCTTAAAACATGTCTACTGTTGCATTAGGGTCAGACAATTTTCTTAATATTCTTGTTTGTGCTGTCTATTTGATCACCAG
Seq C2 exon
AATCCAAAGAAACTGACTATTTGAGTGGGTCAGATGGCAAAGGATCATATCAGGTGAAAGGCTGGAGTCTGAAGAGGCAGCAGTTTGTGGCTTTATTATGGAAGAGACTGCTTTACGCTCGCCGCTCTAGGAAAGGATTCTTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.268 A=NA C2=0.180
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:
GCAGACAGAGACGACATGCAT
R:
AGACTCCAGCCTTTCACCTGA
Band lengths:
172-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]