DreINT0023643 @ danRer10
Intron Retention
Gene
ENSDARG00000100524 | abca3b
Description
ATP-binding cassette, sub-family A (ABC1), member 3b [Source:ZFIN;Acc:ZDB-GENE-050517-2]
Coordinates
chr3:12529604-12529982:+
Coord C1 exon
chr3:12529604-12529764
Coord A exon
chr3:12529765-12529847
Coord C2 exon
chr3:12529848-12529982
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATT
5' ss Score
5.88
3' ss Seq
AGTTGTGTGTTTTTTGCCAGGCT
3' ss Score
6.46
Exon sequences
Seq C1 exon
ACATCACGTATCAAATGAACTACTTTTCCATGGAGGAGCCTGGAGTCGGACGCTTCCTGGTGGCTTTGTCCTTGCAAGGCGTCGTCTTCATAATCCTGCTGTTCCTCATTGAGCTCCGGTGCATCCGCCTGCTACTCAACCTCTGCAGAAGACGCAAGAAG
Seq A exon
GTGATTAAAGAAAAAAGGCAGAGCACGTGCTTCTGTAGCACTGGAATGAAGGTCACCAATAATAGTTGTGTGTTTTTTGCCAG
Seq C2 exon
GCTCTGCTGTTAGCAGAAGAAGCTCTTCAACCTGAGGACCGAGACGTTGCAGAGGAGAGGAAGAGGGTTTTAGAGTGTCAGCCGGTGGTGGAGTCTATGGTGGGCAGCCCGCTCGTTGTACAGGAGCTCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100524:ENSDART00000165980:13
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=PD(8.8=64.8)
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:
TTCCTGGTGGCTTTGTCCTTG
R:
AACCCTCTTCCTCTCCTCTGC
Band lengths:
177-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]