DreINT0025521 @ danRer10
Intron Retention
Gene
ENSDARG00000004078 | acsl4a
Description
acyl-CoA synthetase long-chain family member 4a [Source:ZFIN;Acc:ZDB-GENE-040426-1565]
Coordinates
chr14:28148357-28148761:+
Coord C1 exon
chr14:28148357-28148471
Coord A exon
chr14:28148472-28148603
Coord C2 exon
chr14:28148604-28148761
Length
132 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
TCTCTCTCTCTGCCCACCAGTGA
3' ss Score
7.9
Exon sequences
Seq C1 exon
ACCGCAAGAAGGATCTTGTAAAACTTCAAGCTGGAGAGTACGTCTCTTTGGGCAAAGTTGAGTCAGCGCTGAAGAACTGCTCTTTCGTTGACAACATCTGCGCTTACGCAAACAG
Seq A exon
GTTTGCACACTCGGCTTTGTCTGATGCTTATGGGATGATACTGACCCTAACAAAGGCTCCTCTCTTCAGAACAGCAGATGCGCTGTATACTGACCTCTTTTCTCTCTCTCTCTCTCTCTCTCTGCCCACCAG
Seq C2 exon
TGACCAGAACTACGTTATCAGCTTCATTGTTCCTAATCAGAAGAAACTGACAGCTCTTGCCAATCAGAAAGGCATTGAAGGCACGTGGGAAGAAATCTGTAACCACCCAGTTATGGAAAGGGAAGTTCTGAGAGAAATTAAAGAAGTCGCAAATTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004078:ENSDART00000006489:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(1.9=23.1),PF131931=AMP-binding_C=PU(20.6=51.3)
A:
NA
C2:
PF131931=AMP-binding_C=FE(54.6=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:
ACTTCAAGCTGGAGAGTACGTCT
R:
TGCGACTTCTTTAATTTCTCTCAGA
Band lengths:
244-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]