DreINT0025524 @ danRer10
Intron Retention
Gene
ENSDARG00000004078 | acsl4a
Description
acyl-CoA synthetase long-chain family member 4a [Source:ZFIN;Acc:ZDB-GENE-040426-1565]
Coordinates
chr14:28138064-28138540:+
Coord C1 exon
chr14:28138064-28138241
Coord A exon
chr14:28138242-28138430
Coord C2 exon
chr14:28138431-28138540
Length
189 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGG
5' ss Score
4.84
3' ss Seq
TTATTCATTTATTTTTGCAGTGG
3' ss Score
8.24
Exon sequences
Seq C1 exon
TTGATTCTTGGTGAATATAAATGGAAGTCCTATGAGGAGTTAGACATTGAAGTCAGTCATTTTGGGAGCGGACTGGCAGCACTAGGACAACAGCCAAAAAGCACCATTGCCATTTTCTGTGAGACGCGGGCTGAATGGATGATCACCGCTCAAGCCTGCTTCAGACGCAACTTCCCCT
Seq A exon
GTAAGGAAACCAGATTATTTTTACTCTCATCTACCACACTTTCCTTTATCCCTAAAAAAAAAATAGTCATAGGTTTAATGCTTGCCGATGATTCGGATGCTTTTGTGACCCAAAATGTAATGAATATGCTTTCATCTTAATCCTCTTTTGTTAATCTGTTTCATGTGTTTTATTCATTTATTTTTGCAG
Seq C2 exon
TGGTCACCTTTTATGCGACTCTTGGAGAAGACGCAGTGGCTTATGGATTGAATGAGTCTGGAGTTACACACCTGGTCACCAGTATAGAATTGCTGGAAACAAAACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004078:ENSDART00000006489:3
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:
PF0050123=AMP-binding=FE(12.4=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(7.6=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:
TCTTGGTGAATATAAATGGAAGTCCT
R:
GGTGACCAGGTGTGTAACTCC
Band lengths:
253-442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]