DreINT0025527 @ danRer10
Intron Retention
Gene
ENSDARG00000004078 | acsl4a
Description
acyl-CoA synthetase long-chain family member 4a [Source:ZFIN;Acc:ZDB-GENE-040426-1565]
Coordinates
chr14:28140707-28142559:+
Coord C1 exon
chr14:28140707-28140857
Coord A exon
chr14:28140858-28142435
Coord C2 exon
chr14:28142436-28142559
Length
1578 bp
Sequences
Splice sites
5' ss Seq
GGGGTGTGT
5' ss Score
3.14
3' ss Seq
ATGCCTGTATGCTTCCACAGACC
3' ss Score
8.96
Exon sequences
Seq C1 exon
TGAATAGACCAATAGTGAAGCCCGTCCCATCAGATCTTGCTGTTATTATGTACACCAGCGGCTCCACCGGGAGACCTAAAGGGGTGATGATCATCCACAGTAACCTGATTGGAGGCATGGCAGGCCAGTGTGAGAGGATACCTGGGTTGGG
Seq A exon
GTGTGTATAATAGAGTGCAATATTACCTTTTTATTTTCAGCGGTCATGGTTATATAAGAAGTTTTAGCATTCAGTTGTTTTTTAAAAAAGAGACGGAAAAAATATCAGCCAAGACACACAGTTTGTAGTTCTTTTCCTACTGTAGATGACGTCATTCAGCACAATGAACTCCAATGAAGCATTGCCAAATATAATTAAGTATGCTTATCCATACTTTTTTATTATGATTACAAAAACATGTATGTATAGCTCTGGAAATAAATAAAAATAAGAGACTTCCCAGCTGTTCTGGCAGGGTTTCTCCAGGGTCTTAAAAATTCTTAAAATGTCTTAAATCTCAAAATTTTAATTTTAGGCCTTTAAAAGTCTTAAATTTACCGAAATCGTGTTGTAGGTCTTAAATCTTTTTTTAAACGGGTCTTAATTTTTCTTTGTTCATGTATTGCTACCAGATCTGGCCAAAACCCATACAATCACCAACAATCATCTCAGTAAAACTTTCTATTTAAAAAGGTAATATCTAACTCTGTTTATCATAATGCTTTAATTATTTTCCTTACAGTAACATTTGTTTTAATGTTATCCATGTATTTACTGCTGGGAACACCGACCTGGACAGATTGTTGATTTAATTTATTATATTTTTTTTAACTTTTAAAACATTTGTTCATTTTTTTATTATTATTTAAGTAGATCTTGCTTGTTTTTACACAATATTTAAAGTATTTAGCTAGGAAATAAAATCTAAAACATTTTATTGTTTTATTTTTTTATGTATTGTTGTATTATTAAATGTATTAAATTATGATATTTTTTTGATAGGTAAACAAAAATCTTTTTTTCCATCAGGGCCATTTGAAGAATTCCTTAGCCTTTAGCCCTTTGTGGGTCTAAAATTCCATTCATAATGGTCTTAAAAACATCTTAAAGTCTTAAATTTAACTCTGTGAAACCTGCAGAAACCCTGTATAGGTTCTCTGTATTTTCCATTAATAAGCATATGTTTTGAGTAAAACTATTAATTTGTGAAGCCTATATCTAATAAATCTAGTAAATCCAGAGAAATGAAGAAACAATTGTCAAATGTTTTTCTTTTCTTTTTTGTGACCAATTTGAATAAAAGCATTTTAAATTAGCCCAACAAATTATATACAGAACAGATAATGTTGGAACTTACTGGAATAATTAAAGTAGTGGTGAAAAATAAACATAGAAAATAAATATTAACTGGAACATATATCATGAATATTTTACATAAAAATATGGTACATTTAGTGGTATTTAAATCAAATAAAAAATGTTTATTTTGCTAATAAAATTTTTAATAAAAAATCAAAAAATCTAAAAATGTATATAAATTGATATCTAATTTAAGACATTTCTTTGAAAAATGATCAAACCTGAGACATTCATGCCCAAATGTGTCTACGTTAGAAAAATGAAGAGTTGCAATATGACGGATGGGTAAAAAATACACTATAGAGAAAACTAAATACAGTAGATTTACACCAATAATCCAACAATGTCTGAGTGAATTTCGATTGTGGTCTTTATCAGTATGCCTGTATGCTTCCACAG
Seq C2 exon
ACCGAAGGATACATATATTGCTTATCTTCCTCTTGCTCATGTGCTGGAAATGACGGCTGAGATCTCATGTGTGACATACGGCTGCAGAATCGGCTATTCTTCACCACAAACCCTGTCTGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004078:ENSDART00000006489:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(10.5=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.6=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:
AGACCAATAGTGAAGCCCGTC
R:
CTGATCAGACAGGGTTTGTGGT
Band lengths:
270-1848
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]