DreINT0025525 @ danRer10
Intron Retention
Gene
ENSDARG00000004078 | acsl4a
Description
acyl-CoA synthetase long-chain family member 4a [Source:ZFIN;Acc:ZDB-GENE-040426-1565]
Coordinates
chr14:28138431-28140519:+
Coord C1 exon
chr14:28138431-28138540
Coord A exon
chr14:28138541-28140380
Coord C2 exon
chr14:28140381-28140519
Length
1840 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACATTTTTATTCCCATGTAGAGT
3' ss Score
7.94
Exon sequences
Seq C1 exon
TGGTCACCTTTTATGCGACTCTTGGAGAAGACGCAGTGGCTTATGGATTGAATGAGTCTGGAGTTACACACCTGGTCACCAGTATAGAATTGCTGGAAACAAAACTAAAG
Seq A exon
GTGAGCTTTTATTTAAGAAACCGACCTTTTCTTTCAGCGTGTTATTGTTTGGACAAAGAAAAGTTGTTGATCCTGTGTGCTATTTTTAGTGCAGATCCTGTCAAGTCACCTTTATTTCTGTAGTGCTTATTACAATATGTGAGTTTCTGTCAAGCTGTTAACTAGGTTAACCCTTTTGTGCTGTTGGGGGTGTTTTCATTCACGCTGAGATTATTTTATTTTTTTTCAAGGCTTAATTTGGCCACAACTTTCTCTGTGTTTCAGCAAATTGACTATTTTTGGTGACAAATCTTAAGTTGACACACATTTTGGAAAAATCCAAAATTGAAATTTTACAAAAGCTCAGCAATACACTCAAAATGCACTACTCTTTCGTTATGTTCATGGCTGTTTTGTCCCCATTGACAAAGTCAAAATTAAACAGTTTGCCAACAGGGAAAACCACCAGCAGTCAAGAATGCATTATTTGATGTCATGGCTTTGCAATCAAAAAATGTAGTTATAATAGAGGTCAATGGGCCAAAAACAGCCACAAACATAATGAAAGGGTTGTCAATTTGAACAATACACATGGGTTAAAAGGAATAGGTTAGAATGACTGGCACAAATCAATGTCAAAACAGCACATTTTTCAGTTGCATTATCTTTGCTACACTCAAAAACTGCAGATGATAGATGAATGAATAGATGGATAGACACACATCATCAATATAAATTTGAGATAAAACCCATACTGAATCTGACAAAAGTCTGGCTTACTCACATCTGGCTTATTCACTCATAACTAACTCGGTTAAAATGTTGATATTTTCTTAAATGTACAGTAGGTTCTGAATCAATACAATGTCAAGGAACACTGACGACAGCTAACACTATATTAACTATATTATTACCCACATTAATGCACATTAACGTTTGTTTATTATGATTTGTTGCCTGCTGCTTTATATGCATTGTTGCATTCTGATTTGCTGTGAATGTTTTTATCATCTGAAAAAACAAAACCACACCAAGCGATTTATTTATTTATCTTTTCCCAACAATATTGTTCCTCTCAGCTGTTATTACAGCTGTGGGCTCTGCCTTTATCCATTTTGTTATAGTTGTCAACCTTTATGTGAACAGACTTTTATTAATCATGTTTGGTAAGCAAAAACTATGGAAATGCAAACATTTGGACTTCATGAGTTTCTTTCCTTTATTGAAAAAAAAAGATTGTAAAGAATGTTGATAACTAATTGATGGTTCCCATTTGACTTCCATATTTATTTTTACTGTGGAAGTGAATGTGGACCAAGGTTATTATAGTTTTGCATTTTTAAATTAGCTTTTTTTTTAATAATATTTTTAAATTAGCTGAACCTAAAACCAAACAAATTCAACTGAAGCAAAAAATCATTTTATTTAGTTAGTTTTTTTTAGTAACTGTGGTTAGTTTTAGTTTTTCTTTTTTTTTCTTTGTTATTTTCAATTAACAAAAATGTTTTTTAACAAAGTTTTAGCTTTAGTTAAAAACTAAAATAACCTTGGTGTGAACCATTGGCTGGTTTCCGAAGTTGTTTAAAATGTCTTTTTTGCATTGAGAAATTTTTTAAACCATTTGAGGAATTGAGTAAATCGTTAGGAATTTTTTACTTTATGGTTGAACTTTCTCTTTAATTTTTGAACGGGCCTGGTTTTTCACAAAATCTTTTGCTTTTATCTTTCTAATGTTGGAGTTCAACAAATTGACAGTCAAAAGCTAAAGCTAGTGCCAGCCGGCTTTAAAAATGTATGTATTTATTTAAAAGTTCTGTTTTTTTATATAAATTTGTTTATTCACATTTTTATTCCCATGTAG
Seq C2 exon
AGTGTTCTTCTTCAAATTCCCAATTTAAAGCACATCATCTACGTGGACAATAAGAGCATGAACACAGCAGGATTTCCACAGGGCATCCAGATCCACAGCATGCACTCAGTTGAAGAGCTGGGAGCCAAGCCAGAAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004078:ENSDART00000006489:4
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(7.6=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.7=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:
TGGTCACCTTTTATGCGACTCT
R:
GTTTTCTGGCTTGGCTCCCA
Band lengths:
248-2088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]