DmeINT0000546 @ dm6
Intron Retention
Gene
FBgn0263120 | Acsl
Description
The gene Acyl-CoA synthetase long-chain is referred to in FlyBase by the symbol DmelAcsl (CG8732, FBgn0263120). It is a protein_coding_gene from Dmel. It has 11 annotated transcripts and 11 polypeptides (4 unique). Gene sequence location is 2R:8665813..8683022. Its molecular function is described by: long-chain fatty acid-CoA ligase activity; palmitoyl-CoA ligase activity. It is involved in the biological process described with 11 unique terms, many of which group under: developmental process; multicellular organism development; cell development; cell communication; lipid storage. 52 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; adult segment; embryonic abdominal segment 6; epithelial cell; cell. The phenotypic classes of alleles include: lethal; lethal - all die before end of larval stage; increased mortality; phenotype.
Coordinates
chr2R:8680012-8680721:+
Coord C1 exon
chr2R:8680012-8680486
Coord A exon
chr2R:8680487-8680548
Coord C2 exon
chr2R:8680549-8680721
Length
62 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
AACTATTATTTTTCTTGCAGACT
3' ss Score
8.77
Exon sequences
Seq C1 exon
AGCACGTTCCACCCAAGGGAGATGACATTGCCATTATCATGTACACTTCCGGATCCACTGGCACACCTAAGGGTGTCCTCCTCTCGCACAAGAACTGCATTGCGACAATGAAGGGATTTGTTGATATGGTGCCTATCTATCCGGATGATGTACTGATCGGATTCCTGCCCCTGGCTCACGTTTTTGAATTGGTTGCGGAAAGTGTGTGTCTCATGACTGGCGTTCCAATTGGCTACTCGACCCCCTTGACTCTGATCGACACTAGCAGCAAGATCAAACGCGGGTGCAAGGGCGATGCCACCGTCCTGAAGCCCACCTGCATGACTTCGGTGCCGCTGATATTGGATCGCATTTCCAAGGGTATTAACGACAAGGTTAACTCTGGCTCGGCGTTCAAGAAATCACTCTTCAAATTCCTTTACCAGTACAAAGTCAAGTGGGTGCAGAGGGGGTACAAGACGCCGCTGATTGATAA
Seq A exon
GTAAGAACGGTGTGCTCATAAATATCATGAGTTGCTAACTAAAACTATTATTTTTCTTGCAG
Seq C2 exon
ACTGGTGTTCAAGAAGGTGGCAAAGCTAATGGGTGGCAAAGTGCGCATTATCATGTCTGGCGGAGCGCCTCTGTCAGCAGATACACATGAGCAGATCAAGACCTGCTTGTGCTTGGAGCTGATTCAGGGCTATGGCCTTACGGAAACTACGTCTGGAGCCACTGTCATGGACT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0263120:FBtr0088699:7
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(33.5=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.3=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0305216
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0087779, FBpp0087780, FBpp0087781, FBpp0099845, FBpp0099846, FBpp0099847, FBpp0099848, FBpp0099849, FBpp0099850
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACAAGACGCCGCTGATTGA
R:
CTCCAAGCACAAGCAGGTCTT
Band lengths:
142-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)