DmeINT0009740 @ dm6
Intron Retention
Gene
FBgn0034999 | CG3394
Description
The gene Fatty acid transport protein 3 is referred to in FlyBase by the symbol DmelFatp3 (CG3394, FBgn0034999). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 2R:24294097..24298111. Its molecular function is described by: long-chain fatty acid-CoA ligase activity; very long-chain fatty acid-CoA ligase activity; long-chain fatty acid transporter activity. It is involved in the biological process described with: fatty acid biosynthetic process; triglyceride homeostasis. 5 alleles are reported. No phenotypic data is available. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of very low expression. Peak expression observed during late larval stages.
Coordinates
chr2R:24295573-24297384:+
Coord C1 exon
chr2R:24295573-24295849
Coord A exon
chr2R:24295850-24295907
Coord C2 exon
chr2R:24295908-24297384
Length
58 bp
Sequences
Splice sites
5' ss Seq
AAAGTGGGT
5' ss Score
3.99
3' ss Seq
CAACTTCCGTTCTCTTTTAGGGC
3' ss Score
11.34
Exon sequences
Seq C1 exon
TGAGCGAGAACGAGAAGCGTCCCGATCTGGAGGATCAGGATCAGGATCAGAATCAGGAGCAGGCTGGCGGCAGGAAAATGGAGATCCTGCTGGAACTAAACCTAAAGCAGAAGCTGGCCACCCGACTAGGCACCATCCTGCTGGCCACAGTGATCTTCGGCGCCTTTTGCTGGGACAACGCGTTGGCCAGTCTAACACTGGGAGCAGTGGTGGCTCTCCTGCTCAGAAATCCCACCTTCGTCTTTGCCTTGGTAATGACCGCGTCCAGGGACCTAAA
Seq A exon
GTGGGTATTTGAGTGGCTAATTTCGCGGAGAAACCCCCCAACTTCCGTTCTCTTTTAG
Seq C2 exon
GGCTTTCCAGCGATTCGTGGCCCTCAACATCTACCTGCTAAGAAAGGATCGCGGCGGATTCACTGTGGCCCGCTGTTTCCAGGACCAGGCCAGACGCCGCCCCAAAAAGACATGCTTCGTGATGGACGATCGCCATTTAAGCTTTGCAGAGGCTCTGGAGTTTAGCCAAAAGATAGCTGGATATTTTAGCGATCGCGGCCTGGAGAGGGGCGACTGTGTGGCCCTACTAATGGAAACGCGTCTGGAGTATCCCTGCATTTGGTTGGGTCTCTCCCAGCTCGGGGTAATCACAGCCCTTATTAACTCCAATCTGCGCGGGGAGTCTCTGCTGCACTCCATCAAAGTGGCCAATGCCAAGGCCCTAATTGTGGGCAGTGAACTCCTGGATGTGCTGGTATCACTTAGGGAGAAGGAGCAGTTGGACGAGGTGCCCATCTATCAGTACACAGATGACGAGGTTCGCGGGGTGGCTGGACATGATCTTTTGCCAGGAGCTGTGGACTTGGTTACTGCTCTAAAGACCCAAAAGAAACTGGAGCTACCGAGTGCTGTCTGTCCTGGAGAAGCTCGTTCCAAATTGCTCTACGTTTACACCTCTGGAACTACGGGCTTGCCCAAAGCAGCTGTGATCACCAACCTGCGGTTCCTCTTCATGTCTGCAGGATCCTACTACATGCTCAAGATGTCCAGCGACGATGTGGTGTACGATCCCCTTCCCCTCTACCACACCGCTGGTGGAATTGTGGGAGTGGGCAATGCCATCCTCAATGGATCCACGGTGGTGCTGCGCAAAAAGTTCTCGGCCAGGAACTTCTGGCTTGACTGCGATCGCCACAACTGCACTGTGGCCCAGTATATCGGGGAGCTGTGTCGCTATCTTCTGGCCACCTCCTACTCCCCCGATCAGCAGAAGCACAACCTGCGTCTGATGTACGGAAATGGACTGAGGCCACAGATCTGGTCGCAGTTCGTCCGTCGCTTCGGTATTCCGCACATAGGAGAAATTTACGGCGCCACCGAGGGAAACTCCAACCTGATCAACATCACCAACCGAGTGGGGGCCATCGGATTTGTTCCCGTCTACGGATCGAGCCTCTACCCTGTTCAAGTCCTGCGGTGCGACGAGTACACGGGTGAGCTGCTCAAGGACTCCAAGGGTCACTGCATCAGGTGTCAGCCTGGGCAAGCGGGTCTCCTGGTGGGCAAGGTGGACGCTCGGCGGGCCGTGAGTGCCTTCCATGGATACGCCGATAAGGGAGCCTCGGAGCAGAAGCTCCTTCGAAATGTCTTCACATCCGGAGACGTCTTCTTTAACTCGGGCGACATGGTGGTGCGAGACATACTCGGTTACTTTTACTTCAAGGATCGCACGGGAGACACCTTCCGCTGGCGGGGTGAAAACGTCGCCACCCAGGAAGTGGAGGCCATTATCACGAACTGTGTTGGCTTGGAGGACTGCGTGGTCTATGGCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034999:FBtr0072268:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0050123=AMP-binding=WD(100=89.0),PF131931=AMP-binding_C=PU(26.3=4.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0072175
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0072176
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:
CAACGCGTTGGCCAGTCTAA
R:
AGATGTTGAGGGCCACGAATC
Band lengths:
134-192
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)