DmeINT0011069 @ dm6
Intron Retention
Gene
FBgn0259221 | CG42321
Description
The gene ATPase 8A is referred to in FlyBase by the symbol DmelATP8A (CG42321, FBgn0259221). It is a protein_coding_gene from Dmel. It has 15 annotated transcripts and 15 polypeptides (12 unique). Gene sequence location is 2R:13414978..13439051. Its molecular function is described by: ATP binding; magnesium ion binding; ATPase-coupled intramembrane lipid transporter activity. It is involved in the biological process described with: phospholipid translocation. 25 alleles are reported. The phenotype of these alleles manifest in: larval multidendritic class IV neuron. The phenotypic classes of alleles include: viable; partially lethal - majority die; some die during pupal stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 12-24 hour embryonic stages, during late pupal stages, in adult male stages.
Coordinates
chr2R:13414978-13415957:-
Coord C1 exon
chr2R:13415875-13415957
Coord A exon
chr2R:13415616-13415874
Coord C2 exon
chr2R:13414978-13415615
Length
259 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
GGCATTGTTTACCTTCCCAGATG
3' ss Score
7.22
Exon sequences
Seq C1 exon
ATTCACGGAAACGGCCCGGCTGCTACGTAATGTCTTTACCCGTCGTGCCAACACGAGAGTCGAAACGGATCTCGAGCTATCGC
Seq A exon
GTGAGTACCACTCAGTTGCAGGAACCCAGCCATTAGTGGTAGGACTCCTCGAGCAGTAGGTCCGCATCCCGGGGCTGGGCTATGGAGTATGGCCTCCATTTTGTGGCAAGGGGGTCTCCCTTGGAGGTAGAACTACATACATACATATGTATGAGACACTGGGACCACACTCACACATTACAACAGATACCACACATGAATCACTTGACCATTTGTGATCTATACGATTCTAACTAACTGGCATTGTTTACCTTCCCAG
Seq C2 exon
ATGGCTATGCGTTTTCCCAGGAGGAGGGCGGAGCTGTGCCGCAGTCTATCATTATACGTGCCTATGATACGAATCTGCCAAAGCCCGAGGGTAACTAAACCGAAAACGATGGGACTCTGGATCTCACGGTGCACATGTATATAGGAGAACGCAAGGAGCTACGATTTCGATTCACATTGGTATATATTTAGAGCACACTTCTGGTAGGCCAAACTAAAAAAACACACAAAACACATCACATTTATTATCTATGTGTCTTACACCAGCAGTAATTGAAAAACATTTCGTAGACGCCACTAAACATTTGAATATTGCGCTTATATGTAAGTTTATCTTTCTATTTGCTGTTATTTATTTTGTAAGATCGCGAGGAAAAAAAACACATTTAAGAGGCTAGAGTTCGGTTTTGTTTTTATTTTTTGTATCTGTCCCCTTGTCCGCGGCGCAGCTTTGTGATACGGATACAGACTTGCATTCTTTTTTAAAAAAGTCTATCTCTAAGTAAACTGTAAACATTTGTACCTACATATGCATTACATTATTGTGAATTTCAAAAAAACATATTGATGTCAGCAAAGAATCTGTATTTTTCGGTCACCGAACCGCTGATATTTAATGGAAATAAATCATATTTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0259221:FBtr0299754:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.120
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0289033
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0289032, FBpp0289039, FBpp0289040, FBpp0289041
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:
GAGTCGAAACGGATCTCGAGC
R:
TCAATTACTGCTGGTGTAAGACA
Band lengths:
303-562
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)