DmeINT0005756 @ dm6
Intron Retention
Gene
FBgn0030286 | CG1657
Description
The gene GTPase activating protein and VPS9 domains 1 is referred to in FlyBase by the symbol DmelGapvd1 (CG1657, FBgn0030286). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is X:11325385..11334071. Its molecular function is described by: GTPase activating protein binding; guanyl-nucleotide exchange factor activity; Rab guanyl-nucleotide exchange factor activity. It is involved in the biological process described with: regulation of protein transport; regulation of GTPase activity; signal transduction; regulation of Rab protein signal transduction. 7 alleles are reported. The phenotypes of these alleles manifest in: garland cell; slit diaphragm. The phenotypic classes of alleles include: endocytosis defective; viable; partially lethal - majority die; some die during pupal stage; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, in stages of adults of both sexes.
Coordinates
chrX:11325385-11328192:+
Coord C1 exon
chrX:11325385-11325510
Coord A exon
chrX:11325511-11328023
Coord C2 exon
chrX:11328024-11328192
Length
2513 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TTTTGCTGCTTTTATTCCAGCCA
3' ss Score
7.58
Exon sequences
Seq C1 exon
ATTGTTTTTGTTGTTTTCCTTTTGGGAGACGCGTGTGTGTGTTTTGCGTGTGATAATTTATTTATTTTCCCGTTCCGTTTGTTTATGCACTGTAATTTAGATTCAGTTTTTAGCACAGGCGCAGGA
Seq A exon
GTAAGTAAAAATTAACATAAAAACAAAAACCAACAACAAAGCGAGTAACAATTTGTCGAAGTGAGTGCGCAAAAGTGCTGTGCTTGTGTGTGTGAGTGTAACACTTAAAAAATGGTCTAAAAAAGCAAGAGATTCATTCATAAAAAATGCAACAACAAAAGGGGGTCGCCAAAAGAAGTGGAGCGCATAAAGATGTGGTGACTAGAGGGAGAGACAAGCAGAGAAGAAGGATCAGTGACAACAACAATAACATCAATAACAATTTGGCCTTCGCCTATTGCTAGCGCCCTCTCGCTCCCACACGACCACCCGTGCAATCAGCGCCCACATAACGGACCTACGTTTTGGTGTTACTTTTCATTTTTGTGCTACTTGTTGTTGATTTTTTTAAATGTGTGTTTATGTGCAATTCTCGCCCAAATTCTTTGTATTATTTAGTGCTTGGCACAACAAATAACCAAATAAACTGAACTATTAAACAACCCACACAATTGCAATTGCATATCCACCCCCCAATTCGCACTGAACGCGCGTGTGTGTGTGTGTGGTTGTGTGTAATGAGCGCAACAAATCAGTTTTGTTTTGTTTTTTTTTTTTAATTTGCAAATTCCCCGTTTTTTGTGCGCTCTAAAAGTATGTACATATGTGCAATGAAACAACAGTCACCGCCAATAAGCAATATCCCCACGTATGACCCATTGTTTATCTTAAGAAAAGCCAAAGACTTTCACACACTTATCGATAAGATAAAATTTAAGCTAAATACAATGGCTAGTAGATAGTTCTTTCTCACTCGCCGTATGCGACAGTTGCGGCCAACATAATATAGCCAGCTGGCTATTATTAAGCGGACCTACTATTTTCGTCACAGGCAACTTCATACTCACAAATAAGTATGCTTAAAAACATTTTCTTTTACAATATGATTCATAATATATCAGACATGCGTATAAACAAATAAAATAGTTGTCGTACAAGTCATTGGATGATGATCTCGCTGTTTTACATAATGATATTTGCTTACGTTTAACGGTGAGTCAATGCCAAGCTGCTATTACAGTGCCCACCGCTGTAACCTGCATAACAACAGCCGTTAATTGAGGCGCAAATATTTGTAGTTGTCTCCCCCTCTTTGTGGCGCTTCGCGTGCGGTGGGGAGCGGGGTGGAGCTCCGAGTGACAGGGCATTGGCTTTCGTAATTGACGTCTGCCCTTGACCAAGGCCTAAAAGCAACAGTGAAATCGGCTTCACTGGAATGGAAACCGCGATCATAAGCAGAGCCATTGTTCGTGCAAGACTTAAGCCGTTCAAACGGCTGAAAACCAATATCATACTATATTTTTGACGTCTTTGCAATGCTTCTTGGCACAGAGACACAGTGCGGGGCGTTTAAATAGAACCACTTTGTAGCAAAATATAGAACTATAAAACTCGACTATATGCCTCAAACAAGATTTAATTTAATTTATTATATAATATAATTTGGATATATTTAATAGAAGAAAAGCTCTTCTAGTCTTAGTACTGCTATAATTCTGATAATATCAGACCTTTTTACGTAGTTTTCACGCACCCAATCATATTTTTCTGGTCAGACTGTAAATTCGTAATTACTTTCCACTTAGTTTCACTAGTTATTCAGTTTACTTGGGCTTACATTATTCGAGAGACGCCAATTAGACCGCGTGATACGCTTTCCCATGCGATTTTAGACGTCACAGGTGCAAACAATGGGAATTAAGGTCAGGCTGTAGGGACTTTTAGCGTATCTGAGCACAAAGATCCCCCTTCGCATCGATATAAACTGATCACGATCTGGCGCACCCAACTAGATGTATTTATCCGTATGTTATGGAGATTTTAAAAAGGTACAATGGATATGAACTCAAATGGGAAGCATATTATAAACAAAGAATGAAATATAGTTAAAGTAAATGGAAATTATCTAAGCAATGGCTTTGGTGCTTGAATATTTTGACAGCCTATTTAAAAATCGATTCGTTTTTAAATTCCCAATTGTCATCCATCAAAAGTTTAAAATTCATGCATGTTCAATTAAGTGGCGCTCAGCCATTAAACTGGATGACAGCCTGGTTCTATTTGAATCGCGAGTAACAAACTGATATCAAATGGCACACATTTCCATAAATAATGCAAAGCAATTTAAATTGCGCCAATGCGCAGTTTTAAAGGCAAGGAAAATTGGAAAAGCGAATGCGAATGGGGAAACGATTGTAGTTAAGAATGAAAATTAAGCTGAATTCACAGAGATTTACTAACGGAAGACAAAATTCAACTATCACTGATTTTAAAACTATTCCGTACAAAACAAATGTGTAAAAACATACGGAAATAGCTGGAATTATAAATAAAAATATATTTGCGAAACTGGATAAACAATGGTCGTACTCTTCCGTACGGAAATTAATGCATAATATACATAATTCCATTTAATTCAAAGCACATCTATAACTCAATTCACATTAATTAACATTTTGCTGCTTTTATTCCAG
Seq C2 exon
CCAGCGAAGGCTGCACCTAGCCATGGAGCCCCCAGCTGCTGGCAATCTGCTGGAGATCATGGACCTGGCCCGCACTCTCCGCCAGGAGCAGCTCTTCATCCAGCAGGAGCAGGCGGCCTTTGCCCAGCTCACTGGAGCCTTTGAGAGCAATGCAGGGACCATAACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0030286:FBtr0073448:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0073304
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)