DmeINT0020465 @ dm6
Intron Retention
Gene
FBgn0035879 | GAPcenA
Description
The gene GTPase activating protein and centrosome-associated is referred to in FlyBase by the symbol DmelGAPcenA (CG7112, FBgn0035879). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 3L:8346561..8352279. Its molecular function is described by: GTPase activator activity; Rab GTPase binding. It is involved in the biological process described with: regulation of GTPase activity; intracellular protein transport; activation of GTPase activity; positive regulation of GTPase activity. 8 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; viable. 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 12-24 hour embryonic stages, during late larval stages, during early pupal stages.
Coordinates
chr3L:8350148-8351724:+
Coord C1 exon
chr3L:8350148-8350867
Coord A exon
chr3L:8350868-8350926
Coord C2 exon
chr3L:8350927-8351724
Length
59 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATTTTTCAACTCTCTTTCAGCAC
3' ss Score
9.15
Exon sequences
Seq C1 exon
ATGCCTGAGGAGGATGCGTTCTGTGTTCTGGTAGCGCTTATGTACGACTATGGGCTCCGTGATCTCTACAAAGCCGGATTCGAGGTCCTTTACCTTCGTCTCTACCAACTGGAGCGACTGATCAAGGATCAGCTGCCCAAGCTGCACGAACACTTCACGGCCTGCGGCATTGAGACGCACATGTACGCCTCCCAATGGTTCCTAACCTTATATACAGCGCGATTCCCATTGTGTTTTGTGTTCCACGTGCTGGATGTGTTTCTACTGGACGGACTACCTGTGCTCTTCCAGGTGGCCGTTACTCTCTTATCAATCTGTGAATCCGACTTGCGGCAACTCGATTTTGAGGGCATTCTAAAGTATTTCCGGGTAACGTTGCCGAAAAAGTGCCGCAGCTCCAGTCAGGCACGCAAGGTGATGAAGCAAGCCTGCGAACGTAAGATAAAAAAACTGAAGCAGTACGAGGAGGAGTTCCTGCTGAAGAAGCAGCACAAGGAGCGCCTGGAGAAGGAGGCACAGATTTACGAGAATCGTTTCGGCGAGGAGAGGCGCAAAATGCAGGCGGAAATCGACGCATTGAACAAACAACTGACTTCCGCCAAGGAGCGAGCTGTTGAGAAGGAGAAGAAGCACACAGGCATTATACAGGAATACAAGCAGATCATCCAGCGCCAAGAGCAGGACATGAACACACTAAGCGAGACTCTAGGAAAAGTGATG
Seq A exon
GTGAGTATTGTATTGTAATATGAATTTGACGGGATATTCATTTTTCAACTCTCTTTCAG
Seq C2 exon
CACATGGTTTCCAATTGCCAGGATTGTCAGCAGCAGATCGACGCCGGCAATGACAACGCTAAGTCAGATGACGGCAAGAACAGGGGGCAAACCGATGCCATGCGGAATGCCAATGAGCATCCACTGGGTCCACTTGATCCGCTAAACGCTGCCTCGCAACGCATCCGCGAACTAGAGCTGGAGCTGGCCCAGGCCAAGCTAGCTCAAGTGGAAGCCGAGTGCAAGAACCAGGACCTGAACCATCAGCTCAGCAATACGCTCAGTGAGCTGCAAACCAACCGCAACAGCTGGCAGCCCTGGCTATCGAAGACCTTCAATTCGCTGCAGGAGAAGGTAACCACGCGAGGCGGCCATCGGGATAATGGTAGTGGCGGACCGATGCCCTCATTCCAATCCTACATGGGCCAGGCGCCAACTACCCTAAGCGAGGCCAGCTCCCCCAGCGGCAATCAGGTAACCTAGAGTCCAGTGATCCGGCCAACTGTTATGACTGAAAGATCTTCAGTTTATTATTTTTAAGTTTTTTATGTATTATTTCTATGATTAAGATATGGGTTATCAGCCCACGAGCTGAGCTCCAGGAATGTTTTCGAAATACTTTATTAATACCCATTACTTATCATTGATTAATTTAATTACGCGCTTAACCTCACACCATGACACACATTGAGAATCTTTATTTAGTCGACTCTATGCAGGCATTGAACCCCTCTGCTGTTTCTGTTAGTACCCTAAAACCCGGGTTGCTTATGATTTTATTGATATTTTGCGTTGCAAATAAAACCCCGTGTATATAAC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0035879:FBtr0076605:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.877
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=PD(53.9=45.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0112066
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0076332
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:
GCCAAGAGCAGGACATGAACA
R:
CCCTGTTCTTGCCGTCATCTG
Band lengths:
135-194
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)