Special

DmeEX6015602 @ dm6

Exon Skipping

Gene
FBgn0035916 | GAPsec
Description
The gene GTPase activating protein, SECIS-dependent read-through is referred to in FlyBase by the symbol DmelGAPsec (CG5978, FBgn0035916). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3L:8622039..8623901. Its molecular function is described by: GTPase activator activity; translation elongation factor binding; Rab GTPase binding; GTPase binding. It is involved in the biological process described with: activation of GTPase activity; regulation of GTPase activity; intracellular protein transport; translational readthrough. 6 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; fertile. 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 00-18 hour embryonic stages, during late larval stages, at stages throughout the pupal period.
Coordinates
chr3L:8623077-8623901:-
Coord C1 exon
chr3L:8623755-8623901
Coord A exon
chr3L:8623608-8623687
Coord C2 exon
chr3L:8623077-8623549
Length
80 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTAACCAAAATGCAGAGT
3' ss Score
3.63
5' ss Seq
ATGGTAGAA
5' ss Score
1.05
Exon sequences
Seq C1 exon
CCCATTGTTTTGTTGTGTTTTATACCTGCAGATTTCACCCAGCATAAAACTGAGATAAAGCTTTAATTAATTACACATAGGGGTACTGCAAGATCTCAGCATAGCCCCGCCCACATAAAGCCGCAGCATGTCTATTTTCAAGGCGCG
Seq A exon
AGTCAAGGAATTTGAGGATGTTTTGGCGGGGCCACAGGATTTAATTGACCTGAAACAACTCAGGAAACTGGCATTTAATG
Seq C2 exon
GTGTGCCCGATGTGCAGAGTTTTCGAGCACTCAGTTGGAAGCTACTCCTTGGCTATTTGGGGCCTAGGCGCAGTAGTTGGACCACAACCTTGGCCCAAAAGCGAGCCCTGTATAAACAGTTCATCGAGGAGCTAGTCCTGCCCCCCGGACACTCGAGCAATAGAGCTAGCGTAGACGGAGGAGATGGGGACAAAGTCGATTCGGGGGGCGTTGGCCTGCAAGATCATCCGCTGAGCGAGGGACCCGAAAGCGCGTGGAACACGTTCTTCAATGATAACGAGTTTCTACTGCAAATCGACAAGGATGTCCGCCGCTTGTGCCCGGACATATCCTTTTTCCAGCAGCCCACCGATTATCCCTGCGAGATTGTGGTCCACAGCAAAGGAGAGCATGGACGAAGGCTCCACGAACGGGTGGTTCCCGCCGTTCTAAGTTCGGCGAATGTGGAACGCAAGGGCCTCGGCATGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0035916-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
80%=100=75%
Protein Impact

ORF disruption upon sequence exclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.171
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
PF0056613=RabGAP-TBC=PU(4.2=5.1)


Main Inclusion Isoform:
FBpp0076372


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCTGCAGATTTCACCCAGC
R:
GCTTCCAACTGAGTGCTCGAA
Band lengths:
167-247
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)