DmeEX0006383 @ dm6
Exon Skipping
Gene
FBgn0052654 | Sec16
Description
The gene Secretory 16 is referred to in FlyBase by the symbol DmelSec16 (CG32654, FBgn0052654). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (6 unique). Gene sequence location is X:12596047..12609910. Its molecular function is described by: Ras GTPase binding. It is involved in the biological process described with 10 unique terms, many of which group under: endomembrane system organization; response to starvation; endoplasmic reticulum organization; stress granule assembly; response to nutrient levels. 8 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 high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chrX:12597346-12603466:+
Coord C1 exon
chrX:12597346-12600441
Coord A exon
chrX:12601583-12601897
Coord C2 exon
chrX:12603010-12603466
Length
315 bp
Sequences
Splice sites
3' ss Seq
CATACATATATACAATACAGGTA
3' ss Score
4.85
5' ss Seq
CAGGTGGTC
5' ss Score
1.07
Exon sequences
Seq C1 exon
ACCAGTCGCCATCGACGCAGTGCCGCCGAGGAGGATTTCGATGATTACGAACGGGAACGTAATCGATCCCGGCGCTCAACCAAACCACAATCGTCGGCTGAAAAGTCACGCTCCTCGGGCGGACGACGGAATTACGAGAATTCGGGTCGAAGTGCCCGTGCGGATGATGGACGCAGACGTTATCAGGATCAGCGCAATCCTGGTGCTCAGTATCCCGTGTCAGCCACCGGCTATGTTCCCTACGGAATGTACGAGCAAATGTCGCGGAATCCACAAGTCTACGCTGATATGTATGCAAAGTTCTATGGCCAAATGATCAACTCGATGAACGCAGCTGTTTCGGCGGCTGCTTCGAAAGGTGGAGTTCCCGCTGGAGCAGGAGTCATACCCGGATTGATGCCCAGCGCGGTGCCCGTCAGTGCCGCCCAGTTGGTGGCCGCCACCAGCGGAGGAAGTGTCAGCGGTAGCAGTGAAGCCGCCATGCTCAGGGAGCGAGAAAG
Seq A exon
GTATACACACGCATACATAACCCAAGCCAATGAATTCCATCGTCACCAATACAAAGAGCTGATCTACCAGCAACAACAACAACAACAGCAGCAGCAACAACAACAACAGCAGAGGGAGGATCACCTGAACTCCAGCTTTAGCGTTGCAGAGGATAATGCCAGTTTTTACGGATCGCACGGAGGAGGTTCCATCTATAACCAATACCAATCGTATCCACTATCCAGTGCCCGATCGTTGAGTAACTTGAACGGCGATGGACGCAATTCCCGATGCGGACCGTATTACGCTGGTTCCGAATGCGGTCTCGATATCAG
Seq C2 exon
AGCTGCTGCCGATGCGGCACCTTCGACTTATGGAGGAGTGGCTGGAACCGCTGGACCGGTGACCAACACTGCGGTGGCTCGTCCGCCGCGCAGACGCACTCCCTTGCAGTTCAGCCGACCGCATTTGGTGGCCTCGTATGCGATGAGTCTGCTGCTGAAGGTGAAGCCCAAATACGCGGGACGTGGACGACTGCGCAACGATGTGGAGGTGGCACCACCACGCATACGGGACGGTACGAGCAGCCTGCTGCGCATGTATCCTGGTCCCTTGCAGGGACGCAAGTTGCACAAGGACAAGATCATCAGTTTCTGCAAGGAGCAGATCCGACTGGGGCCCACAAAGGGTTGCACCGCACTGTATGCCACGCAGAAGAAGCCACAGGGCAGCGTGACGAAATACCGTGCCTCCCATGCGCTCATGTGGCACCTGCTAATACTTTTGCTGCGCCAAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052654_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.880 A=0.425 C2=0.294
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF129322=Sec16=PU(97.8=56.9)
Main Inclusion Isoform:
FBpp0309104
Main Skipping Isoform:
FBpp0112356
Other Inclusion Isoforms:
FBpp0301987, FBpp0309105
Other Skipping Isoforms:
FBpp0112357, FBpp0309103
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:
ACTCGATGAACGCAGCTGTTT
R:
CCTTCAGCAGCAGACTCATCG
Band lengths:
342-657
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)