DmeALTD0006669-2/3 @ dm6
Alternative 5'ss
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:12604648-12605388:+
Coord C1 exon
chrX:12604648-12604794
Coord A exon
chrX:12604795-12604797
Coord C2 exon
chrX:12604861-12605388
Length
3 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TCGATAATCCTTCCTTGCAGCAG
3' ss Score
7.28
Exon sequences
Seq C1 exon
GTTTGCGGTTTGGCCGAACGCCTGCGCTACCATGATCCCATTCTCATTAATCGTGTCTCATTTGCGAGTCCTCCGAATGCCACTAGCAAGGATAGTGCTGCTGCTGAAGAGAAGGCCTGGTTGCGTCAGCTTAGATCTCTGGCCTAT
Seq A exon
GTG
Seq C2 exon
CAGCCCCAACAAGAGCAGCTGCAACAACTGCAGCAGAATCAGCAAGTCCAGCAGGAGCAAAACGACATCGATCAGCAGTTTGCAGAGGTGAACAAGCAATTCAGGGAGCTAAACATGCAATACGAGAGCAACAGCAACATGGAGAATACGCTGCAGCCGCAGTTGCCACCGGTGGATCAACAGCCGCCGCAACAGCAGCAACAAGTTTTATCGGAATCGTACCAACAGCCAACACAACAATATTATGAGCCACCACCTCAAGCGCCAACCGAATCCGATCCCTATGGACAGGGCCAACCGTCCTATTATGATCCCAATGCGGGGCAGCTTCATTACGATCCAAATGCTGCACAGCATCAATACGACCAGCAGCAACCTCAACCACAGCCGACTCCCAGCTATGGCCAAATAGAGCCAGGAACTGAGGCCTACCAACCTGGACAAGCAACAGCAGATCCAGCTGCGGTTCCCTCTGGCTACGGATACGATTACTGGTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052654-9-9,10-9,11-9-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.193 A=NA C2=0.959
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=PD(7.7=40.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0309104
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0112356, FBpp0112357, FBpp0301987, FBpp0309103, FBpp0309105
Other Skipping Isoforms:
NA
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:
CTGAAGAGAAGGCCTGGTTGC
R:
GCTGGACTTGCTGATTCTGCT
Band lengths:
96-99
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)