DmeALTA0009411-3/5 @ dm6
Alternative 3'ss
Gene
FBgn0003654 | sw
Description
The gene short wing is referred to in FlyBase by the symbol Dmelsw (CG18000, FBgn0003654). It is a protein_coding_gene from Dmel. It has 16 annotated transcripts and 16 polypeptides (12 unique). Gene sequence location is X:20227961..20236382. Its molecular function is described by: dynein light chain binding; dynactin binding; dynein heavy chain binding. It is involved in the biological process described with 11 unique terms, many of which group under: cellular process; organelle organization; microtubule-based process; movement of cell or subcellular component; protein localization to organelle. 37 alleles are reported. The phenotypes of these alleles manifest in: anterior-posterior subdivision of organism; organism subdivision; tagma; anatomical structure; organ system subdivision. The phenotypic classes of alleles include: lethal - all die before end of larval stage; increased mortality during development; increased mortality; phenotype. 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 in adult male stages.
Coordinates
chrX:20230441-20232164:-
Coord C1 exon
chrX:20232117-20232164
Coord A exon
chrX:20230585-20230596
Coord C2 exon
chrX:20230441-20230584
Length
12 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GCTTGCATTTGATGCCCAAGGAG
3' ss Score
1.53
Exon sequences
Seq C1 exon
ATGAATACAATCTTAATCCGGGTTTAGAGTGGGAGGATGAATTCACAG
Seq A exon
GAGACGACGAAG
Seq C2 exon
AGAGCTCACTGCAGAACCTGGGCAACGGATTCACCTCCAAGCTGCCACCGGGCTATCTCACCCACGGCCTGCCCACCGTTAAGGACGTCGCCCCGGCCATCACACCACTCGAGATCAAGAAGGAGACTGAAGTGAAGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003654-10-14,10-13,10-12,10-11,10-10-3/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.647 A=NA C2=0.607
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0088422
Main Skipping Isoform:
FBpp0088428
Other Inclusion Isoforms:
FBpp0088420, FBpp0088425, FBpp0089020, FBpp0089021
Other Skipping Isoforms:
FBpp0088419, FBpp0088421, FBpp0088423, FBpp0088424, FBpp0088426, FBpp0088427, FBpp0088429, FBpp0309318, FBpp0309319
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:
CCGGGTTTAGAGTGGGAGGAT
R:
TGGGTGAGATAGCCCGGTG
Band lengths:
95-107
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)