DmeEX0009485 @ dm6
Exon Skipping
Gene
FBgn0013733 | shot
Description
The gene short stop is referred to in FlyBase by the symbol Dmelshot (CG18076, FBgn0013733). It is a protein_coding_gene from Dmel. It has 23 annotated transcripts and 23 polypeptides (21 unique). Gene sequence location is 2R:13864237..13942110. Its molecular function is described by: microtubule binding; actin binding; protein binding; calcium ion binding; structural molecule activity. It is involved in the biological process described with 23 unique terms, many of which group under: cytoplasmic microtubule organization; wound healing; branching involved in open tracheal system development; cilium organization; regulation of microtubule polymerization or depolymerization. 114 alleles are reported. The phenotypes of these alleles manifest in: membrane-bounded organelle; endocuticle; cellular anatomical entity; stomodeal invagination late; embryonic/larval integumentary system. The phenotypic classes of alleles include: lethal; increased mortality; phenotype; increased mortality during development. 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 18-24 hour embryonic stages.
Coordinates
chr2R:13882401-13901572:-
Coord C1 exon
chr2R:13901437-13901572
Coord A exon
chr2R:13894130-13894592
Coord C2 exon
chr2R:13882401-13882547
Length
463 bp
Sequences
Splice sites
3' ss Seq
TTCTAATCGAATCCTTTCAGAAT
3' ss Score
5.96
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
Exon sequences
Seq C1 exon
AATGCGCTCATGCGAGACGGCTATCGGGCTTATGAAGAATCTCCAGTCGAGCGTGCAAGTGGAGGAATCATGGGTGGATGGCACCACGGAGCGACTGTCTGCCATGCCCACCGCCACTTCGGCATACGAACTAGAT
Seq A exon
AATCAGCTCAACGAAGACAACGAAAAGCTCTACGAAGAGCGTCTATAGTAGCGATGGCTTGGACGCCGCTAGTCAGGAGGTTAGCACTGCTGGCCTGCCTCAATCGCAGATCCAATTCAACGAAATCCGTACGCTCAAACGCTCTCAACAGCTGGGTGGCCATTCCGTGCTGGATATAGCCGGAATACGCGATCCTCGTACGGGTCGCGTTCTAACCATCGGTGAAGCCATCCAGCTTCGCATTCTGGACGTGCGCACCGGCGAGATGCTAGTGGGTGATCGCCGTATCACGCTGGAACAAGCTGCCGACCAAGGACTGATCGATTTGCAACTGGCAAAGCAATTGCTTGAGCCTGGTGCCGGCCGAGATGCCAGCGGACGGGAGCTGTCGCTCCTGGAGGTTATTCAGCGCGAGATTAGCGAAGCGGAATCCGGTTACGAGACGGCCGAGAAGCGGATCAAG
Seq C2 exon
CAAGCAGTATTCGAGAAGTTCAACATGTGCGAAGAGAATGTCAACGATCTGTTGAAATGGGTTACCACTGTGGAACAGAAAATCTCAAGTGTCGGCGGACCTCGTGAAAAGATTGATGAGTTACGCAACCAGATTAATGCCCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0013733_MULTIEX1-5/5=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.137 A=0.184 C2=0.002
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(4.5=10.9)
A:
PF0068115=Plectin=WD(100=17.4)
C2:
PF0043516=Spectrin=PU(37.3=89.8)
Main Inclusion Isoform:
FBpp0086747
Main Skipping Isoform:
FBpp0086744
Other Inclusion Isoforms:
FBpp0086742, FBpp0086743, FBpp0086745, FBpp0271730, FBpp0271731, FBpp0271732, FBpp0271733, FBpp0271734, FBpp0290806, FBpp0290807, FBpp0290808, FBpp0293387, FBpp0293388, FBpp0293389, FBpp0293390, FBpp0293391, FBpp0293392, FBpp0293393
Other Skipping Isoforms:
FBpp0086746, FBpp0291176
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:
GCTCATGCGAGACGGCTATC
R:
CTTAAGGGCATTAATCTGGTTGCG
Band lengths:
278-741
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)