Special

DmeEX0009489 @ 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:13917118-13917910:-
Coord C1 exon
chr2R:13917849-13917910
Coord A exon
chr2R:13917709-13917726
Coord C2 exon
chr2R:13917118-13917207
Length
18 bp
Sequences
Splice sites
3' ss Seq
AACACCTTTCCCACAAGCAGCAT
3' ss Score
3.4
5' ss Seq
AAGGTACTA
5' ss Score
7.52
Exon sequences
Seq C1 exon
ACGAACGCGATGCCATTCAGAAGAAGACTTTCACAAAATGGGTTAACAAACATCTGAAAAAG
Seq A exon
CATTGGAAGTATGCTAAG
Seq C2 exon
GCCAATCGTCGTGTGGTGGACTTGTTCGAAGATCTGCGCGATGGTCACAATTTACTTTCACTCCTGGAGGTGCTATCTGGCGAACACCTG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0013733_MULTIEX4-1/2=C1-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.019 A=0.000 C2=0.000
Domain overlap (PFAM):

C1:
PF0030726=CH=PU(12.9=61.9)
A:
PF0030726=CH=FE(4.7=100)
C2:
PF0030726=CH=FE(28.7=100)


Main Inclusion Isoform:
FBpp0293389


Main Skipping Isoform:
FBpp0086745


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0086742, FBpp0086743, FBpp0086744, FBpp0271730, FBpp0271731, FBpp0271732, FBpp0271733, FBpp0271734, FBpp0290806, FBpp0290807, FBpp0293390
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
ALTERNATIVE
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCGATGCCATTCAGAAGAA
R:
AATTGTGACCATCGCGCAGAT
Band lengths:
110-128
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)