Special

DmeEX0006400 @ dm6

Exon Skipping

Gene
FBgn0011259 | Sema-1a
Description
The gene Semaphorin 1a is referred to in FlyBase by the symbol DmelSema1a (CG18405, FBgn0011259). It is a protein_coding_gene from Dmel. It has 8 annotated transcripts and 8 polypeptides (6 unique). Gene sequence location is 2L:8542147..8672041. Its molecular function is described by: protein binding; chemorepellent activity; heparin binding; semaphorin receptor binding. It is involved in the biological process described with 13 unique terms, many of which group under: negative chemotaxis; negative regulation of cellular component movement; stem cell differentiation; positive regulation of cellular component movement; cell recognition. 57 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; non-connected developing system; transverse nerve; adult head segment; motor neuron. The phenotypic classes of alleles include: viable; increased mortality during development; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed within 12-18 embryonic stages.
Coordinates
chr2L:8663198-8665518:+
Coord C1 exon
chr2L:8663198-8663251
Coord A exon
chr2L:8664158-8664220
Coord C2 exon
chr2L:8665446-8665518
Length
63 bp
Sequences
Splice sites
3' ss Seq
TCTTCCCCTTTTTACATTAGGTT
3' ss Score
8.92
5' ss Seq
ATGGTAAAT
5' ss Score
6.41
Exon sequences
Seq C1 exon
GGCGACAATTACAGGCGCGGCGATGGCTTTTCCACCACCCGCAGCGTCAAGAAG
Seq A exon
GTTTACCTTTGAGACGGGAGTGGGGCGGCTGAAACCAGTCAGGGACTAATTACCCAAAATATG
Seq C2 exon
GCTGTAAACAACACAAACACACGTAACAGAAGTCTTGGTCGCGCAAGAAGACAGCCGCCCCGTCATGGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0011259_MULTIEX2-1/3=C1-3
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.889 A=0.000 C2=1.000
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
NO


Main Inclusion Isoform:
FBpp0292882


Main Skipping Isoform:
FBpp0302962


Other Inclusion Isoforms:
FBpp0302963


Other Skipping Isoforms:
FBpp0079302, FBpp0292880, FBpp0292881
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:
GGCGACAATTACAGGCGCG
R:
CGGGGCGGCTGTCTTCTT
Band lengths:
116-179
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)