DmeEX0006397 @ 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:8661359-8663135:+
Coord C1 exon
chr2L:8661359-8661487
Coord A exon
chr2L:8662457-8662646
Coord C2 exon
chr2L:8662865-8663135
Length
190 bp
Sequences
Splice sites
3' ss Seq
AGGTCCCCAAATATCTGCAGATA
3' ss Score
4.72
5' ss Seq
TAGGTGCGT
5' ss Score
6.6
Exon sequences
Seq C1 exon
GCAAAATCAATTCAAAGGATGCCAACGCTGGGGAGCAGAAGGGCTTCCGCAACGACATGGACTTATTGGATTCGCGACGCCAGAGCAAGGATCAGGAAATAATCGACAATATTGATAAGAACTTTGAAG
Seq A exon
ATATAATCAACGCCCAGTACACTGTGGAGACCCTCGTGATGGCCGTTCTGGCCGGTTCGATCTTTTCGCTGCTGGTCGGCTTCTTTACAGGCTACTTCTGCGGTCGCCGTTGTCACAAGGACGAGGATGATAATCTGCCGTATCCGGATACGGAGTACGAGTACTTCGAGCAGCGGCAGAATGTCAATAG
Seq C2 exon
CTTCCCCTCGTCCTGTCGCATCCAGCAGGAGCCCAAGCTGCTGCCCCAAGTGGAGGAGGTGACGTATGCGGAGCCAGTGCTCCTGCCACAGCCTCCGCCGCCCAATAAGATGCACTCGCCGAAGAACACGCTGCGCAAGCCCCCGATGCACCAGATGCACCAGGGTCCCAACTCGGAGACCCTCTTCCAGTTCCAGCCCGACGGCTACAACACCCAACAGTCGTATCGTGGTCGCGACAACTTCGGAACACTGCGTTCCCACCAGGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0011259-'23-26,'23-25,24-26
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.320 A=0.172 C2=0.811
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(7.8=11.4)
A:
NO
C2:
NO
Main Inclusion Isoform:
FBpp0079302

Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0292880, FBpp0292881, FBpp0292882, FBpp0302962, FBpp0302963, FBpp0302964
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTATTGGATTCGCGACGCCAG
R:
CTGGAAGAGGGTCTCCGAGTT
Band lengths:
257-447
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)