DmeEX6005820 @ 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:8544544-8631123:+
Coord C1 exon
chr2L:8544544-8545233
Coord A exon
chr2L:8563739-8564296
Coord C2 exon
chr2L:8631027-8631123
Length
558 bp
Sequences
Splice sites
3' ss Seq
AACTTTCTCTCTCGTTACAGAAA
3' ss Score
10.13
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
Exon sequences
Seq C1 exon
TCTATTCATATATCCGATATAACCGTTATCGCGCCCGTGCATCTGCGTCTGCATCTGTGTGCGTGAGTCCTTGTATCCTCTGTACATATGTACAATATTTGTCGTCGTCGTCGTCGTGCATCGTTGTTGTTGTTCTTGCTGTTATCCTATTATTCATCGTCGTCCGCTGGCATTAATCTGCGTATAAAGTAAATATAACAAATTTGTGTTCTTCGGTGTTGTCTCGTGTAAGTGTCTATAATTTGTTTAAGTACGACAAGCGATCGGTGCGAATCAAAAAATTCCAATTCACCAGTCTGTGTGTGCGAATCGATAATCGAGCTATCAGAACAACCACAACAACAACAACAGCCCAATCAATCGATCAATGTCAGCAAACAAACGATAAACAGGACTCGCTGGGACTAATCAATTGCGTAATCTTCAGAATATTTTGGATTCCAACGTCTACGGAGTTTCAACTTTTGAACAATTCATTTTGCTGGACAGTTTTTGGAAAG
Seq A exon
AAATGACTGAACTTTCATCCCGCAAACCATTCGTTCGCCCATAAAACCCAGAAACAATTTAAGCCCTGTTATAAAAAAAGTTGTTGAACAAAAAATTAATCAATATATTTTGAAATAATTTAAAATCAATTTAAAGTAAAAGGTAAATGCAGCTGCAATAACTCTAAAACACGCACAACCAAGCCAAACAAACATCAAATCAAATCCATTTAGCTGCAATAAAGTTAGAGGCAAAGGCACACACAGAAAATCAACAATAATAAATGTTGCAAATTTAATCAAACCAACTGAAATTTAACTAAATTTTATGCAAAATAGAAATGTTAAATTCACACAACACAAACCACAATAACAACAGCGCCAGCAACAGCAACTACAACAAAGGCCACAAAATGCATTTGAAAAGTGCAACGGCAAAAGCAACAATAATGAAACATAAGTTAAGCAAATTTTACGGATACGGTTGGATGCAAGTCTTCCTACTACTTACAGTCCTCGTGATTGGTAATCAAAGTGCCTGGCAGGAGAATATACGACCAAAACTCTACGTTGAATTAG
Seq C2 exon
GTCCCGAAGATGTACTGAAGTTTGTGGGAAACGAAAGTGTTGTGGATCACTTCAAGCTCGTCACCAAGGATGGCAACAGTCTGCTCATCGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0011259-'6-9,'6-4,9-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.300 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(3.6=45.5)
Main Inclusion Isoform:
FBpp0302962

Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0079302, FBpp0292880, FBpp0292881, FBpp0292882, FBpp0302963, FBpp0302964
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTACGACAAGCGATCGGTG
R:
CGATGAGCAGACTGTTGCCAT
Band lengths:
342-900
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)