DmeEX6011683 @ dm6
Exon Skipping
Gene
FBgn0016059 | Sema-1b
Description
The gene Semaphorin 1b is referred to in FlyBase by the symbol DmelSema1b (CG6446, FBgn0016059). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is 2R:17672839..17683499. Its molecular function is described by: chemorepellent activity; semaphorin receptor binding. It is involved in the biological process described with 7 unique terms, many of which group under: positive regulation of biological process; mesenchymal cell differentiation; regulation of cell size; negative chemotaxis; regulation of biological process. 16 alleles are reported. The phenotypes of these alleles manifest in: intersegmental nerve; filamentous actin. The phenotypic classes of alleles include: locomotor behavior defective; neuroanatomy defective. 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 00-18 hour embryonic stages, during early pupal stages.
Coordinates
chr2R:17675911-17678782:-
Coord C1 exon
chr2R:17678272-17678782
Coord A exon
chr2R:17677826-17677919
Coord C2 exon
chr2R:17675911-17676593
Length
94 bp
Sequences
Splice sites
3' ss Seq
GCTTCTTTCTTTCTTTGCAGAAC
3' ss Score
12.39
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
Exon sequences
Seq C1 exon
TCCCTTTTGCCACCAACAGCTAATTGCATTAAAATAAAACCAACAAGTTGTTCTGCTGGGCGTAAATCATTGTGTCGTTGTCGCTGACACTCGAATACTTATAGCCAGATGCTGAAGCAGCAGCAGCAGCAGCAGCAGCAGCGACAATAACACCAGTAATCAGCACAACTATCGACGACAATGGCAGACATCGGACATCAGAATGCGAGGCGTCAGTGATTAAAAGCAGTCGGAGAGGCCAGCCAGCCATCCAACCAGCCAGCCAGGCAGCCCCATTGGCACCACGAGCAAAAAGCAGCTGAATCATCAGAACTCGGAGGAGTAGTGGAGTACTAGTTTCGCGCATCTCCTACTACAAGCCAGCAGAATGAGCTCCAAGAGCAGACCTTCATCGGCGGCGATGTTAGTTAATGCGATACCCATGATACTGCTGATCACCTTATCCGGCCTGACGATCGTGGCAGGTTGGATGCCCGACGTGAAGCCTGATTTGCAAACAA
Seq A exon
AACAAGACAAAGTCCTAGCCCATTTTATAGGCAACTCGACGGACTATTTCAAGATTTTGGACCACAACGATGAGTTTGTTCTAGTTGGTGCCAA
Seq C2 exon
GGACGTCATCTACAATGTGAGCCTAAATGGCCTGAAGGAGATTGCGCGTCTGGAGTGGCACAGCACGGATGCGGACCGGGAGCTGTGTGCCCTAAAGGGGAAGCACGAGTGGGATTGCCATAACTACCTTCGCGTCTATGCACTGCGTCCCAATGGCGAGGTGCTGCTCTGCGGCACCAATTCGTATAAGCCGCGCTGTCGTCACTACACGCCGGTGGAAGTGTCATCCGAGGAGGCCGGCTCTGCTGGTCACGCCCATGCCATGCGCTACGAAGTCAGCCGAGATGTGGAGGCCCAGGGCCTGTGCCCCTACAGCCCCGCCCACAATAGCACGTACGCCTTCGCCGACGGGCATTTGTACAGCGCCACCGTGGCGGACTTTTCGGGTGGAGATCCTCTCATCTACAGGGAGAACCTGCGTACCGAACAATATGATCTCAAGCAACTCAACCAGCCGGACTTTGTTGGCGCCATCGAGCGCAACGGTTACGTGCTGTTCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0016059-'12-5,'12-4,13-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0140314=Sema=PU(3.5=46.9)
C2:
PF0140314=Sema=FE(52.8=100)
Main Inclusion Isoform:
FBpp0086050
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0089289, FBpp0291371
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGAGCAGACCTTCATCGG
R:
CGCAATCTCCTTCAGGCCATT
Band lengths:
172-266
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)