DmeALTD0006691-1/2 @ dm6
Alternative 5'ss
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:17678272-17679255:-
Coord C1 exon
chr2R:17679144-17679255
Coord A exon
NA
Coord C2 exon
chr2R:17678272-17678782
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
ATTGTTTTTTTCAATTGCAGGTT
3' ss Score
11.01
Exon sequences
Seq C1 exon
AGTGCTCATTGAGTCTAGCCCACGTTCGGTTCGCGGTCCGCTGGTCAAACTCATGATAGTAAAAAAAAAAACAAAAACGAAAACAGCCGAAAACACAAGACACAAAACACAA
Seq A exon
NA
Seq C2 exon
GTTTTGCGTTTTCCCTTTTGCCACCAACAGCTAATTGCATTAAAATAAAACCAACAAGTTGTTCTGCTGGGCGTAAATCATTGTGTCGTTGTCGCTGACACTCGAATACTTATAGCCAGATGCTGAAGCAGCAGCAGCAGCAGCAGCAGCAGCGACAATAACACCAGTAATCAGCACAACTATCGACGACAATGGCAGACATCGGACATCAGAATGCGAGGCGTCAGTGATTAAAAGCAGTCGGAGAGGCCAGCCAGCCATCCAACCAGCCAGCCAGGCAGCCCCATTGGCACCACGAGCAAAAAGCAGCTGAATCATCAGAACTCGGAGGAGTAGTGGAGTACTAGTTTCGCGCATCTCCTACTACAAGCCAGCAGAATGAGCTCCAAGAGCAGACCTTCATCGGCGGCGATGTTAGTTAATGCGATACCCATGATACTGCTGATCACCTTATCCGGCCTGACGATCGTGGCAGGTTGGATGCCCGACGTGAAGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0016059-9-3,10-3-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.044
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GTCCGCTGGTCAAACTCATGA
R:
TGTCAGCGACAACGACACAAT
Band lengths:
177-261
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)