DmeEX0007125 @ dm6
Exon Skipping
Gene
FBgn0250789 | alpha-Spec
Description
The gene alpha Spectrin is referred to in FlyBase by the symbol Dmelalpha-Spec (CG1977, FBgn0250789). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (4 unique). Gene sequence location is 3L:1778485..1795328. Its molecular function is described by: microtubule binding; actin binding; calcium ion binding. It is involved in the biological process described with 12 unique terms, many of which group under: synapse organization; cell communication; membrane organization; microtubule-based process; cellular component maintenance. 56 alleles are reported. The phenotypes of these alleles manifest in: plasma membrane region; secretory vesicle; midline crossing tract; anterior-posterior subdivision of organism; postsynaptic membrane. The phenotypic classes of alleles include: phenotype; increased mortality; lethal - all die before end of larval stage; some die during larval stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 06-24 hour embryonic stages, during early larval stages.
Coordinates
chr3L:1781759-1788957:-
Coord C1 exon
chr3L:1784907-1788957
Coord A exon
chr3L:1784503-1784598
Coord C2 exon
chr3L:1781759-1783682
Length
96 bp
Sequences
Splice sites
3' ss Seq
AAATACGACACCCATCGCAGGCA
3' ss Score
2.44
5' ss Seq
GAGGTAGTT
5' ss Score
5.77
Exon sequences
Seq C1 exon
ACAACCTGCAGACGCTGACCGCTGAGAAGGCCAGCCAACTGGGATCCGCCCATGAGGTGCAACGCTTCCATCGTGACATTGACGAGACCAAGGATTGGATCGCTGAGAAGGCCAATGCCCTGAACAACGACGACCTGGGCAAGGATCTGCGCAGTGTCCAGACTCTGCAGCGCAAGCACGAGGGCGTGGAACGCGACTTGGCCGCATTGCGGGACAAGATCCGCCAGCTGGACGAAACCGCCAACAGGCTGATGCAGTCGCACCCGGACACCGCCGAGCAGACCTACGCCAAGCAGAAGGAGATCAACGAGATGTGGGACCAGATCATCACCAAGTCCACCGCCCGCAAGGAGAAGCTGCTGGACTCGTACGACCTGCAGCGTTTCCTCAGCGACTACCGCGATCTGCTGGCCTGGATCAACTCGATGATGAGCCTGGTCACGTCCGACGAGCTGGCCAACGATGTAACAGGAGCCGAGGCTCTGATCGAGCGTCATCAG
Seq A exon
GCACGCCGTGCCGAGATTGGGTTCACATTGGGCATCAGCTCGGCTCCCGGAGCCGCCGCCTCGACCTCCAGCATCGCATCTCCATCCGGCGACGAG
Seq C2 exon
GAACACCGAACGGAGATCGATGCGCGCGCCGGAACTTTCGGGGCTTTCGAGCAGTTCGGAAACGAGCTGCTGCAGGCCAACCACTATGCGTCGCCTGAAATCAAGGAGAAAATCGAGGATCTGGCCAAGGCCCGCGAGGACTTGGAGAAGGCGTGGACAGAGCGCCGCCTGCAGCTGGAGCAGAACTTGGATCTGCAGCTCTACATGCGTGACTGCGAGTTGGCCGAGTCCTGGATGTCAGCCCGCGAGGCCTTCCTAAATGCCGATGATGATGCCAATGCCGGCGGAAATGTGGAGGCACTGATCAAGAAGCACGAGGACTTCGACAAGGCCATTAACGGCCACGAACAGAAGATTGCTGCTCTGCAGACGGTGGCGGATCAGTTGATCGCCCAGAACCACTATGCCTCCAATTTGGTGGACGAGAAGCGCAAGCAAGTGCTGGAGCGCTGGCGCCATCTCAAGGAGGGTCTGATCGAGAAGCGATCCCGTTTGGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0250789_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=0.406 C2=0.089
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=WD(100=7.8),PF0043516=Spectrin=WD(100=7.7),PF0043516=Spectrin=WD(100=7.9),PF0043516=Spectrin=WD(100=7.9),PF0043516=Spectrin=WD(100=7.9),PF0043516=Spectrin=WD(100=7.8),PF0043516=Spectrin=WD(100=7.8),PF0043516=Spectrin=WD(100=7.9),PF0043516=Spectrin=WD(100=5.9),PF0001823=SH3_1=WD(100=3.5),PF0043516=Spectrin=WD(100=3.8),PF0043516=Spectrin=WD(100=8.0),PF0043516=Spectrin=WD(100=7.9),PF0043516=Spectrin=PU(41.0=3.2)
A:
PF0043516=Spectrin=PD(15.1=25.0),PF0043516=Spectrin=PU(1.6=3.1)
C2:
PF0043516=Spectrin=PD(57.1=9.3),PF0043516=Spectrin=WD(100=16.4),PF0043516=Spectrin=WD(100=16.5),PF0043516=Spectrin=WD(100=16.4),PF0043516=Spectrin=WD(100=16.4),PF0043516=Spectrin=WD(100=16.4),PF0043516=Spectrin=PU(45.3=7.5)
Main Inclusion Isoform:
FBpp0305100

Main Skipping Isoform:
FBpp0305102

Other Inclusion Isoforms:
FBpp0305101
Other Skipping Isoforms:
FBpp0072672
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:
ACTCGATGATGAGCCTGGTCA
R:
ATTTCAGGCGACGCATAGTGG
Band lengths:
181-277
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)