DmeEX0007124 @ 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:1779385-1781698:-
Coord C1 exon
chr3L:1781095-1781698
Coord A exon
chr3L:1780887-1780916
Coord C2 exon
chr3L:1779385-1779985
Length
30 bp
Sequences
Splice sites
3' ss Seq
AGATCCATTCTATTTTCTAGATA
3' ss Score
6.3
5' ss Seq
AGGGTAATT
5' ss Score
6.62
Exon sequences
Seq C1 exon
GGAGACGTGATTGCCAGGTGGCAGAAGTTGCGCGACGCCTCCAACACGCGCAAGGACCGACTGCTGGCCATGCAGGAGCAGTTCCGCCAGATCGAGGAACTCTACTTGACATTTGCCAAGAAAGCTTCGGCCTTCAATTCTTGGTTCGAAAATGCCGAGGAGGATCTCACAGATCCTGTTCGCTGCAATTCGATCGAAGAAATCCGCGCCCTGCGCGACGCCCATGCCCAATTCCAGGCGTCCCTTTCGTCGGCCGAAGCTGACTTCAAGGCATTGGCAGCACTCGACCAGAAGATCAAGAGCTTTAATGTTGGACCCAACCCGTACACGTGGTTCACCATGGAAGCTCTTGAGGAGACCTGGCGTAATCTGCAAAAGATCATAGAGGAACGCGATGGGGAACTTGCCAAGGAGGCCAAGCGGCAGGAGGAGAACGACAAGCTGCGCAAGGAGTTTGCCAAGCACGCCAATCTTTTCCACCAGTGGCTAACAGAGACAAG
Seq A exon
ATATTATATGCTGGGTTATAACCGTCAAGG
Seq C2 exon
AACGTCCATGATGGAAGGCTCCGGTTCCCTGGAACAGCAACTGGAGGCGCTTCGTGTCAAGGCCACCGAGGTGCGCGCACGTCGCGTTGACCTCAAGAAGATCGAGGAGCTGGGAGCCTTGCTGGAGGAGCACCTTATTCTGGACAACCGCTACACGGAACACTCGACGGTGGGCCTGGCCCAGCAGTGGGATCAGCTTGACCAGCTGTCTATGCGCATGCAGCACAACTTAGAGCAACAGATCCAGGCACGCAACCACTCGGGCGTCTCCGAGGACTCACTCAAGGAGTTCTCGATGATGTTCAAGCACTTCGATAAGGACAAGAGCGGCAAGCTCAACCACCAGGAATTCAAGTCCTGCCTGCGCGCCCTCGGCTACGACCTGCCCATGGTGGAGGAGGGACAGCCCGACCCGGAGTTCGAAGCAATTCTCGATGTTGTCGACCCCAACCGCGATGGCTACGTCTCTCTGCAGGAATACATCGCGTTCATGATCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0250789_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=0.000 C2=0.100
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(53.8=28.2),PF0043516=Spectrin=WD(100=52.0),PF0043516=Spectrin=PU(20.0=9.9)
A:
PF0043516=Spectrin=FE(9.1=100)
C2:
PF0043516=Spectrin=PD(79.0=39.3),PF134991=EF-hand_7=WD(100=35.8),PF087265=EFhand_Ca_insen=PU(40.8=14.4)
Main Inclusion Isoform:
FBpp0305100

Main Skipping Isoform:
FBpp0305101

Other Inclusion Isoforms:
FBpp0305102
Other Skipping Isoforms:
FBpp0072672
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGGAGAACGACAAGCTG
R:
TCCAGTTGCTGTTCCAGGGAA
Band lengths:
122-152
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)