DmeEX6014849 @ dm6
Exon Skipping
Gene
FBgn0052423 | shep
Description
The gene alan shepard is referred to in FlyBase by the symbol Dmelshep (CG32423, FBgn0052423). It is a protein_coding_gene from Dmel. It has 9 annotated transcripts and 9 polypeptides (6 unique). Gene sequence location is 3L:5155821..5277944. Its molecular function is described by: RNA binding; mRNA binding. It is involved in the biological process described with 7 unique terms, many of which group under: response to gravity; response to abiotic stimulus; response to stimulus; anatomical structure development; behavior. 65 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; appendage; adult segment; adult tagma; nervous system. The phenotypic classes of alleles include: increased mortality during development; increased mortality; phenotype; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages, during late larval stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chr3L:5163345-5167059:-
Coord C1 exon
chr3L:5166935-5167059
Coord A exon
chr3L:5163834-5163975
Coord C2 exon
chr3L:5163345-5163703
Length
142 bp
Sequences
Splice sites
3' ss Seq
TGCATACAACAACCACACAGCAA
3' ss Score
-0.27
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
GTTACGGCTTCGTCGACTTCGAGCAGCCAGCCTTCGCCGAGTGCGCCGTAAAAGGATTGCAGGGGAAGGGCGTGCAAGCTCAGATGGCCAAAGTGGGTATCTGGGTGCTTCATAGGCCGGCCATT
Seq A exon
CAACAGGAACAGGATCCCACAAATTTGTATATTGCAAATTTGCCGCCCCACTTCAAAGAAACTGATCTGGAGGCAATGCTATCGAAATACGGACAAGTTGTTTCGACCAGAATATTGCGTGATCAGCAGATGAACTCCAAGG
Seq C2 exon
GCGTTGGCTTTGCCCGCATGGAGAGTCGCGAGAAGTGCGAGCAAATCATTCAGATGTTCAATGGTAACACAATACCGGGTGCCAAAGATCCCCTGCTGGTTAAGTTTGCCGATGGCGGACCGAAAAAGAAGAATCTCTTCAAGACGCCCGATCCGAATGCGCGTGCGTGGCGTGACGTCTCCGCGGAGGGGATTCCCGTGGCCTACGACCCCACAATGCAGCAGAATGGAGTCAGCGTGAACGTGGGCACACCCATCGGAGTGCCCTACTCCCGCTTCAGCGCCCCCCAGGTGGGTGGCTATCCAGTGGCCGGCTCCCAATGGATTCCGGGTTACATGATGACTCAGGTAGATGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052423-'35-20,'35-18,36-20=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=0.113 C2=0.171
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(40.9=64.3)
A:
PF0007617=RRM_1=PU(56.5=81.2)
C2:
PF0007617=RRM_1=PD(42.0=24.2)
Main Inclusion Isoform:
FBpp0076876

Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0076875, FBpp0076877, FBpp0290814, FBpp0301014, FBpp0305482, FBpp0305483, FBpp0305484
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACGGCTTCGTCGACTTCG
R:
TTCTTCTTTTTCGGTCCGCCA
Band lengths:
258-400
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)