DmeALTA0009244-3/3 @ dm6
Alternative 3'ss
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:5162456-5163149:-
Coord C1 exon
chr3L:5162967-5163149
Coord A exon
chr3L:5162544-5162631
Coord C2 exon
chr3L:5162456-5162543
Length
88 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
ATTTTCGGTTTATTTTATAGAAC
3' ss Score
9.11
Exon sequences
Seq C1 exon
ACTTCGTATTCTCCACAGTACATGCAGATGGCAGCTGCCCCTCCGCTGGGAGTAACCTCATACAAACCGGAGGCGGTTAACCAGGTGCAGCCCCGTGGCATCTCGATGATGGTTAGCGGTGATACGGGCGTGCCATATGGAACAATGATGCCTCAGTTGGCCACCCTGCAGATTGGCAACTCT
Seq A exon
AACTTTTCTCCATCGTTACAGTATATTAGTCCAACTTATCCATATTATGCACCACCACCAACTATTATACCAACAATGCCAATGACAG
Seq C2 exon
ATTCCGAACAGGCTAGCACAGCTGCATCACCCGACGAGGCATACACACAGTATCCACATCAAGCCGCTCCCAAATAGGTCTTCGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052423-42-25,42-24,42-23-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.615
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0076876

Main Skipping Isoform:
FBpp0301014

Other Inclusion Isoforms:
FBpp0076877
Other Skipping Isoforms:
FBpp0076875, FBpp0290814, FBpp0305482, FBpp0305483, FBpp0305484
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:
TCTCGATGATGGTTAGCGGTG
R:
CGAAGACCTATTTGGGAGCGG
Band lengths:
167-255
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)