DmeALTA0009077-3/3 @ dm6
Alternative 3'ss
Gene
FBgn0261549 | rdgA
Description
The gene retinal degeneration A is referred to in FlyBase by the symbol Dmel
dgA (CG42667, FBgn0261549). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (11 unique). Gene sequence location is X:8907068..9029476. Its molecular function is described by: diacylglycerol kinase activity; NAD+ kinase activity. It is involved in the biological process described with 14 unique terms, many of which group under: system process; nervous system process; multicellular organismal process; taxis; retina homeostasis. 67 alleles are reported. The phenotypes of these alleles manifest in: tergum; syncytium; plasma membrane bounded cell projection; Z disc; I band. The phenotypic classes of alleles include: flight defective; wild-type; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed during late pupal stages.
Coordinates
chrX:9016125-9017988:+
Coord C1 exon
chrX:9016125-9016328
Coord A exon
chrX:9017844-9017861
Coord C2 exon
chrX:9017862-9017988
Length
18 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TTATGCACTTATCCCTTTAGTTC
3' ss Score
7.96
Exon sequences
Seq C1 exon
AAAAGCGGCCAGCGGATGAAGTGCTCCGCCTGCCAACTGGTTGCCCACCACAACTGCATACCGTTCGTCAACGAGAAGAGCACCCTGGCCTGTAAGCCCACCTATCGGGATGTGGGCATACGGCAGTACCGTGAGCAGACCACCACCCATCATCATTGGGTGCATCGCAAGTTGGAGAAGGGCAAGTGCAAGCAGTGCGGCAAG
Seq A exon
TTCTTTCCTATGAAGCAG
Seq C2 exon
GCGGTGCAAAGCAAGCTATTTGGGTCGAAGGAGATTGTGGCGTTGGCCTGTGCGTGGTGCCACGAGATTTACCACAACAAGGAGGCCTGTTTTAACCAGGCCAAAATCGGCGAGGAATGTCGTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261549-31-17,31-16,31-15-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(58.0=42.6),PF0013017=C1_1=PU(26.2=25.0)
A:
NA
C2:
PF0013017=C1_1=PD(67.8=93.0)
Main Inclusion Isoform:
FBpp0305778
Main Skipping Isoform:
FBpp0291805
Other Inclusion Isoforms:
FBpp0291800, FBpp0291801, FBpp0291802, FBpp0291803, FBpp0291804, FBpp0305779, FBpp0310579, FBpp0310580
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:
CCACCACCCATCATCATTGGG
R:
AACGCCACAATCTCCTTCGAC
Band lengths:
109-127
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)