DmeINT0016498 @ dm6
Intron Retention
Gene
FBgn0032083 | CG9541
Description
This gene is referred to in FlyBase by the symbol DmelCG9541 (FBgn0032083). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 2L:8970520..8975428. Its molecular function is described by: nucleoside diphosphate kinase activity; ATP binding. It is involved in the biological process described with: nucleoside diphosphate phosphorylation; purine nucleotide metabolic process; nucleoside triphosphate biosynthetic process. 7 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of extremely low expression. Peak expression observed within 06-24 hour embryonic stages, during late pupal stages, in adult male stages.
Coordinates
chr2L:8971780-8972282:-
Coord C1 exon
chr2L:8972174-8972282
Coord A exon
chr2L:8972084-8972173
Coord C2 exon
chr2L:8971780-8972083
Length
90 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACAAGGGACTCAAATTGCAGAAG
3' ss Score
1.94
Exon sequences
Seq C1 exon
GTAAATGGCGAACGTGCGCCCACAGAGGTATACAAAGACTTTCGCACCGCCGTCCTCGATATACTGAGCACCCTCGAGAACCAAGAGGCCGTTATGAATGGAGTTACAG
Seq A exon
GTATGGGCAGAGGGATACATGATATACCCGGCAGTATAGTTAGCGTAGACACCGCACCAAGTCAAGCCCAACAAGGGACTCAAATTGCAG
Seq C2 exon
AAGACAACGACGTTACCAATGCCTCGGAAACTGCGGGAACAGTTTTGGCCAGAGATTTGGCGATCGAACGGATGGATGGTGGGCCAAATGGAGCCGTGACAGCTCTGAAAACGGGCACCACCAGTGCGGACGATGACAGCGGTGTTGTGGTCACTCAGCAGCCAAAGTTGCGCCAGGCTGCTGGACCAGACGAATCCGGATCGGATTTGCCACCTATTATATGGGTGATCGGCGGTCCGGGCAGCAACAAGGCCACACTCTGCCTCAAGGCTGTGGGACTAAATCCTGGCTGGGCTCACATCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0032083:FBtr0332206:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.456
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0040617=ADK=PU(17.2=25.5)
Main Inclusion Isoform:
FBpp0304516
Main Skipping Isoform:
FBpp0304515
Other Inclusion Isoforms:
NA
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:
TGCGCCCACAGAGGTATACAA
R:
CCACCATCCATCCGTTCGATC
Band lengths:
177-267
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)