DmeINT0024919 @ dm6
Intron Retention
Gene
FBgn0017558 | Pdk
Description
The gene Pyruvate dehydrogenase kinase is referred to in FlyBase by the symbol DmelPdk (CG8808, FBgn0017558). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is 2R:9426439..9434638. Its molecular function is described by: protein serine/threonine kinase activity; protein kinase activity; pyruvate dehydrogenase (acetyl-transferring) kinase activity. It is involved in the biological process described with: pyruvate metabolic process; negative regulation of pyruvate dehydrogenase activity; glucose homeostasis. 17 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; viable; female semi-sterile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-06 and 18-24 hour embryonic stages, during late larval stages, during late pupal stages.
Coordinates
chr2R:9432235-9433064:+
Coord C1 exon
chr2R:9432235-9432425
Coord A exon
chr2R:9432426-9432489
Coord C2 exon
chr2R:9432490-9433064
Length
64 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
TGTCGTATCCCTATTTAAAGCCC
3' ss Score
5.27
Exon sequences
Seq C1 exon
GTTTGTGGCCGATTTGGATCTCATTAGGAATCGGCACAACGATGTGGTGCAAACGATGGCCCAGGGTGTGATCGAAATGAAGGAGAACGAGGGCGGCCAGGTGGATGCGCCTACAGAGAGTTCCATTCAGTACTTTCTCGACAGGCTCTACATGTCTCGCATCAGCATTCGAATGCTGATAAATCAGCACA
Seq A exon
GTAAGACAAGCTACAGATGATGCCAGTGAGCACATTACTGACCATGTCGTATCCCTATTTAAAG
Seq C2 exon
CCCTTCTCTTTGGCGGAAATCCACATGCGGGTGGCCGCCATATTGGTTGCCTGGATCCCGCCTGTGATCTGTCGGATGTGGTTCGCGATGCTTACGAGAATGCGCGATTCCTATGCGATCAGTACTACCTGACCAGTCCGGCATTGGAGATCCAGCAGCACAGCAGCGAGCCTGGAGACAACCTGCCCATCCGCACCGTTTACGTGCCCTCGCACCTGTACTACATGCTTTTCGAGCTCTTCAAGAACTCTATGCGAGCTGTTGTAGAGCACCATGGCCATGACAACAATGACACATTGCCCCCCTTGAAAGTAGCCATTTGCAAGGGCAAGGAGGACATCTGTGTGAAAATTTCTGACCAGGGAGGCGGCATTCCCCGCTCCCAGACCGATCAGCTCTTCAAGTATATGTACAGCACAGCGCCGCAGCCCTCGAAGTCGGATCTGCATACGGTGCCATTAGCGGGCTATGGATACGGTCTGCCGATCTCAAGGCTTTACGCCCGCTATTTCCATGGCGACATTGTGCTGCTCTCCTGCGAAGGATTCGGAACAGATGCAATCATCTATCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0017558:FBtr0088508:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(39.0=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(11.6=9.9),PF0251821=HATPase_c=PU(97.6=64.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0111805
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0087592, FBpp0297719, FBpp0305219
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:
ACAGGCTCTACATGTCTCGCA
R:
TAAGCATCGCGAACCACATCC
Band lengths:
145-209
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)