Special

DmeINT0036414 @ dm6

Intron Retention

Gene
Description
The gene seizure is referred to in FlyBase by the symbol Dmelsei (CG3182, FBgn0003353). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is 2R:24047411..24053035. Its molecular function is described by: voltage-gated potassium channel activity; voltage-gated cation channel activity. It is involved in the biological process described with: regulation of membrane potential; potassium ion transport; sensory perception of sound; potassium ion transmembrane transport. 24 alleles are reported. The phenotypes of these alleles manifest in: organelle; peripheral nervous system; myofibril; cellular anatomical entity; cytoplasm. The phenotypic classes of alleles include: phenotype; chemical resistant; viable; behavior defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed within 00-12 hour embryonic stages, at stages throughout the pupal period, in adult female stages.
Coordinates
chr2R:24051541-24051771:+
Coord C1 exon
chr2R:24051541-24051659
Coord A exon
chr2R:24051660-24051716
Coord C2 exon
chr2R:24051717-24051771
Length
57 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
CACCTATTCCTATTCTGCAGATA
3' ss Score
9.18
Exon sequences
Seq C1 exon
CTCTTATGTATGCAAGTATTTTTGGAAACGTATCTGCCATTATTCAAAGGCTGTACTCGGGAACCGCCAGATATCACACGCAAATGCTGCGCGTTAGGGAGTTCATTCGCTTTCACCAG
Seq A exon
GTATTGAGCACGCACATCCTATAAGTATAGAACTGAGCACCTATTCCTATTCTGCAG
Seq C2 exon
ATACCGAACCCGCTCAGGCAGAGACTGGAGGAGTACTTTCAGCACGCCTGGACCT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003353:FBtr0072169:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0052026=Ion_trans=PD(4.8=25.0)
A:
NA
C2:
NO


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0072078


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0072079, FBpp0310000
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:
ATTCAAAGGCTGTACTCGGGA
R:
GGTCCAGGCGTGCTGAAAGTA
Band lengths:
132-189
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)