DmeINT0012538 @ dm6
Intron Retention
Gene
FBgn0028863 | CG4587
Description
This gene is referred to in FlyBase by the symbol DmelCG4587 (FBgn0028863). It is a protein_coding_gene from Dmel. It has 9 annotated transcripts and 9 polypeptides (2 unique). Gene sequence location is 2L:15644183..15718272. Its molecular function is described by: voltage-gated calcium channel activity. The biological processes in which it is involved are not known. 9 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: pain response defective; some die during pupal stage; partially lethal - majority die; lethal; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of no expression detected. Peak expression observed within 18-24 hour embryonic stages, during early larval stages.
Coordinates
chr2L:15648310-15649020:-
Coord C1 exon
chr2L:15648535-15649020
Coord A exon
chr2L:15648466-15648534
Coord C2 exon
chr2L:15648310-15648465
Length
69 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AATGGTTGTAATTTTCTTAGGAA
3' ss Score
6.27
Exon sequences
Seq C1 exon
TGCACTGGAATGACCGGCTGCAAGAGAACCTGCGCTTCGGACAATTTGGATTGCTATGTTCTAGACAACAGTGGATTTGTGATCATATCCGAAGAGATGGAGCACACGGGCAAGTTCTTTGGACAGATCGATGGCACCATTATGGATTCTTTGGTCCAGGATCGCATATACAAGAGAGTTACGGTGAACGATTATCAGGGTGTCTGTTCCGATGCGGATAATCCATATACGGCTGCAGGAGGGATTTTGAAACCGAATCGCCTGGGCTCCTGGTTCTTTAATCACCTTTTGGCCCTGAGTGCCGCCTGGTTGTCCCTGATGCCTGCTTCCCTGCGGGCATGGCCACAGGAGGAGTATACCTACGACAACGAGGATGTTGTTTTCGTGGACAATAATTACTCTGATGAATACGAGTTCGGAAATGAAAACGAATACAATATGCAGGTGGATCAGGAAATGGATGAATTTTTCACCACAGCCGACGTG
Seq A exon
GTGAGTAGAATATTGACTTTACGAGGGAAATTTATGGGATCTACAAAAAAATGGTTGTAATTTTCTTAG
Seq C2 exon
GAATATACGACACCACCGCCTAGACAGCATAAACCTCACGTTGGACCGAGATTTTCACCAGATCCTCACAACGCCAGGCGTTGTGATCTCCGCACGGATCTCTATATGCTTCAACCGGAGCGCCTGAATCAGGGTGGTCAAAACAATCCGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0028863:FBtr0344773:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.731
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0311102
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0311103, FBpp0311104, FBpp0311105, FBpp0311106, FBpp0311107, FBpp0311108, FBpp0311109
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:
ATTTTTCACCACAGCCGACGT
R:
GCGGATTGTTTTGACCACCCT
Band lengths:
173-242
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)