DmeINT0012534 @ 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:15649699-15650405:-
Coord C1 exon
chr2L:15650173-15650405
Coord A exon
chr2L:15649732-15650172
Coord C2 exon
chr2L:15649699-15649731
Length
441 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TATAATAATAATTTCTATAGTCC
3' ss Score
3.59
Exon sequences
Seq C1 exon
GTTCGACCCAAGTCGCCGCAGCCACATCACAACATGCACAGTGGCTCCAACGGCGGCAATGCGCCCGGATCGAGCCACTTTGGATCGCAGCATCAAAGCTCTCAGGGATCTCGCAAGGCTGAGCCGTACTTTTGCGATCGAGCCCTCCTTCAGAGCTTGGTGCGCGATGCCATGGTAACTGATGGACTCGATAGGAACACGACTGGATCCTCCAGCGGCAAGGAAGATAAGCA
Seq A exon
GTAAGTTTAAATGGAATATGATAGATTACTTTTGTTTTTGTTAATTTTAGTTTTGATGAACCACATATTTTTGTTTGCAGTGTGTATTTTTTGTTTATTCAAATAAGCTTGTGAAAGTTATTTATCATTATTAGTTTTAGGAACAGTTTAAAAACATTTTTTTGTATTTAATTTTTTTTTCACAGTTTAAGAATGTTCTCTTACTTTTGTGTTAAACATTTTACTAAAGCACCAAAACCATTTTCTCTCCGCATATATTTTCCTCACTCTATTTCTTTAATGGCAAACACTTTTTCTGTTTTGCTAAATCTCTGCACTGTCTCACCTGAATAACCATAATGCAAAAATATTTTCCCCCACCGCAAATAATTTGAATATGTTTTTTTAAACAAATGCAATTTAAACTGATATGCACCACTCTTATAATAATAATTTCTATAG
Seq C2 exon
TCCCATCGCCACATTGATGGCAATCCTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0028863:FBtr0344773:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.756 A=NA C2=0.333
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
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:
AAGTCGCCGCAGCCACAT
R:
TTTAGGATTGCCATCAATGTGGC
Band lengths:
254-695
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)