DmeINT0011413 @ dm6
Intron Retention
Gene
FBgn0261554 | CG42672
Description
This gene is referred to in FlyBase by the symbol DmelCG42672 (FBgn0261554). It is a protein_coding_gene from Dmel. It has 17 annotated transcripts and 17 polypeptides (16 unique). Gene sequence location is 2R:21295652..21310411. Its molecular function is described by: . It is involved in the biological process described with: . 13 alleles are reported. The phenotype of these alleles manifest in: trichogen cell. The phenotypic classes of alleles include: fertile; partially lethal - majority die; some die during pupal stage; viable; visible. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 and 18-24 hour embryonic stages, during early pupal stages, in stages of adults of both sexes.
Coordinates
chr2R:21307934-21308548:+
Coord C1 exon
chr2R:21307934-21308158
Coord A exon
chr2R:21308159-21308451
Coord C2 exon
chr2R:21308452-21308548
Length
293 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGAGTTTTATCTATTGCCAGGTC
3' ss Score
7.43
Exon sequences
Seq C1 exon
GTTCTGGGCCTGAGCTTTGGCCACTGGGAGCTGTTCCGCCTGCTGATCACCACGTTGCGGGAATGCGAGCGATTGCCACGGAAGCAACAGCGTCAGCAGCAGCAGCCGGGTGCGTTGGAGGCACCATCGAATGTCCCGATGATTAAGGATGTGACGGATGCCCTGATGCAGCCACCCAGAGAGTCCCTCTCGCGAAAGAACTCCGTCAGTCATATGGAAAAGCAG
Seq A exon
GTAAGGCGACCCATCAAAAGTCTTAGAATTGTAGGATCGGAAAGTTGTATATTTAAAAGAACAATTCGCTCTAACTCATGTGCTTTGATCTATTCTTATTTCGACCATTTTAACAATCCGATATGAAATGCAGTCAAAAGTGCATGACTACGAGTATCTGCAGGTAAAGCTCAGACACTAAGCGACACAGACTGAAACCCAAAATTCCAAGCCCACATTTGTGCAAACCCATAACAGATCAATATCAAATGCCTCAGCAAACCCATTAGCTTATGAGTTTTATCTATTGCCAG
Seq C2 exon
GTCACGCTGGAGGAGCAGATGATCTGCGGCACCTTGCAGACTCTGAATGAGGAGGCGTACGAGGATGTGGCCAGTAGCGAGCGACCGAGTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0261554:FBtr0302701:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.669 A=NA C2=0.517
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0310601
Other Inclusion Isoforms:
FBpp0309686
Other Skipping Isoforms:
FBpp0291841, FBpp0291842, FBpp0291843, FBpp0291844, FBpp0291846, FBpp0291847, FBpp0309687, FBpp0310600
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:
GTTCTGGGCCTGAGCTTTGG
R:
CATCCTCGTACGCCTCCTCAT
Band lengths:
292-585
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)