DmeINT0008909 @ dm6
Intron Retention
Gene
FBgn0052373 | CG32373
Description
This gene is referred to in FlyBase by the symbol DmelCG32373 (FBgn0052373). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is 3L:7650548..7759123. Its molecular function is described by: calcium ion binding. It is involved in the biological process described with: synaptic target recognition. 39 alleles are reported. The phenotypes of these alleles manifest in: eye; ommatidium. The phenotypic classes of alleles include: viable; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr3L:7756983-7757587:+
Coord C1 exon
chr3L:7756983-7757179
Coord A exon
chr3L:7757180-7757291
Coord C2 exon
chr3L:7757292-7757587
Length
112 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTAATGCATTAATTTTACAGCTT
3' ss Score
6.43
Exon sequences
Seq C1 exon
GCAGACATTTTAATGCAAGTTGGTGACAAGCGCCTCAATGGGAGACACTTGATTAAACAAAACGTTTACTTTCGGCTGATGTTTTCTTAAGTAATCCAATCATGAACATGTTTATATAATTATTGAAATGGTGCAAAACAGAATGTCGACATCAGTGATTGTTTTGTACGCGCTTATGTGTATCGCATTTTCCACAG
Seq A exon
GTATGTTGTGAATCCATTATAACATAACCATAAGTAAGAAAAATTTCTATTATATACAATTATTTATTTATTTATTTGAATTACATTGATTTTTAATGCATTAATTTTACAG
Seq C2 exon
CTTCGTTAAATGATATTCCCGAAATCACCCCCGCAATAGATAACAATTTATCTTTTCAATACGACGATACCTGCTGGACTCCTCCGAGGATTAAAAATGCTAAGGCATCCGTCAAACTTCGCCGAAATGGGGAACATGTCTTTCTTGTGACCTATTATTCCTGCCGCGTCAACTACAAACTCAAACGTGCCAAAGATAATGCACTCTATTGCTCAAATGGTATATGGCTTGGTTTGAAACCCAATTGCATAAAGATTGGTAAAGGAAACACGCATTCAATGAAGCAAAAAAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052373:FBtr0076805:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008415=Sushi=WD(100=59.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0076517
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0076518, FBpp0306184
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:
GACAAGCGCCTCAATGGGAG
R:
AGGAGTCCAGCAGGTATCGTC
Band lengths:
256-368
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)