DmeINT0018272 @ dm6
Intron Retention
Gene
FBgn0030529 | Clic
Description
The gene Chloride intracellular channel is referred to in FlyBase by the symbol DmelClic (CG10997, FBgn0030529). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:13812971..13822307. Its molecular function is described by: chloride channel activity; lipid binding; calcium ion binding; glutathione peroxidase activity. It is involved in the biological process described with: negative gravitaxis; chloride transport; response to alcohol. 26 alleles are reported. The phenotype of these alleles manifest in: trichogen cell. The phenotypic classes of alleles include: lethal; viable; visible; partially lethal - majority die; fertile; locomotor behavior defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderately high expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, at stages throughout the pupal period, in adult female stages.
Coordinates
chrX:13812971-13813985:-
Coord C1 exon
chrX:13813875-13813985
Coord A exon
chrX:13813806-13813874
Coord C2 exon
chrX:13812971-13813805
Length
69 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
TCTCCATTTGCCGCTTGCAGAGT
3' ss Score
8.96
Exon sequences
Seq C1 exon
ACGCACTTGACGGCCCTGTGGCGCTACATGTATCACATGTACCAGCTGGACGCCTTCACACAATCGTGCCCGGCCGACCAGGACATTATCAATCACTACAAGCTGCAACAG
Seq A exon
GTGCGTAACTTGCCATTGTGCCAATTTTACTGGGCTCCAATCTCTAGAATCTCCATTTGCCGCTTGCAG
Seq C2 exon
AGTCTCAAAATGAAGAAGCACGAGGAGCTGGAGACGCCCACGTTTACCACATACATTCCAATTGATATTTCGGAGTAGGTTTCCTATGGAGCAGATCCATGCAGCCACACCACACATCAACTAATAGTATACAGCAATCGCAACCACAATATTTTGGACAATTTTACAACAGCAGCAACTCTGAGGACTATACATAGATGTATACTTAACGGATATAACTACCCATGCATATATTATATATAAATATATATATAAACCTACTATATATAACAAGCATAACAACAAGTGTTCTTTAAGCAGCCGCGTTGCCTTTCTTCAGCTATGCTTAATTTAAACCCCATTTGGAAAAAAAAAAAAAGAAACACCAGCCACAATCTATCGAGAAGGCTTTGACTTACTTGGCCCGCCTGCATGTTTGTTTGCTTAATTAATATTAAAACATTTGTGTTTGACATACAGATGTCCACAGGCAAACGCATGAATATAATTACGTAGCTCGCTGTCAATTAAAATGTATCGATCGCCTGAAGGAGCGCTTCCCGTTCCTTTAAAATGTTTATTTTAATTTATAATTTTTTATTCTGCAAGGAGCTTTTTTGTTGTATTCGAAGACAAATCTTTTTTTTCTATTGCAAAATTATGATTTTGAATTTTTTTTTGCTCCCTGGCGAAAGTTTTCCATTTTGTTCGCTTTTAATTTTTATTTAAATATTTTATTTTATCATAACAAGAAAAACAAAACAAAAAAAAAAAAAAAGAAAATTAGAGGAGGAAATGAAGAGTATTTTTTGTATTTAAGTGAAAATTACAAATAAAAAAAAAACACAAAAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0030529:FBtr0073835:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF144971=GST_C_3=PD(14.6=37.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0073666
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0311923
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:
CTGGACGCCTTCACACAATCG
R:
GGTGTGGCTGCATGGATCTG
Band lengths:
177-246
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)