DmeINT0015370 @ dm6
Intron Retention
Gene
FBgn0036043 | CG8177
Description
The gene Anion exchanger 2 is referred to in FlyBase by the symbol DmelAe2 (CG8177, FBgn0036043). It is a protein_coding_gene from Dmel. It has 14 annotated transcripts and 14 polypeptides (8 unique). Gene sequence location is 3L:9763544..9786466. Its molecular function is described by: inorganic anion exchanger activity. It is involved in the biological process described with: intracellular pH reduction; regulation of intracellular pH; bicarbonate transport. 22 alleles are reported. The phenotypes of these alleles manifest in: digestive system; material anatomical entity; basal stalk; follicle stem cell; gut section. The phenotypic classes of alleles include: viable; lethal; size defective; decreased fecundity; increased cell number; increased cell death. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 18-24 hour embryonic stages.
Coordinates
chr3L:9781078-9781903:+
Coord C1 exon
chr3L:9781078-9781218
Coord A exon
chr3L:9781219-9781702
Coord C2 exon
chr3L:9781703-9781903
Length
484 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CTCCAAAAAAAAAACGATAGTTT
3' ss Score
-3.17
Exon sequences
Seq C1 exon
ATGGTGATCGAGGACCTGATTGACATCAATGACAAGCCATCGGTGATGCGTTCGCTGCTCCTGCGCCATCGCCATGTCAACGAACACCAAGGTGTGCTGCCCTTCACCAAGAGGAAGTACAACAGCTACACCAGCCTGCAG
Seq A exon
GTGAGATCAACCCCTATGCCGATATTCAATCATCCAAATGGTTTCGCTAACACCCCCGACGCATTCTTGTCATTCTAATATCGTATTATCCAACCATTTTATCTATTGACATCATGCCTGTACGCTATAAATAAATTGGCTTTCAGTGACAATTGTGACAAAAGTTTGTTAATTCCCATGATCGTGGTTCATTATCTTCTTGTCTATTTCTGCCATCTCATGACTCACAACTCGTACACCAAAAACATCAACAATAATAATAACGACAACATCGACAACAACAGCAACTTATACCCAAATCGGTAATGAACAGCTAAATTGTATATAGACATGATCGTACAGATAACTTAACTTAACGCCGCTTTGTCCAAACGTTTGTGTATCTCTTCAATTTCTTTCTTTCTTGTGCGTTAACTGATTTTTATTCGCCACAAAAACCAAATCAAACACAAAAACCTCCTGCACTCCAAAAAAAAAACGATAG
Seq C2 exon
TTTCTTTGGATGGGTGCGGACTCCGCCCACCAGCCGTATCAGCAGGCGCAGCCACCACCTCGCAACCTGGCCAAGGCCAGGAGGAGCATCTGCGTCACCTCCAGTGCTCCGCCCACGGCGGCGATGCTCAACGTGGCCACAGCCACTGCTGCAGCGGCAGCTATTGATCACCGACGCCACTCGACGATGTCCTACCTGGGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0036043:FBtr0076321:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.303
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(54.2=87.7)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.9=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0076048
Other Inclusion Isoforms:
FBpp0290446
Other Skipping Isoforms:
FBpp0076050, FBpp0076052, FBpp0076056
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:
ATGGTGATCGAGGACCTGATTG
R:
ACCCAGGTAGGACATCGTCG
Band lengths:
342-826
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)