DmeALTA0000469-2/2 @ dm6
Alternative 3'ss
Gene
FBgn0034570 | CG10543
Description
This gene is referred to in FlyBase by the symbol DmelCG10543 (FBgn0034570). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (4 unique). Gene sequence location is 2R:20996220..21007740. Its molecular function is described by: RNA polymerase II regulatory region sequence-specific DNA binding; sequence-specific DNA binding; zinc ion binding; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with: regulation of transcription by RNA polymerase II; gravitaxis. 14 alleles are reported. The phenotype of these alleles manifest in: wing. The phenotypic classes of alleles include: viable; lethal; visible; gravitaxis defective. 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 12-18 embryonic stages.
Coordinates
chr2R:21004153-21004427:+
Coord C1 exon
chr2R:21004153-21004261
Coord A exon
chr2R:21004324-21004326
Coord C2 exon
chr2R:21004327-21004427
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TAACGTTATCTCCTGTCCAGCAG
3' ss Score
5.52
Exon sequences
Seq C1 exon
ACCTTCAAGTGGAAAACGCATCTGGTGCGCCACAAGCAGACAATGCACGGAAACGAGCCGCCTCCGCCTAAGAAGGGAAAGCAGCGCTTTCCCAAAACAAGCGAAGAAG
Seq A exon
CAG
Seq C2 exon
ATATGGGTAGCTTACCGGACATGCCGGGTCCACCGCCTGTGAAGGCCAGCAAGAAGGCAGCAACCAGCAAGGCGAAAGCGCAAGCAGCGGCCGCCGCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034570-11-9,11-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.784 A=NA C2=0.950
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(8.0=5.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0304845
Main Skipping Isoform:
FBpp0071453
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0292294, FBpp0304844
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:
CCGCCTAAGAAGGGAAAGCAG
R:
CTTCTTGCTGGCCTTCACAGG
Band lengths:
102-105
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)