DmeEX0002797 @ dm6
Exon Skipping
Gene
FBgn0036612 | CG4998
Description
This gene is referred to in FlyBase by the symbol DmelCG4998 (FBgn0036612). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (2 unique). Gene sequence location is 3L:16339003..16345241. Its molecular function is unknown. It is involved in the biological process described with: proteolysis. 6 alleles are reported. The phenotype of these alleles manifest in: trichogen cell. The phenotypic classes of alleles include: partially lethal - majority die; some die during pupal stage; short lived; visible; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of very low expression. Peak expression observed within 12-24 hour embryonic stages.
Coordinates
chr3L:16340436-16344092:+
Coord C1 exon
chr3L:16340436-16342216
Coord A exon
chr3L:16342605-16343486
Coord C2 exon
chr3L:16343794-16344092
Length
882 bp
Sequences
Splice sites
3' ss Seq
TTCCCCTTACCAACAAATAGAGA
3' ss Score
2.29
5' ss Seq
CAGGTAACC
5' ss Score
8.66
Exon sequences
Seq C1 exon
ACAAACCAAACTCTGGAGATCTCTACAAGCCCAACTCAGGACTAGGAAACTTTGGCAGCAGTTCCTCTGGAGGATTCAGTGGATCGCCCAGCTCCAGTTATCACAGCCAGAATCCCGACTACTACAAGAAGGAGCTGCAAGGTGGAGCATCCAATCAGTACAATGGCATCTCTGGTGGTTACCAGGGTCAGGGTCAGTACCAGAGTGGATATGACACCTCGCGCCAGCAGATCGTCGACTGCCAGTGTGTGCCCATCTCCCAGTGTCCCGCTGCCGATCGCATTGGACGCAAGGAGGATCTCATTCTGCCTATTGATCCCCGCAACCTGGGCAAGGACATTGAGGCTCTGAGTGACGATGCTCTATCCAGCAATGCTACCACTACTGCTGAGGCTAAGAAGGACGAGGAGAAGGCGGACAAGGATGACAAGAAGCGCACCCGCCGCCAGGCTGATCAAAAGGATGACGAAGCAAGCGATCTCTCACTCGATGCTCAAGGG
Seq A exon
AGACAGTCCCCGCTCGGAGGATCTCCATTGGCATTGCCCGCTCTCCAGGCCATCGAGCTGATCCAACGCAAAGTGCTGCCCACCTACGGTGTCAGCTTTGGTTTGCCCTATCCCACTGGCGGGTATGGAGGTTATCCCTCGAATATTCTGGGTGATCATGTGCCCGCTCAAAACCCGTACTTCGGTTCGGTGGGTCCAAATGGTCTGAATCTGGGTCTGGTGAATGTGAATCCTCTGGTATCGGTGCAGGTGGCCAAAACAGAATATGGCGAGAAGGTGGTGAAGCCACTGGTCAATCTGCATGTCACTCCCAATGCGAATCTCATTCAGAAAGTGGGAGACTTCTTTAAGCGGAAGCCCACCGAAGCGTATAGTACACATTACCACCATCACGATCATTATAGTGGCTATGAGCACCACGATTACGATCACCATGACCACCACGATCACCATGACCACCACTCGTATCCGCATTTCTATGGAGGAACTGGACCGGGTCTCCATTTCAGTGTGGAAATGGTCCCAAGTACTCCCATATTTGAGTATCACAGTGGGCCTTCTGTTCAGTATCATCACCACCACGAATCGTCTCCCTACGAGAGCTCCTTCAACTCTATATATCCCGGATCCAGTCCCGATTTCGGGGGCTATGGCGAGTACTCACAGCATGTGGAGCGAAGTGCCAATGTGAGCGGTGGTGATACAGACAGGCCATCGAATTCCGGTCGTCGTGGCAAACAGTTGAACCTGGGACCCCTCTACAACATTCCCACTCCGGCTCCTGGTGAGGCAGCTGGCAGTGATCGGATCACTTTCCCACGGGATCGCAGGCGCAGGAGCGTTGAGGATGGTGTGTGGGCGGGAGCAGCTCCTAAGGAGCAG
Seq C2 exon
CGTGCCTATTATGGAAACCGACCCGTGGAAAAGACCTGCCGCATCAACGAAGTCTGCTGCCGTCGTCCACTGCGTCCCCAGGCTCCTCCCCAGCAATTTGGTCGTTGTGGAGTGAGGAACGCCGCTGGAATCACCGGTCGCATCAAGAATCCCGTCTACGTTGATGGAGACAGTGAGTTCGGCGAGTATCCCTGGCATGTGGCCATTCTGAAGAAGGATCCCAAGGAGTCGATCTACGCCTGCGGTGGCACGCTCATCGATGCCCAGCACATCATTTCCGCTGCCCATTGCATTAAATC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0036612_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.739 A=0.490 C2=0.085
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0008921=Trypsin=PU(19.2=46.0)
Main Inclusion Isoform:
FBpp0110166
Main Skipping Isoform:
FBpp0075136
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
CGCCAGGCTGATCAAAAGGAT
R:
AATGGGCAGCGGAAATGATGT
Band lengths:
346-1228
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)