DmeINT0015647 @ dm6
Intron Retention
Gene
FBgn0033916 | CG8494
Description
The gene Ubiquitin specific protease 20/33 is referred to in FlyBase by the symbol DmelUsp20-33 (CG8494, FBgn0033916). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:14239932..14243655. Its molecular function is described by: thiol-dependent ubiquitin-specific protease activity. It is involved in the biological process described with: ubiquitin-dependent protein catabolic process; protein deubiquitination; nervous system development. 5 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; short lived; locomotor behavior defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages, during early pupal stages, in stages of adults of both sexes.
Coordinates
chr2R:14239932-14240577:+
Coord C1 exon
chr2R:14239932-14240113
Coord A exon
chr2R:14240114-14240210
Coord C2 exon
chr2R:14240211-14240577
Length
97 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
TTCGATTTTTTCTCGGTCAGCTG
3' ss Score
5.07
Exon sequences
Seq C1 exon
ATCCGAAATCGCAAACGCCTTTTCTGCGGTCGTTTCCAATCAAAATTCTCAATTAAAATATAAAAAAAAAACAAAATACTGGCAGCTAGGGAACTATAATGAGTTTGAGTTCCAACCCAAATCCGCACAATCCATATGTAGAGCACCGCAACCGCACCATACACAGCAGCCAGGGCCACACG
Seq A exon
GTAAGGTGTGGGGGAGAATTCCGCTCCAGGCGAACTGTCGCATTTGTAGGCATTGTTTAATGCTCGATTACATGACTTTCGATTTTTTCTCGGTCAG
Seq C2 exon
CTGGCGAACGGGTATGCCATGGGTGATCCAAGGAGCAGCCGATGTCACGACAAACTCTTCAGCGGATCGCTAAAATCGCTTGCACGGCGCGAGGACTCGAACGCCAGTGACAGTGAGGGCACAGACACAGCAAAGGGCTCGGGCACGGGACTCGTGGGCCTGCAGAACATTGCGAATACCTGCTATATGAACTCGGCACTACAGGCACTGAGTAATTTGCCGCCGATGACACACTACTTTATCAACTGCAGCGACCTTGTGGAGTACATAGCAGAGCAGAGCGCACGTCGCTGCAAGCCCGGCGGGCTGGCCAAGAGTTATCGTCGCTTGATGCAGGAAATCTGGCAGGATGTCGATGATCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0033916:FBtr0087535:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.268
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0044324=UCH=PU(15.7=58.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0086664
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:
AACCCAAATCCGCACAATCCA
R:
CTGTCACTGGCGTTCGAGTC
Band lengths:
182-279
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)