Special

DmeEX6001218 @ dm6

Exon Skipping

Gene
FBgn0260970 | CG42593
Description
The gene Ubr3 ubiquitin ligase is referred to in FlyBase by the symbol DmelUbr3 (CG42593, FBgn0260970). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is X:7935896..7953883. Its molecular function is described by: ubiquitin protein ligase activity; protein binding; zinc ion binding. It is involved in the biological process described with 6 unique terms, many of which group under: regulation of cellular process; positive regulation of biological process; regulation of cell death; cellular protein modification process; cell death. 26 alleles are reported. The phenotypes of these alleles manifest in: visual system; eye-antennal disc; cell; antennal segment; sensillum. The phenotypic classes of alleles include: lethal - all die before end of pupal stage; phenotype; lethal - all die before end of prepupal stage; increased mortality during development. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chrX:7939688-7941195:+
Coord C1 exon
chrX:7939688-7940424
Coord A exon
chrX:7940495-7940723
Coord C2 exon
chrX:7940783-7941195
Length
229 bp
Sequences
Splice sites
3' ss Seq
TTCGTTTTCTGCCCTAAAAGGAA
3' ss Score
6.11
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
Exon sequences
Seq C1 exon
ATAATCGGGTGAATCGCGATCCGGTGCCAAACAATCTTTTGGCAGTGGCCGAGGCCATAATGCCCAAGCTGCTCTTCCGCCTGCTGCAGCACTTCCGTGAGCACAGCGACACCCCACTGGAGGTGCAAGCGATAACGTCGTACTCCTGCGAGGAGTTCGCCAACATGCTGATCGATCTGAACAACATGGGCGAAATAATGCGCAAAGTGATGACGCGCACGCTGATAAATCCGGAGGTGTATGCCTTCTTCATGGAAGCACCGTGCCAGGACACCCGGAATGGACGCTTCTTGAAGGCGAACCGAGAGAAGTACGAGGATGCCGTCAATAGATTCCCAAACCCAGAGCCACCCGATGAGTACAGAGATCTGCCCGCGCTGGGCGACAAATTGGTCCACACCACGCTACTCGAAGAGTTCATCTTCTGGACATTTAAGTTCGAGTTTCCACAGACTCTGGTCTGCTTTCTGCTGAACATGCTGCCTGATCAGGATTACAAG
Seq A exon
GAACACCTCACCCGCACATTTGTGATGCACTACAGCCGCATACCGTCCGTGTTGGAAATGTCCCGTGATCCGGACACGCTCAGCAACCGGGTGGTCCACATGAGCGTCCAACTCTTCTCTAACGAAAGTCTGGCCCTCAAGATGGTCAACGAGCTGTCGCTGCTGCACGTAATGATTATTAGTCTGAAGCTAATGATGTCCAAGATACTCATACAGAATACATTGCATG
Seq C2 exon
ATCCCAACAAGAATTTTCATTTCGTCATCGACTGCACGCGTCAGGTGATGAAGGACCACTGCTACTGGCCACTAGTCTCGGACTTTAACAACGTCCTTTCACACGAATCGGTGGCCCTGGTCTTTCTGCGGGACGACAATCTCATCGATATGTGGTTCCAGTTTCTCCAGATGCTCCAGGGCATGAATGTCAATGTGCGCGAGACGGCTTCTCATGTGGAATTCGAGCCAAATAGCTACTATGCGGCGTTCTCCTGTGAGCTTGAGGCCAGTGCCTATCCCATGTGGTCGATTATCTCGCATCTGCAGGATGGCACACATGCCCATCTGGCAAAGAAGATCATCAACTACTGTGTGACGACGCTGCACGAGTGGCTAGACTCTATTTACTTTATGGAGGCGCGTCTATCTATG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0260970-'5-5,'5-4,6-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.041 A=0.000 C2=0.000
Domain overlap (PFAM):

C1:
PF0220715=zf-UBR=WD(100=28.9)
A:
NO
C2:
NO


Main Inclusion Isoform:
FBpp0303730


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0290962, FBpp0303731


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
([1])
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTCTGCTGAACATGCTGC
R:
GCCTCAAGCTCACAGGAGAAC
Band lengths:
306-535
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)