Special

DmeEX0004727 @ dm6

Exon Skipping

Gene
FBgn0028475 | Hrd3
Description
The gene HMG-coA reductase degradation 3 is referred to in FlyBase by the symbol DmelHrd3 (CG10221, FBgn0028475). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 3R:23754623..23758557. Its molecular function is unknown. It is involved in the biological process described with: ubiquitin-dependent ERAD pathway. 7 alleles are reported. The phenotype of these alleles manifest in: mesothoracic tergum. The phenotypic classes of alleles include: viable; some die during pupal stage; partially lethal - majority die; body color defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr3R:23755539-23756331:-
Coord C1 exon
chr3R:23756157-23756331
Coord A exon
chr3R:23755939-23756087
Coord C2 exon
chr3R:23755539-23755873
Length
149 bp
Sequences
Splice sites
3' ss Seq
AATTTAAATTTCTTTTCCAGCTG
3' ss Score
9.05
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
Exon sequences
Seq C1 exon
TACTTCTCCAAGGCCGCTGAAATGGGGGATCCAGTTGGTCAAAGCGGACTGGGCCTCATGTATCTAAAGGGTTTAGGTGTTCCCAAAGACTCCATCAAGGCATTATCCTATTTCACTCAGGCGGCTGATCAAGGTTGGGTTGATGGGCAACTGCAGCTGGGCAACATGTATTTCA
Seq A exon
CTGGCAATGGTGTAAAAACCGACTACAAGTTAGCCTTTAAGTACTTCAACCTGGCCACCCAATCAGGCCATGTTTTAGCCTATTATAATCTGGGAGTGATGAATGCCTACGGTATGGGAATGCTGCGTTCATGTCCAGCAGCAGTAGAA
Seq C2 exon
TTCTTCAAGACTGTTTCGGAGCGTGGCCGTTGGAGCAGCCGATTGATGATGGCCTACAGCGACTATAAAAATAACCGCATCGACGAGGCCTACATGCAGTACTCGTTGATGGCCGAAATGGGCTATGAGGTGGCTCAAAGTAATGCCGCCTTTTTACTAGACCGCAAGGAGGTGCATGTGTTCAACGATCGGCACGAAGATCTGATTCGTGCCTTCTACTACTGGAAACGAGCAGCCGGACAGGGCTATTCTGCGGCCCAAGTCAAGCTGGGCGATTACTATTACTACGGTTGGGGTACTTCGACGGACTTCGAGACTGCCGCTGCTCTTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0028475-'5-5,'5-4,7-5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

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

C1:
PF082387=Sel1=PD(24.3=15.3),PF082387=Sel1=WD(100=61.0),PF082387=Sel1=PU(33.3=20.3)
A:
PF082387=Sel1=PD(63.9=46.0)
C2:
PF082387=Sel1=PU(77.8=25.0)


Main Inclusion Isoform:
FBpp0083858


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0302807


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCAGTTGGTCAAAGCGGAC
R:
AGTACTGCATGTAGGCCTCGT
Band lengths:
250-399
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)