Special

DmeINT0005998 @ dm6

Intron Retention

Gene
FBgn0033783 | CG17019
Description
This gene is referred to in FlyBase by the symbol DmelCG17019 (FBgn0033783). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is 2R:12930912..12934045. Its molecular function is described by: ubiquitin protein ligase activity; zinc ion binding. It is involved in the biological process described with: protein K48-linked ubiquitination; negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis; proteasome-mediated ubiquitin-dependent protein catabolic process; negative regulation of extrinsic apoptotic signaling pathway via death domain receptors. 6 alleles are reported. The phenotypes of these alleles manifest in: indirect flight muscle; mitochondrion. The phenotypic classes of alleles include: stress response defective; locomotor behavior defective; viable. 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 within 00-06 hour embryonic stages, during late larval stages, during late pupal stages, in adult female stages.
Coordinates
chr2R:12930912-12931741:-
Coord C1 exon
chr2R:12931602-12931741
Coord A exon
chr2R:12931543-12931601
Coord C2 exon
chr2R:12930912-12931542
Length
59 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CGATTCAACCATTTACGCAGCTG
3' ss Score
3.03
Exon sequences
Seq C1 exon
AAAAGACTTGGAGGGTTTGACAGTGAAGCAGTTGAAGGAGGTGCTGATGCTGCACCGCGTCGACTACAAAGGATGTTGCGAGAAGCAGGAGCTTCTCGACCGCGTCAGCAGACTGTGGAAAACCATGCGCGAGTGTCCAG
Seq A exon
GTGAGCTTTGGACTTTGCACTACAATTTCACCCTCATAACGATTCAACCATTTACGCAG
Seq C2 exon
CTGTTGAAAAACTCGCCACTGATGAGCTGTGCAAGATCTGCATGGATGCGCCGATTGAGTGCGTTTTTCTAGAGTGCGGACACATGGCCACCTGCACGAGCTGTGGAAAAGTGTTGAACGAGTGCCCAATTTGCCGACAATATATTGTACGAGTTGTAAGATTTTTTAGAGCGTAATGATACGGCTAATCTTACGGTAACTGGACATAGTGTAATGATGGAAGCCGATAGCCGCCACAAGCTACATACAGATACAGATCCAGCCCAGCTGTACAAGTTGTACAGCAGATCCTGATGATGCGACTACAACGTATATGTTTCCTTAAATGACGCGAGTGCAACAATAATATTAATTTGATTATTTGGTTCTTCTCTGTAGTATGTTGCCAGTATATATATATGCCTATATATAGTGTAAAACCTGATATCGCTTTTAAAGTGTATTCATCTATTTCAAATGTGAAATACTTTTGCTATTTATTTTGTTTGTTCTTGTTGTTTGTATAAAAACGAGAGGTTATCTAGATCAACTAACATTCCTATAAACCGCAAAAAAAAACATTAAATCTGTTATTAACAGTTGTGTGAAAAACTCGTCTAGATGCGCATTTAAACAATAAATATTTTCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0033783:FBtr0087806:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact

Alternative protein isoforms

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

C1:
PF102084=Armet=FE(68.1=100)
A:
NA
C2:
PF102084=Armet=PD(11.6=13.6),PF139201=zf-C3HC4_3=WD(100=78.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:
FBpp0086919


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0308787
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:
AAGCAGTTGAAGGAGGTGCTG
R:
CAGCTCATCAGTGGCGAGTTT
Band lengths:
144-203
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)