Special

DmeEX6015934 @ dm6

Exon Skipping

Gene
FBgn0036059 | nudE
Description
The gene nudE is referred to in FlyBase by the symbol Dmel udE (CG8104, FBgn0036059). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (4 unique). Gene sequence location is 3L:9899241..9903031. Its molecular function is described by: microtubule binding. It is involved in the biological process described with 20 unique terms, many of which group under: organelle fission; anatomical structure formation involved in morphogenesis; regulation of microtubule motor activity; spindle localization; regulation of nervous system development. 19 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; microtubule cytoskeleton; neuron projection; intracellular organelle; cell projection. The phenotypic classes of alleles include: lethal; viable; neuroanatomy defective; mitotic cell cycle defective; visible; 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, during late larval stages, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr3L:9899726-9900696:+
Coord C1 exon
chr3L:9899726-9900084
Coord A exon
chr3L:9900153-9900306
Coord C2 exon
chr3L:9900423-9900696
Length
154 bp
Sequences
Splice sites
3' ss Seq
GTTTTACTTTTAATTTTCAGGTG
3' ss Score
11
5' ss Seq
AAGGTAGCT
5' ss Score
6.77
Exon sequences
Seq C1 exon
TCTATTCACCACCCCCAACACACAAAACAAAAAAAAAGTAAAACTACGACTTGAACAACAACTGTGTTTTGGCATTTTAATCACAGCAATTAAAAACAAAGCAGCCAAAAAACACGAATAAATAACCCAAACAGTAATAGACCAACCGTAGTACATAGCATTGTTCAGAAATTAAAAGTTAAATCAATTCGAACGAACGAAATTACAAACCCATTTTGACCGCCGATTAGTACACAAAAACCAGAAAAAGGAGTTAGCAGCTAAGGAAAATTTGCAGAAATGGAGTCGCCCCCGATGTTCAATAGTGTGGAAGATGAGTGCAGATATTGGAAGGAACGATCTAAGCAGTACCACAAAGA
Seq A exon
GTGGACAGACGTGAAACAGGAGTACGACGAGTTTGTGGAGCAGTCCCGCGAAATGGAAATAGAAATGGACGCCACTCTGGACCAGAAGCAGAGTATAATCAAAGATCTCACAGCCAAACTCACAATGTTTGAGCGGGAAAACGAGTCTCTCAAG
Seq C2 exon
CTCAAGTTGGAATCGCATGGCATCGATATGTCAAACATGGAGAAACAGCTGGAAACGGTGAAGAAGGATCGCGACACCATGAAGGTGTACCTGCGGCAGCTGGAGCAGAAAAACGACGATTTGGAACGTGCCCATCGCATACTTAACGAAAGCATAGAGAATTTCGAGAAGATGCTGGATCAGGCCTACGAGAAGAACGCCCTTCTGGAGCTGGAAGTGGATGAAAAGGGATTGCTGCAGGAAAAACTACAGCGATTAATGGATGAGACGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0036059-'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=0.222 A=0.115 C2=0.332
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
PF048808=NUDE_C=PU(31.8=44.6)


Main Inclusion Isoform:
FBpp0112072


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0076073, FBpp0112071, FBpp0113092, FBpp0311743, FBpp0311744


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCCCCGATGTTCAATAGTG
R:
GCCTGATCCAGCATCTTCTCG
Band lengths:
258-412
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)