Special

DmeEX6002713 @ dm6

Exon Skipping

Gene
Description
The gene extradenticle is referred to in FlyBase by the symbol Dmelexd (CG8933, FBgn0000611). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (1 unique). Gene sequence location is X:15992468..15996509. Its molecular function is described by 12 unique terms, many of which group under: binding; protein binding; DNA binding; transcription regulator activity; heterocyclic compound binding. It is involved in the biological process described with 12 unique terms, many of which group under: animal organ development; anatomical structure morphogenesis; embryo development; oenocyte differentiation; multicellular organism development. 65 alleles are reported. The phenotypes of these alleles manifest in: myofibril; organelle; adult abdominal segment 1; tarsal segment; midline crossing tract. The phenotypic classes of alleles include: embryonic/larval segmentation phenotype; some die during P-stage; increased mortality; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderately high expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, during early pupal stages.
Coordinates
chrX:15993472-15994605:+
Coord C1 exon
chrX:15993472-15993773
Coord A exon
chrX:15993965-15994283
Coord C2 exon
chrX:15994347-15994605
Length
319 bp
Sequences
Splice sites
3' ss Seq
CTTCGTTAAAACTATTACAGTCC
3' ss Score
4.82
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
Exon sequences
Seq C1 exon
AAACTTGGATTTGTAGCTTGCTTTGTGTTGCGGCACCATGGAGGACCCCAATCGCATGTTGGCCCACACCGGCGGCATGATGGCTCCGCAAGGATACGGCTTGTCTGGCCAGGATGATGGCCAGAATGCCGGCAGCGAGAACGAGGTGCGCAAGCAGAAGGACATCGGCGAGATATTGCAACAGATAATGAGTATCTCGGAGCAATCACTTGACGAGGCCCAGGCCAGAAAACATACACTAAACTGTCACCGAATGAAGCCGGCACTTTTCTCTGTACTTTGCGAAATCAAGGAGAAGACCG
Seq A exon
TCCTCTCGATTCGCAACACCCAGGAGGAGGAGCCCCCAGATCCGCAACTGATGCGCTTGGACAACATGCTGATTGCCGAGGGCGTGGCCGGACCCGAGAAGGGCGGTGGCGGAGCAGCGGCTGCCTCTGCGGCTGCGGCCAGCCAGGGCGGTTCCCTGTCCATCGATGGTGCTGACAATGCCATTGAGCATTCCGACTACCGTGCCAAGCTGGCACAGATCCGTCAAATATATCACCAGGAATTGGAGAAGTACGAGCAGGCATGCAACGAGTTCACCACGCATGTCATGAATCTTCTACGCGAACAGAGTCGCACGAG
Seq C2 exon
ACCCATTACACCAAAGGAAATCGAGCGAATGGTGCAGATCATCCACAAAAAGTTTAGTTCCATACAAATGCAGCTGAAGCAGTCGACCTGCGAGGCTGTAATGATACTTCGTTCGCGTTTCCTGGACGCACGCCGCAAACGCCGCAATTTCAGCAAGCAGGCATCCGAGATTCTCAACGAGTACTTCTACAGTCACTTGAGCAACCCATATCCATCCGAAGAGGCCAAAGAGGAGTTGGCACGAAAGTGTGGCATCACG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0000611-'5-5,'5-3,6-5=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=0.730 A=0.477 C2=0.184
Domain overlap (PFAM):

C1:
PF037928=PBC=PU(27.3=62.9)
A:
PF037928=PBC=FE(51.7=100),PF070286=DUF1319=PU(60.5=48.6),PF040917=Sec15=PU(58.8=46.7)
C2:
PF037928=PBC=PD(20.5=48.3),PF070286=DUF1319=PD(38.4=37.9),PF040917=Sec15=PD(40.0=39.1),PF0004624=Homeobox=PU(70.0=48.3)


Main Inclusion Isoform:
FBpp0073940


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0073942, FBpp0305514, FBpp0305515


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal4)
Chicken
(galGal4)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
CAATCACTTGACGAGGCCCAG
R:
CACACTTTCGTGCCAACTCCT
Band lengths:
351-670
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)