Special

DmeEX6000525 @ dm6

Exon Skipping

Gene
Description
The gene Notch is referred to in FlyBase by the symbol DmelN (CG3936, FBgn0004647). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:3134870..3172221. Its molecular function is described by 6 unique terms, many of which group under: binding; protein binding; transmembrane signaling receptor activity; enzyme binding; ion binding. It is involved in the biological process described with 102 unique terms, many of which group under: cell division; response to biotic stimulus; stem cell population maintenance; system process; nervous system process. 626 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; nephrocyte; egg; neuromuscular junction; ganglion mother cell. The phenotypic classes of alleles include: size defective; cell number defective; increased cell number; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-12 hour embryonic stages.
Coordinates
chrX:3147975-3156464:+
Coord C1 exon
chrX:3147975-3148065
Coord A exon
chrX:3155927-3156189
Coord C2 exon
chrX:3156260-3156464
Length
263 bp
Sequences
Splice sites
3' ss Seq
TCTATCTGTATCTTTTCCAGATG
3' ss Score
11.34
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
ATACCGCGTTGGTGGCCGCTTCCTGCACAAGTGTCGGTTGCCAGAATGGCGGCACATGCGTTACACAACTCAATGGCAAAACCTACTGCGC
Seq A exon
ATGCGATTCGCACTATGTCGGCGACTACTGTGAACACCGCAATCCGTGCAATTCGATGCGTTGCCAAAATGGTGGCACCTGTCAGGTGACCTTTCGCAACGGCCGTCCGGGCATCTCGTGCAAGTGTCCTTTGGGCTTCGACGAGTCCCTGTGCGAAATTGCGGTACCGAATGCCTGCGATCATGTGACCTGCCTCAATGGAGGCACCTGTCAGCTAAAGACACTGGAGGAGTACACGTGTGCGTGTGCCAATGGCTATACAG
Seq C2 exon
GTGAACGATGCGAGACGAAGAATCTGTGCGCAAGTTCTCCCTGCCGGAATGGAGCCACCTGCACCGCTTTGGCCGGAAGCAGCAGCTTCACCTGCTCCTGTCCGCCGGGCTTCACCGGTGACACCTGTTCCTATGACATCGAGGAGTGCCAGTCGAATCCGTGCAAATACGGCGGCACATGTGTCAACACCCACGGATCTTACCA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004647-'2-3,'2-2,3-3=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=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
PF0000822=EGF=WD(100=39.3),PF0000822=EGF=PU(90.6=32.6)
C2:
PF0000822=EGF=PD(6.2=2.9),PF0000822=EGF=WD(100=47.8),PF0000822=EGF=PU(61.3=27.5)


Main Inclusion Isoform:
FBpp0070483


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0293201


Other Skipping Isoforms:
NA
Associated events
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGTGGCCGCTTCCTG
R:
AAGATCCGTGGGTGTTGACAC
Band lengths:
285-548
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)