Special

DmeEX0009360 @ dm6

Exon Skipping

Gene
FBgn0040918 | schlank
Description
The gene schlank is referred to in FlyBase by the symbol Dmelschlank (CG3576, FBgn0040918). It is a protein_coding_gene from Dmel. It has 3 annotated transcripts and 3 polypeptides (1 unique). Gene sequence location is X:6257668..6267228. Its molecular function is described by: N-acyltransferase activity; DNA binding; sphingosine N-acyltransferase activity. It is involved in the biological process described with: SREBP signaling pathway; triglyceride metabolic process; negative regulation of lipid catabolic process; positive regulation of lipid biosynthetic process; ceramide biosynthetic process. 30 alleles are reported. The phenotypes of these alleles manifest in: prothoracic gland; terminal bouton; wing; endosome; trichogen cell. The phenotypic classes of alleles include: visible; lethal; increased mortality during development; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed at stages throughout embryogenesis, during late larval stages, during early pupal stages.
Coordinates
chrX:6257668-6259234:-
Coord C1 exon
chrX:6258897-6259234
Coord A exon
chrX:6258650-6258794
Coord C2 exon
chrX:6257668-6258506
Length
145 bp
Sequences
Splice sites
3' ss Seq
CATCCTGATAAACCCGGCAGCTC
3' ss Score
2.8
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
Exon sequences
Seq C1 exon
TCGATCAGCAATGATATCTGGTGGTACTACATGATTTCGATGTCCTTCTACTGGTCACTCACTGGCACCCAGTTCTTCGATGTGAAACGCAAGGACTTCTGGCAGATGTTCATCCATCACATGGTCACCCTGCTCCTAATGTCGCTCAGCTGGGTGTGCAATCTGCATCGCGTCGGTTCGCTCGTCCTAGTCGTTCACGATTGTGCTGACATCTTCTTGGAGGCCGCCAAACTCACCAAATATGCCAAATATCAGAAGCTCTGCGATGCAATCTTTGCCATCTTCACAGTGGTGTGGATTGTTACGCGTCTGGGCTTCTATCCACGCATCATTTATAG
Seq A exon
CTCATCCGTGGAAGCACCGCGCATTCTGCCCATGTTCCCAGCCTACTACATCTTCAACTCACTGCTTCTGATGCTGCTCGTCCTGCACGTCATCTGGACATACATGATCCTCAAGATTGTTGTCGACTCTCTGCAGAAGGGTCTG
Seq C2 exon
ATGTCCGGTGACATACGTTCCAGTGATAGTGAGGATCTCACAGACAGTTCGGGGAATGCACGTCTGACCAATGGCTCGGCGCGCTCCAAGAACAAGTCGATCAGCAGTGCGCCATCGGATAAAGGATCTGCCGGAGGAGCAGGATCAAGAGCAGGAGCAAGAGTTGCGACAACGGAACGGAGAGAGGAGTAGCTGAGACACCAGTACCACTAGTAGGGGCCACACTTCCCGGGAGCAGGCGCAGCAACAACAGCAAACAAACAAAATCCACACACACCCCAAAAAAGCACACACCACGAACACACACACCACACACACTCACGCACACAGACGCATACAAAAAAACCAAACCAGTTCAGAATGTTTTTATGTTATTATTTTTTTTTATATATACATCTTTTTTAAGGTAAACAAAAAAGAAAGAAACAAATCGAAAACCAAAAGAAATTTAAATAAATGCGAGAAAATTGATGCGTAACGATTCGCTTGTACATCGTTAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0040918_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref, Alt. Stop)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.698
Domain overlap (PFAM):

C1:
PF0379811=TRAM_LAG1_CLN8=FE(58.0=100)
A:
PF0379811=TRAM_LAG1_CLN8=PD(19.7=77.6)
C2:
NO


Main Inclusion Isoform:
FBpp0070898


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0070899


Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
HIGH PSI
([1])
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
CATCACATGGTCACCCTGCTC
R:
CACTGGAACGTATGTCACCGG
Band lengths:
249-394
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)