Special

DmeEX6014846 @ dm6

Exon Skipping

Gene
FBgn0052423 | shep
Description
The gene alan shepard is referred to in FlyBase by the symbol Dmelshep (CG32423, FBgn0052423). It is a protein_coding_gene from Dmel. It has 9 annotated transcripts and 9 polypeptides (6 unique). Gene sequence location is 3L:5155821..5277944. Its molecular function is described by: RNA binding; mRNA binding. It is involved in the biological process described with 7 unique terms, many of which group under: response to gravity; response to abiotic stimulus; response to stimulus; anatomical structure development; behavior. 65 alleles are reported. The phenotypes of these alleles manifest in: cellular anatomical entity; appendage; adult segment; adult tagma; nervous system. The phenotypic classes of alleles include: increased mortality during development; increased mortality; phenotype; 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, at stages throughout the pupal period, in adult female stages.
Coordinates
chr3L:5168250-5184797:-
Coord C1 exon
chr3L:5184215-5184797
Coord A exon
chr3L:5170187-5170440
Coord C2 exon
chr3L:5168250-5168302
Length
254 bp
Sequences
Splice sites
3' ss Seq
TTTGTTCTCATTCTTTGCAGTAC
3' ss Score
8.95
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
Exon sequences
Seq C1 exon
CTCCCGTCGTTTTGAGATCAGCTGCTCTCGCAACAACAACAACTATAACTGTAGTTACCGTCTCTTTTGCATCGTTCGTTTTTCGTTTGTGTCGCCAAGTGATTGTGTGTGTGCGTAAGCTTAAAGCTGACTAACAAAACGAAACAAGAAAAAATATAAATTATAGGAAAATTGTTAAATTATAACCAGAAAGAGAGCGGCACTTACGTGTGTTATTGTGTGCGTGTGCTTTAAAAAGATATAAAAATAGCAATAGAAAGTTATTAAAGCGTTGGCAAAAAAGTCCAACGAACAGCGAGAGGAAGCGGAGAACGAAATAGTTAAAGCCAAAGTCGCTGCCGACGTCGCACTTGAAAACGTCGCAAAAGTTTGTAAACACACCAGTGTGTGTTCGTGTGTGTTTTTGCCGGCGTGCCAGTGTGCGTGCGCCTAGAAAAGAGTAAAGAAGCAGAAGAAAAGGAAGAAGCCGAAGAAGCAGCAAAAGAAGCCGACAGCAAAAA
Seq A exon
TACGGTCAGCGAGTGCCGACGGCAGCCTCACCGAGCAACACCAACTCGAGCAGCTCCTCGAACACTGGCTCCCAGAGCGGCACCCTGAGCACCAGCCTGAGCAACACGACGAACACCAACACGAACATGGGTCCCAACGGCACGGTACAGAATCAGAACCAACAGGGCGGCGAGCAGTTGTCCAAGACAAATCTCTACATTCGCGGTCTGCAGCAGGGCACAACCGACAAGGATCTAGTTAATATGTGTGCACA
Seq C2 exon
ATACGGAACAATTATATCAACCAAGGCTATTTTAGATAAAACAACAAACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0052423-'21-16,'21-15,31-16=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=NA A=0.627 C2=0.000
Domain overlap (PFAM):

C1:
NA
A:
PF0007617=RRM_1=PU(29.4=23.5)
C2:
PF0007617=RRM_1=FE(27.3=100)


Main Inclusion Isoform:
FBpp0290814


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0076875, FBpp0076876, FBpp0076877, FBpp0301014, FBpp0305482, FBpp0305483, FBpp0305484


Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCGTGTGCTTTAAAAAGA
R:
CCTTGGTTGATATAATTGTTCCGT
Band lengths:
308-562
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)