Special

DmeEX0003672 @ dm6

Exon Skipping

Gene
FBgn0012051 | CalpA
Description
The gene Calpain-A is referred to in FlyBase by the symbol DmelCalpA (CG7563, FBgn0012051). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is 2R:19425113..19430564. Its molecular function is described by: calcium ion binding; calcium-dependent cysteine-type endopeptidase activity. It is involved in the biological process described with 9 unique terms, many of which group under: multicellular organismal process; metabolic process; multicellular organism development; protein metabolic process; organonitrogen compound metabolic process. 22 alleles are reported. The phenotype of these alleles manifest in: A1-7 lateral transverse muscle. The phenotypic classes of alleles include: immune response defective; viable; majority die during embryonic stage; long lived; partially lethal - majority die; locomotor behavior defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 18-24 hour embryonic stages.
Coordinates
chr2R:19426034-19426806:+
Coord C1 exon
chr2R:19426034-19426218
Coord A exon
chr2R:19426347-19426391
Coord C2 exon
chr2R:19426630-19426806
Length
45 bp
Sequences
Splice sites
3' ss Seq
ATATACATTCCACTCATTAGCAA
3' ss Score
0.39
5' ss Seq
AACGTAAGT
5' ss Score
10.74
Exon sequences
Seq C1 exon
ATATCTGCACGATGGACGACTTGAGGGGATTCTTGAGGCAAGCGGGACAGGAGTTCCTCAATGCAGCTGGTGAGGCTGCAATGGGAGCGGCCAAGGATGTGGTCGGATCGGTGATCAACGAGATCTTCATCAAGAAGGAGGCCGACACCAAGAGGGTTCTGCCCAGCATCAAGAATATGAGAGTT
Seq A exon
CAACCATTGCAATCTCAAAGTAATAGTACGTTGTACTATGGGAAC
Seq C2 exon
CTGGGAGAGAAGAGCTCGAGCCTGGGACCCTATTCCGAGGTGCAGGACTATGAGACAATATTGAACAGCTGCCTGGCCAGTGGTTCCCTTTTCGAAGATCCACTTTTTCCGGCTTCGAACGAGTCTCTTCAGTTTTCCCGGCGTCCAGATCGTCACATCGAATGGCTGAGACCTCAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0012051-'4-2,'4-1,5-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref)

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

C1:
NO
A:
NO
C2:
PF0064816=Peptidase_C2=PU(9.7=49.2)


Main Inclusion Isoform:
FBpp0309435


Main Skipping Isoform:
FBpp0085714


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
FBpp0085715, FBpp0111782
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCAAGAAGGAGGCCGACAC
R:
GGCCAGGCAGCTGTTCAATAT
Band lengths:
136-181
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)