Special

DmeEX0000136 @ dm6

Exon Skipping

Gene
FBgn0000667 | Actn
Description
The gene alpha actinin is referred to in FlyBase by the symbol DmelActn (CG4376, FBgn0000667). It is a protein_coding_gene from Dmel. It has 10 annotated transcripts and 10 polypeptides (4 unique). Gene sequence location is X:2023822..2042311. Its molecular function is described by: protein binding; actin filament binding; calcium ion binding; actin binding. It is involved in the biological process described with: sarcomere organization; actin filament bundle assembly; actin cytoskeleton reorganization. 48 alleles are reported. The phenotypes of these alleles manifest in: non-connected functional system; larva; somatic muscle; sensory system; pericardial cell. The phenotypic classes of alleles include: increased mortality; phenotype; some die during pupal stage; visible. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of moderately high expression. Peak expression observed within 12-24 hour embryonic stages, at stages throughout the larval period, during late pupal stages, in stages of adults of both sexes.
Coordinates
chrX:2027935-2030368:-
Coord C1 exon
chrX:2030215-2030368
Coord A exon
chrX:2029775-2029926
Coord C2 exon
chrX:2027935-2028027
Length
152 bp
Sequences
Splice sites
3' ss Seq
CGATTGGTGAACAACGACAGATT
3' ss Score
-0.54
5' ss Seq
AATGTGACT
5' ss Score
3.25
Exon sequences
Seq C1 exon
GATGGTCTGGCCTTCTGCGCCCTTATCCATCGCCATCGTCCAGATCTAATCGACTACGCCAAGCTGTCCAAAGACAATCCTCTGGAGAATCTTAATACTGCCTTCGATGTGGCCGAGAAGTACCTGGATATTCCGCGCATGTTGGATCCAGATG
Seq A exon
ATTTGATCAACACTCCGAAACCGGATGAACGTGCCATCATGACGTACGTCTCCTGCTACTACCACGCCTTCCAGGGAGCTCAACAGGTTGGAAATGTGACGCATGTACCCGAACCCACAAGACAATACACCTACGTCCCGAATAATTACAAT
Seq C2 exon
GCGGAAACCGCTGCCAACCGGATCTGCAAGGTGCTCAAGGTCAACCAGGAGAACGAACGCCTCATGGAGGAGTACGAGCGTCTGGCCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0000667_MULTIEX1-1/2=C1-C2
Average complexity
ME(1-2[100=100])
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

No structure available
Features
Disorder rate (disopred):
  C1=0.000 A=0.123 C2=0.000
Domain overlap (PFAM):

C1:
PF0030726=CH=FE(49.0=100)
A:
PF0030726=CH=PD(23.1=82.8)
C2:
PF0043516=Spectrin=PU(9.9=35.5)


Main Inclusion Isoform:
FBpp0070331


Main Skipping Isoform:
FBpp0302777


Other Inclusion Isoforms:
FBpp0070329, FBpp0292167, FBpp0302778, FBpp0302779, FBpp0305935, FBpp0305936


Other Skipping Isoforms:
FBpp0070330
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
ALTERNATIVE
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGTCTGGCCTTCTGCG
R:
CTGGCCAGACGCTCGTACTC
Band lengths:
243-395
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)