GgaEX0006276 @ galGal4
Exon Skipping
Gene
ENSGALG00000004624 | MYO5A
Description
unconventional myosin-Va [Source:RefSeq peptide;Acc:NP_990631]
Coordinates
chr10:8316753-8319500:+
Coord C1 exon
chr10:8316753-8316853
Coord A exon
chr10:8317406-8317486
Coord C2 exon
chr10:8319302-8319500
Length
81 bp
Sequences
Splice sites
3' ss Seq
TTAAACACTTTTCTTGGAAGGCA
3' ss Score
4.35
5' ss Seq
CAGGTTACC
5' ss Score
-1.62
Exon sequences
Seq C1 exon
AACACCATGACAGATTCTACAATCCTCTTGGAGGATGTGCAGAAGATGAAAGACAAAGGGGAAATAGCACAGGCATATATTGGACTGAAGGAAACCAACAG
Seq A exon
GCAATCTCCCCAGGACTATCATATGCTGAATGAGGACGGAGAACTTTGGCTGGTTTATGAAGGGTTAAAACAAGCCAACAG
Seq C2 exon
GCTGCTGGAGTCTCAGCTGCAGTCGCAGAAGAAGAGCCACGAGAATGAGCTGGAGTCACTGCGAGGTGAGATCCAAAGTCTGAAGGAAGAAAACAATCGCCAGCAGCAGCTCTTGGCACAGAATCTGCAGCTGCCCCCAGAGGCCCGCATTGAAGCCAGTCTGCAGCATGAGATCACCCGGCTGACAAACGAGAACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004624_CASSETTE7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=0.321 C2=0.678
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Inclusion Isoform:
ENSGALT00000039066fB674


Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGGGGAAATAGCACAGGCA
R:
GATTCTGTGCCAAGAGCTGCT
Band lengths:
172-253
Functional annotations
There are 2 annotated functions for this event
PMID: 19008234
Rab10 can interact with myosin Va, myosin Vb, and myosin Vc. Rab10 localized to a system of tubules and vesicles that have partially overlapping localization with Rab8a. Both Rab8a and Rab10 were mislocalized by the expression of dominant-negative myosin V tails. Interaction with Rab10 was dependent on the presence of the alternatively spliced exon D in myosin Va (HsaEX0041195) and myosin Vb (HsaEX0041208) and the homologous region in myosin Vc. Yeast two-hybrid assays and fluorescence resonance energy transfer studies confirmed that Rab10 binding to myosin V tails in vivo required the alternatively spliced exon D. In contrast to these previous work, the authors found that Rab11a can interact with both myosin Va and myosin Vb tails independent of their splice isoform.
PMID: 24006491
Myosin Va is a widely expressed actin-based motor protein that binds members of the Rab GTPase family (3A, 8A, 10, 11A, 27A) and is implicated in many intracellular trafficking processes. To these knowledge, myosin Va has not been tested in a systematic screen for interactions with the entire Rab GTPase family. To that end, the authors report a yeast two-hybrid screen of all human Rabs for myosin Va-binding ability and reveal 10 novel interactions (3B, 3C, 3D, 6A, 6A_, 6B, 11B, 14, 25, 39B), which include interactions with three new Rab ++subfamilies (Rab6, Rab14, Rab39B). Different Myo5A isoforms where tested including isoform D (includes cassette exon D (HsaEX0041195)), and isoform F (includes cassette exon F (HsaEX0041194)). Of interest, myosin Va interacts with only a subset of the Rabs associated with the endocytic recycling and post-Golgi secretory systems. The authors demonstrate that myosin Va has three distinct Rab-binding domains on disparate regions of the motor (central stalk, an alternatively spliced exon, and the globular tail). Although the total pool of myosin Va is shared by several Rabs, Rab10 and Rab11 appear to be the major determinants of its recruitment to intracellular membranes. The authors also present evidence that myosin Va is necessary for maintaining a peripheral distribution of Rab11- and Rab14-positive endosomes. Note, the Myo5a isoforms show some differences in interactome.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]