Special

GgaEX0000664 @ galGal4

Exon Skipping

Gene
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:Q5F3R6]
Coordinates
chr27:1405200-1407128:+
Coord C1 exon
chr27:1405200-1405323
Coord A exon
chr27:1405684-1405784
Coord C2 exon
chr27:1406045-1407128
Length
101 bp
Sequences
Splice sites
3' ss Seq
CTCTGGATTGCTGTGCTCAGCTC
3' ss Score
4.15
5' ss Seq
CCTGTAGGT
5' ss Score
3.22
Exon sequences
Seq C1 exon
TCACCATTCCAGAAAGCCAAGCGGCAGCAGATGGACATGATTGCTGAGCTGAAGAAGAAGCAGATGGTGAAGGAGCCACTCATTTATGAAGGCAAAGACGGGGCCATCGAGGACATTATTTCAG
Seq A exon
CTCTGAAAACTGTTCCTTTCACGGCCCGGACGGGCAAGCGCTCGTCCCGGCTCTTCTGCGATGTGAGCTTCAGCGAGGAGAGTCCCCTGTAGTGGCTGCCT
Seq C2 exon
ATCTGCGGAACAACCCGTACCGGCGCGCAGATAAGGGCCGCGGCAGCGCCAAGAAGCGGGCGGTGGGGCAGAGCCTGCAGGCCACGCCGGACATCTCGCTGTGAGGGGCACCGGGGCGTGGGGTGGGGAGCGGTGCCCACTCAGCGCCGGCCGCCCCACTGCCCCGCACACCTTTGGGTCGGCCGCAGGGCTGCCCCAGTGCTTGCTTAGTGACCCTGCTGAGCTCTTCTCCCAGGGGGAAGTGGGGAGCGCTGGGAGCCCCTGCCCAGAGCTGCTGCATCGCACTCCAGGCCTCGGGGGCAGCCCCGCACACCGCCGTTCCCCTTCAGCTTGCTGGTGCCTTTGACCTCCTGCCGCTGGAGAGAAGGAGGGCCGCCAGCCGGGGCCGCAGTGCTGCTGGTGCCCCTCTCATCCCCGCGGAGCCCTCGGACACCGCGTTCTCCTCTGCTGCAGAGCTGGGCGGGCACCGGCTGCGCCTCCTCTCCAGCACGGAGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000694_CASSETTE4
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=0.254 A=0.000 C2=0.941
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
NO


Main Inclusion Isoform:
ENSGALT00000040749fB68


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTATGAAGGCAAAGACGGGGC
R:
GTCACTAAGCAAGCACTGGGG
Band lengths:
255-356
Functional annotations
There are 2 annotated functions for this event
PMID: 19815554
[Negative results]. 293T cells transfected with FMNL1alpha (inclusion of HsaEX0026025) and FMNL1beta (skipping) showed mainly intracellular cytoplasmic distribution of FMNL1, whereas cells transfected with FMNL1gamma showed a distinct membranous FMNL1 localization as well as extensive polarized membrane protrusions and blebs. Inclusion/exclusion of HsaEX0026025 generates different C-term, as does the IR of gamma.
PMID: 14990563
A construct composed of the C-terminal half of FRLalpha (FRLalpha-C; inclusion of MmuEX0019390) is a dimer and has multiple effects on muscle actin, including tight binding to actin filament sides (also observed for beta; skipping), partial inhibition of barbed end elongation, inhibition of barbed end binding by capping protein, acceleration of polymerization from monomers, and actin filament severing. These multiple activities can be explained by a model in which FRLalpha-C binds filament sides but prefers the topology of sides at the barbed end (end-sides) to those within the filament. This preference allows FRLalpha-C to nucleate new filaments by side stabilization of dimers, processively advance with the elongating barbed end, block interaction between C-terminal tentacles of capping protein and filament end-sides, and sever filaments by preventing subunit re-association as filaments bend. Note: it does not compare the function of alpha (inclusion) with beta (skipping) for all experiments.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]