HsaEX0026025 @ hg38
Exon Skipping
Gene
ENSG00000184922 | FMNL1
Description
formin like 1 [Source:HGNC Symbol;Acc:HGNC:1212]
Coordinates
chr17:45246210-45247320:+
Coord C1 exon
chr17:45246210-45246330
Coord A exon
chr17:45246505-45246604
Coord C2 exon
chr17:45246867-45247320
Length
100 bp
Sequences
Splice sites
3' ss Seq
CCTGCCCCACCCCCACTCAGTGA
3' ss Score
5.93
5' ss Seq
CAGGTACCC
5' ss Score
8.63
Exon sequences
Seq C1 exon
TCACCGCCAAAGGCCCGGCGGCCACAGATGGACCTCATCTCTGAGCTGAAACGGAGGCAGCAGAAGGAGCCACTCATTTATGAGAGCGACCGTGATGGGGCCATTGAAGACATCATCACAG
Seq A exon
TGATCAAGACGGTGCCCTTCACGGCCCGCACCGGCAAGCGGACATCCCGGCTCCTCTGTGAGGCCAGCCTGGGAGAAGAGATGCCCCTCTAGCCCCTCAG
Seq C2 exon
ATCTGCGGAACCAGCCCTACATCCGCGCAGACACAGGCCGCCGCAGTGCCCGTCGGCGTCCCCCGGGCCCCCCACTGCAGGTCACCTCCGACCTCTCGCTGTAGCCGCTATTTCTGCAGGTGGATTCTGCAGGGGTGTGGGGCCGTGGACAGGCTGAGGCTCAAGGAAGGTGGTCCTCAGCTCGGCTGGCCGGGCAGCCCCTCCTCCGCTGTGGCCCGCCTCAAACGGGCTGGTGCATCCTCCTCTTGGCCACAGAGGGCAGCATCGCCCGCCCCTTCCCCCAAATGCTGCTTGCAGCACCCACCCTAAAGCCCCCTCCAAATAGCCATACTTAGCCTCAGCAGGAGCCTGGCCTGTAACTTATAAAGTGCACCTCGCCCCCGCAAGCCCCAGCCCCGAGGACCGTCCATGGACCTTATTTTTATATGAGATTAATAAAGATGTTTGCAAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184922_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.485 A=0.178 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGAAGGAGCCACTCATT
R:
GAGCTGAGGACCACCTTCCTT
Band lengths:
247-347
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]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development