HsaEX0052637 @ hg38
Exon Skipping
Gene
ENSG00000119446 | RBM18
Description
RNA binding motif protein 18 [Source:HGNC Symbol;Acc:HGNC:28413]
Coordinates
chr9:122251847-122261508:-
Coord C1 exon
chr9:122261380-122261508
Coord A exon
chr9:122254274-122254367
Coord C2 exon
chr9:122251847-122251973
Length
94 bp
Sequences
Splice sites
3' ss Seq
TTTCATTCCTTTTGTTTCAGTGT
3' ss Score
9.77
5' ss Seq
AAGGTCACA
5' ss Score
1.86
Exon sequences
Seq C1 exon
TATTTCATAGACATTGATGGAAGCAGAAACCAAAACTCTTCCCCTGGAGAATGCATCCATCCTTTCAGAGGGCTCTCTGCAGGAAGGACACCGATTATGGATTGGCAACCTGGACCCCAAAATTACCGA
Seq A exon
TGTTCCGATAATTTTAAGAAATTATCAAACAAGAAAAGAAATCCTGGAGAAGTTGAAAGACACAAACCTAAGCAGATGTTCCTGGAATCTTAAG
Seq C2 exon
ATACCACCTCCTCAAGCTCCTCCAGAAGTTTGGCAAGGTAAAGCAGTTTGACTTCCTCTTCCACAAGTCAGGTGCTTTGGAGGGACAGCCTCGAGGCTACTGTTTTGTTAACTTTGAAACTAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119446-'5-5,'5-3,6-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=0.062 C2=0.055
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(14.9=28.9)
A:
NA
C2:
PF0007617=RRM_1=FE(56.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCTGGAGAATGCATCCAT
R:
CCCTCCAAAGCACCTGACTTG
Band lengths:
174-268
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Conserved poison exon with pro-oncogenic impact when depleted: HeLa No Change at 14 days (FC=0.847, FDR=0.069), PC9 Enriched at 14 days (FC=1.273, FDR=0.005), Late Xenograft No change (FC=1.077, FDR=0.907).
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