HsaEX0050379 @ hg19
Exon Skipping
Gene
ENSG00000110844 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:25031]
Coordinates
chr12:50028321-50029256:+
Coord C1 exon
chr12:50028321-50028385
Coord A exon
chr12:50028882-50029046
Coord C2 exon
chr12:50029148-50029256
Length
165 bp
Sequences
Splice sites
3' ss Seq
ACTCCTACCCTCTATCCCAGTGC
3' ss Score
7
5' ss Seq
CCGGTCAGG
5' ss Score
4.84
Exon sequences
Seq C1 exon
GCTGTCCCCTCCAATGCCTCATGGGAACAGGCCATGAAGATGGTGGTCACCGACCCCCGTTACAG
Seq A exon
TGCCTTGCCTAAACTGAGTGAGAAAAAGCAGGCATTCAATGCCTACAAGGCGCAGCGGGAGAAGGAGGAGAAGGAGGAGGCCCGGCTAAGGGCCAAAGAGGCCAAGCAGACCCTGCAGCATTTCCTGGAGCAGCATGAACGCATGACCTCCACCACCCGCTACCG
Seq C2 exon
GCGGGCAGAACAGACCTTTGGGGAGCTGGAGGTCTGGGCTGTGGTCCCTGAGAGGGATCGAAAAGAGGTTTATGATGATGTCCTCTTCTTCCTGGCCAAGAAGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.909 A=0.875 C2=0.027
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(42.0=100),PF0394210=DTW=FE(18.3=100)
A:
PF0184614=FF=PD(30.0=26.8),PF0394210=DTW=PD(42.6=87.5),PF0184614=FF=PU(44.0=39.3)
C2:
PF0394210=DTW=PD(4.0=13.5),PF0184614=FF=PD(54.0=73.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCCCCTCCAATGCCTCAT
R:
TCTCCTTCTTGGCCAGGAAGA
Band lengths:
171-336
Functional annotations
There are 0 annotated functions for this event
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)