HsaEX0050374 @ hg19
Exon Skipping
Gene
ENSG00000110844 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:25031]
Coordinates
chr12:50017197-50025327:+
Coord C1 exon
chr12:50017197-50017376
Coord A exon
chr12:50024328-50024408
Coord C2 exon
chr12:50025184-50025327
Length
81 bp
Sequences
Splice sites
3' ss Seq
ACTTTTCTCTCCCTCAACAGTCG
3' ss Score
10.46
5' ss Seq
TTCGTAAGT
5' ss Score
9.77
Exon sequences
Seq C1 exon
GGGACCGAACACACCGGGCCGGTTGGGGCCCCGCTCGCCGGCGGGAGCCACCGGAGCCCCGGCCACGAAGGGGTGCGACCCCCCGCCGGCCCCGCCCTCCCGGCTGCGGCCTGGCCAATCAGAGCGGCTCTTACTGGCGGGTGGGCTGAGCCGGCCCAGCTGCTCGGAGGCTCTGGCATG
Seq A exon
TCGGTTCCCGATTCTGGTCCCCGGCCCCCAGCAGCGCCTGCCCCCTTCCCACCGGGGCCCCCCATGATGCCACCACCCTTC
Seq C2 exon
ATGCCCCCTCCAGGGATCCCCCCACCCTTTCCTCCGATGGGGCTACCCCCCATGAGTCAGAGACCACCAGCTATCCCCCCCATGCCACCTGGCATCCTGCCCCCAATGCTTCCACCAATGGGGGCGCCACCACCACTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844-'0-2,'0-1,2-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.667 C2=0.991
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAATCAGAGCGGCTCTTAC
R:
GAAGCATTGGGGGCAGGATG
Band lengths:
179-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)