HsaALTA0006719-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000110844 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:25031]
Coordinates
chr12:50036363-50036799:+
Coord C1 exon
chr12:50036363-50036458
Coord A exon
chr12:50036710-50036712
Coord C2 exon
chr12:50036713-50036799
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCTTCTTCCTCTGCCTCTAGCAG
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTCCGTGAGCGTTTTGTGTGTGACTCAGCCTTTGAGCAGATCACCCTGGAGTCGGAGCGGATCCGGCTCTTCCGGGAGTTCCTACAGGTGCTGGAG
Seq A exon
CAG
Seq C2 exon
ACTGAATGCCAGCACCTCCACACCAAAGGCCGAAAGCATGGCAGGAAAGGCAAGAAGCACCATCACAAGCGTTCCCACTCACCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000110844-24-26,24-25-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.933
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(50.0=81.2)
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCGGGAGTTCCTACAGGT
R:
ACGCTTGTGATGGTGCTTCTT
Band lengths:
100-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)