HsaEX0045147 @ hg19
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:15797]
Coordinates
chr20:43566702-43567962:+
Coord C1 exon
chr20:43566702-43566832
Coord A exon
chr20:43567315-43567389
Coord C2 exon
chr20:43567767-43567962
Length
75 bp
Sequences
Splice sites
3' ss Seq
CCGCCACTCATGTCTCACAGATA
3' ss Score
8.33
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
GGGAGCGTCTCTACCCCCTTATCCATGATGTCCACACCCAGCTGGCTGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCAGAGCTGTTGCTCATGCTGGAGTCTCCAGAATCCCTCCATGCCAAG
Seq A exon
ATAGACGAGGCAGTGGCCGTGCTGCAGGCACACCAGGCTATGGAGCAGCCGAAGGCGTACATGCACTGAAACCAG
Seq C2 exon
AAAAGGAAATCCTCGCTTCCATGGCTGCCAAAAGGACAGTGTTTCTGGCTCTCAGCCCTAAGGCCCTGCAAACTCTAACTTATTTCCCAATTAGTCTGTATCTATACTTGGGCTCTGTATGTGAATGAAGGTTGGTCACCCATCCAGCCTATTACCTTTTGCTTTGTGTATTAAAAGTGCTGCAAAATCTGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104-'25-42,'25-41,27-42
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.179 C2=0.095
Domain overlap (PFAM):
C1:
PF0065813=PABP=FE(62.3=100)
A:
PF0065813=PABP=PD(9.7=30.4)
C2:
PF0065813=PABP=PD(5.8=15.4)
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTCTCTACCCCCTTATCCA
R:
ACTGTCCTTTTGGCAGCCATG
Band lengths:
167-242
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)