HsaEX0045154 @ hg19
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:15797]
Coordinates
chr20:43565278-43587052:+
Coord C1 exon
chr20:43565278-43565371
Coord A exon
chr20:43566702-43566832
Coord C2 exon
chr20:43586978-43587052
Length
131 bp
Sequences
Splice sites
3' ss Seq
TTAGAAGGTGTTCCACACAGGGG
3' ss Score
2.14
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
Exon sequences
Seq C1 exon
GTCCAGGAGCCGGCTGTGCACATCCCAGGACAGGAGCCCCTGACCGCGTCCATGCTGGCTGCGGCGCCCCTGCATGAGCAAAAGCAGATGATTG
Seq A exon
GGGAGCGTCTCTACCCCCTTATCCATGATGTCCACACCCAGCTGGCTGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCAGAGCTGTTGCTCATGCTGGAGTCTCCAGAATCCCTCCATGCCAAG
Seq C2 exon
GCCCAGAGACGGAAAGTACAAAGACTAGTAAAATACATCCTTGCCCTTAAGGAGCTAAGTACCCAAAACCTGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104_MULTIEX2-2/5=C1-C2
Average complexity
C3*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.391 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0065813=PABP=PU(29.0=62.5)
A:
PF0065813=PABP=FE(62.3=100)
C2:
PF0065813=PABP=PD(5.9=15.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGGCTGTGCACATC
R:
TACAGGTTTTGGGTACTTAGCTCC
Band lengths:
162-293
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)