HsaEX6078318 @ hg19
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:15797]
Coordinates
chr20:43564032-43566832:+
Coord C1 exon
chr20:43564032-43564138
Coord A exon
chr20:43565278-43565371
Coord C2 exon
chr20:43566702-43566832
Length
94 bp
Sequences
Splice sites
3' ss Seq
GTGTCCCCGGCACCATGCAGGTC
3' ss Score
5.24
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
Exon sequences
Seq C1 exon
CCAACATTGGTACTCAGACCACAGGACCCAGTGGGGTAGGATGCTGTACACCAGGCCGGCCGCTCCTGCCGTGCAAATGTTCCTCAGCAGCACATAGCACCTATCGG
Seq A exon
GTCCAGGAGCCGGCTGTGCACATCCCAGGACAGGAGCCCCTGACCGCGTCCATGCTGGCTGCGGCGCCCCTGCATGAGCAAAAGCAGATGATTG
Seq C2 exon
GGGAGCGTCTCTACCCCCTTATCCATGATGTCCACACCCAGCTGGCTGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCAGAGCTGTTGCTCATGCTGGAGTCTCCAGAATCCCTCCATGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104-'20-39,'20-35,22-39=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.347 A=0.391 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0065813=PABP=PU(29.0=62.5)
C2:
PF0065813=PABP=FE(62.3=100)
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:
TGCAAATGTTCCTCAGCAGCA
R:
CTTGGCATGGAGGGATTCTGG
Band lengths:
167-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)