HsaEX0045155 @ hg19
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:15797]
Coordinates
chr20:43566702-43587052:+
Coord C1 exon
chr20:43566702-43566832
Coord A exon
chr20:43581284-43581345
Coord C2 exon
chr20:43586978-43587052
Length
62 bp
Sequences
Splice sites
3' ss Seq
AACTCCAACTTATTCTTTAGATT
3' ss Score
6.86
5' ss Seq
CTGGTATGT
5' ss Score
8.14
Exon sequences
Seq C1 exon
GGGAGCGTCTCTACCCCCTTATCCATGATGTCCACACCCAGCTGGCTGGCAAGATCACGGGCATGCTGCTGGAGATTGACAACTCAGAGCTGTTGCTCATGCTGGAGTCTCCAGAATCCCTCCATGCCAAG
Seq A exon
ATTTCAGCTTAAAATGCCACCCAGAGACCAAGTTCATTCTGTCAACTGATCTCCAGCACCTG
Seq C2 exon
GCCCAGAGACGGAAAGTACAAAGACTAGTAAAATACATCCTTGCCCTTAAGGAGCTAAGTACCCAAAACCTGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104_MULTIEX2-4/5=2-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.333 C2=0.000
Domain overlap (PFAM):
C1:
PF0065813=PABP=FE(62.3=100)
A:
PF0065813=PABP=PD(3.0=50.0)
C2:
PF0065813=PABP=PD(5.9=15.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
GCGTCTCTACCCCCTTATCCA
R:
TTGTACTTTCCGTCTCTGGGC
Band lengths:
148-210
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)