HsaEX0045148 @ hg19
Exon Skipping
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein, cytoplasmic 1-like [Source:HGNC Symbol;Acc:15797]
Coordinates
chr20:43541301-43547686:+
Coord C1 exon
chr20:43541301-43541494
Coord A exon
chr20:43545397-43545512
Coord C2 exon
chr20:43547547-43547686
Length
116 bp
Sequences
Splice sites
3' ss Seq
CCTTCCTCCCTGTGGCCCAGGTG
3' ss Score
7.56
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
Exon sequences
Seq C1 exon
CGGAGCGGGCACTGGACACAATGAACTTTGAGATGCTCAAAGGCCAGCCTATTCGCATCATGTGGTCCCAGCGAGACCCAGGACTTCGCAAGTCAGGTGTGGGCAACATCTTCATCAAGAACCTGGAGGACTCCATTGACAACAAGGCTTTATATGATACCTTCTCCACCTTTGGGAACATCCTCTCTTGCAAG
Seq A exon
GTGGCGTGTGACGAGCATGGCTCCCGGGGTTTCGGCTTTGTCCATTTTGAGACCCATGAGGCCGCACAGCAGGCCATCAACACCATGAATGGGATGCTGCTGAATGACCGCAAAGT
Seq C2 exon
CTTTGTGGGTCACTTCAAGTCTCGACGGGAGCGGGAGGCGGAGCTGGGGGCGCGGGCCCTGGAGTTCACCAACATCTACGTGAAGAACCTCCCGGTGGATGTGGACGAGCAAGGCCTGCAGGACCTCTTCTCCCAGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104_MULTIEX1-1/5=C1-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.027 C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(90.3=43.1),PF139001=GVQW=PU(4.3=3.1)
A:
PF0007617=RRM_1=FE(55.1=100)
C2:
PF0007617=RRM_1=PD(1.4=2.1),PF0007617=RRM_1=PU(31.4=45.8)
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:
TTGAGATGCTCAAAGGCCAGC
R:
GATGTTGGTGAACTCCAGGGC
Band lengths:
243-359
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)