HsaEX0045160 @ hg19
Exon Skipping
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:8557]
Coordinates
chr1:40038065-40042462:-
Coord C1 exon
chr1:40042224-40042462
Coord A exon
chr1:40041431-40041895
Coord C2 exon
chr1:40038065-40038258
Length
465 bp
Sequences
Splice sites
3' ss Seq
TGATTTTTTGAAATTTGGAGCTT
3' ss Score
-2.73
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
Exon sequences
Seq C1 exon
CTCTCTCCGCCCCGGGTCGCTGCCGCCTCCGCCGCTTTCGGGCTTCGCAGCCTGAGGAAAAAAAGAGAAAAAGATAAAAAAAATCTGAAAACGCTTCAAAATCCTGAAAAAAAAAAAGGAAAAGAAAAAACGAATCCTCGGAGAACCCGCGGGGAAGTCACTTTCGTACGCTTCCGGCCTGCCCCGCGCCCGCCGCCGCAGCGCTTGGCGTCCGTCGGTCTCCGTCCGTCGGTCCGGGG
Seq A exon
CTTCGCACCAGGACCGCGGAGAAGTGCAAAGTCGCGGGGAGGGCCGTATTGTGCGGAGAGCCTTTTGTCTGCGGTGCTGCGGCCGTGGGAGCCGGCCCCCGCCTCCCGTTTCCGTCCCGTCTCCAAGCCCGCCGACTCCAGCTCGTCCTCGCCGCGCCGGTGCCACCTGTGAGCCGCGGCGCGGGCCCGGGCTCCGAAGGCGCCCCTTTGTCCTGCGGCGGGCCCGATAAGAAGTCCTCCTGGCGGGGCTCGGGGTGGTGGGGGGCGGGGAGATGAACGCTGCGGCCAGCAGCTACCCCATGGCCTCCCTGTACGTGGGCGACCTGCATTCGGACGTCACCGAGGCCATGCTGTACGAAAAGTTCAGCCCCGCGGGGCCTGTGCTGTCCATCCGGGTCTGCCGCGATATGATCACCCGCCGCTCCCTGGGCTATGCCTACGTCAACTTCCAGCAGCCGGCCGACG
Seq C2 exon
CTGAGCGGGCTTTGGACACCATGAACTTTGATGTGATTAAGGGAAAGCCAATCCGCATCATGTGGTCTCAGAGGGATCCCTCTTTGAGAAAATCTGGTGTGGGAAACGTCTTCATCAAGAACCTGGACAAATCTATAGATAACAAGGCACTTTATGATACTTTTTCTGCTTTTGGAAACATACTGTCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621-'0-4,'0-2,1-4
Average complexity
S
Mappability confidence:
100%=100=75%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
PF0007617=RRM_1=PU(73.2=80.0)
C2:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGAAAACGCTTCAAAATCCTGA
R:
GCAGGACAGTATGTTTCCAAAAGC
Band lengths:
347-812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)