HsaEX6030219 @ hg19
Exon Skipping
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:8557]
Coordinates
chr1:40030778-40034611:-
Coord C1 exon
chr1:40034474-40034611
Coord A exon
chr1:40033423-40033518
Coord C2 exon
chr1:40030778-40031050
Length
96 bp
Sequences
Splice sites
3' ss Seq
CAGTGATCTTTTTCCTTCAGGGG
3' ss Score
8.06
5' ss Seq
AAGGTATTA
5' ss Score
7.04
Exon sequences
Seq C1 exon
GCTGTGGAAGAGATGAATGGAAAAGAAATAAGTGGTAAAATCATATTTGTAGGCCGTGCACAAAAGAAAGTAGAACGGCAGGCAGAGTTAAAACGGAAATTTGAACAGTTGAAACAGGAGAGAATTAGTCGATATCAG
Seq A exon
GGGGTGAATCTCTACATTAAGAACTTGGATGACACTATTGATGATGAGAAATTAAGGAAAGAATTTTCTCCTTTTGGATCAATTACCAGTGCTAAG
Seq C2 exon
GTAATGCTGGAGGATGGAAGAAGCAAAGGGTTTGGCTTCGTCTGCTTCTCATCTCCTGAAGAAGCAACCAAAGCAGTCACTGAGATGAATGGACGCATTGTGGGCTCCAAGCCACTATATGTTGCCCTGGCCCAGAGGAAGGAAGAGAGAAAGGCTCACCTGACCAACCAGTATATGCAACGAGTGGCTGGAATGAGAGCACTTCCTGCCAATGCCATCTTAAATCAGTTCCAGCCTGCAGCGGGTGGCTACTTTGTGCCAGCAGTCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621-'10-14,'10-13,11-14=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=0.000 C2=0.141
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(21.4=32.6),PF0227010=TFIIF_beta=FE(26.8=100)
A:
PF0227010=TFIIF_beta=FE(18.5=100),PF0007617=RRM_1=PU(40.6=87.5)
C2:
PF0227010=TFIIF_beta=PD(3.6=6.6),PF0007617=RRM_1=PD(56.5=42.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAGGCCGTGCACAAAAGAA
R:
TCAGTGACTGCTTTGGTTGCT
Band lengths:
174-270
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)