HsaINT0119430 @ hg38
Intron Retention
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein cytoplasmic 4 [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr1:39563614-39563922:-
Coord C1 exon
chr1:39563836-39563922
Coord A exon
chr1:39563742-39563835
Coord C2 exon
chr1:39563614-39563741
Length
94 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGTA
5' ss Score
-1.91
3' ss Seq
GTATTTGTTCTTTCCCTAAGGCG
3' ss Score
7.22
Exon sequences
Seq C1 exon
GGTCTGAGTGCCCGGACCGCTTGGCTATGGACTTTGGTGGGGCTGGTGCCGCCCAGCAAGGGCTGACTGACAGCTGCCAGTCTGGAG
Seq A exon
GTGGTATTGGATGCACACAGAAGGGGGAAAGATGGGATTTGACGGGTCTTTGCCCAGACTGATGGGCTTTAATTGTATTTGTTCTTTCCCTAAG
Seq C2 exon
GCGTTCCCACAGCTGTGCAGAACTTAGCGCCACGCGCTGCTGTTGCTGCTGCTGCTCCCCGGGCTGTTGCCCCCTACAAATACGCCTCCAGTGTCCGCAGCCCTCATCCTGCCATACAGCCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621:ENST00000372857:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.578
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTTGGCTATGGACTTTGGT
R:
CGGACACTGGAGGCGTATTTG
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
- Pre-implantation embryo development