HsaINT0085425 @ hg19
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]
Coordinates
chr19:6415391-6415745:-
Coord C1 exon
chr19:6415545-6415745
Coord A exon
chr19:6415469-6415544
Coord C2 exon
chr19:6415391-6415468
Length
76 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CTGTCTCGGCGCCCGCACAGGCC
3' ss Score
5.95
Exon sequences
Seq C1 exon
GCAAAGCAGCTGCAGCGGCCGCGGACCCCAACGCCGCGTGGGCCGCCTACTACTCACACTACTACCAGCAGCCCCCGGGCCCCGTCCCCGGCCCCGCACCGGCCCCTGCGGCCCCACCGGCTCAGGGTGAGCCCCCTCAGCCCCCACCCACCGGCCAGTCGGACTACACTAAGGCCTGGGAAGAGTATTACAAAAAGATCG
Seq A exon
GTGAGTCTGCAGGGTGGCGGGGGGGCTCCAGCCCTGCCGGGGGAGTGGTTTCTGACCTGTCTCGGCGCCCGCACAG
Seq C2 exon
GCCAGCAGCCCCAGCAGCCCGGAGCACCCCCACAGCAGGACTACACGAAGGCTTGGGAGGAGTACTACAAGAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247-KHSRP:NM_003685:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.831 A=NA C2=0.926
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(77.8=30.9)
A:
NA
C2:
PF090055=DUF1897=PD(17.9=19.2),PF090055=DUF1897=PU(91.3=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTACTACCAGCAGCCCCC
R:
CTGCTGTGGGGGTGCTCC
Band lengths:
183-259
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)