HsaINT0085431 @ hg19
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]
Coordinates
chr19:6420084-6420482:-
Coord C1 exon
chr19:6420433-6420482
Coord A exon
chr19:6420156-6420432
Coord C2 exon
chr19:6420084-6420155
Length
277 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
CTCCTTCTTTCTCCATCCAGTCA
3' ss Score
9.14
Exon sequences
Seq C1 exon
GACTTCAATGACAGAAGAGTACAGGGTCCCAGACGGCATGGTGGGCCTGA
Seq A exon
GTGAGTGTGGGTCACCTTGGGTGGGGAGGCCCACTCTTCCCCAGGAGGAAGTGTCCTGTGAGCTCCTGCCAGCCCAGAAGCCCTGGTCTGAGAGGGCTCCTATGTGCTGTTCTCATTTGTCCCTCCTTCGTCCCCTCTGGGCAGAGGACAGGAGCTCTCTAGAGGACTGCTGCCCTCCTGAACGTCAGAGGGGCTGGGGCCCCGGCCACACAGTCTCCTGAGGCCTGGGCTCCCTTCCCTCATCACGCTTTGCTTTTCTCCTTCTTTCTCCATCCAG
Seq C2 exon
TCATTGGCAGAGGAGGTGAACAAATTAACAAAATCCAACAGGATTCAGGCTGCAAAGTACAGATTTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247-KHSRP:NM_003685:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.833 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(20.6=72.2)
A:
NA
C2:
PF0001324=KH_1=FE(38.1=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)