HsaINT0085419 @ hg19
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]
Coordinates
chr19:6416998-6417852:-
Coord C1 exon
chr19:6417750-6417852
Coord A exon
chr19:6417099-6417749
Coord C2 exon
chr19:6416998-6417098
Length
651 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TCTCTCGGTGCTGGCCTCAGATG
3' ss Score
7.32
Exon sequences
Seq C1 exon
GTGCCAGTGCCCAGGCATTCTGTTGGCGTGGTCATTGGCCGGAGTGGAGAGATGATCAAGAAGATCCAGAATGATGCTGGCGTGCGGATACAGTTCAAGCAAG
Seq A exon
GTCAGGGCCTGGCCCACCCTGCCCCTGGCCAGTGCACCCCCACCCTCTTTGGGAGGCAGGCTCTGAGGGAGCTGGGCACCGTGGTCAGCCAGGTGGCCTCCATAGCACCTCACGGCTCTTAGTCCAGCCGTCAGAACATGGCCAGTCCCTTCTCTTCTCTGGGACAGACACATGAGGGCTTTCCACATCCAGGGGGAACGTGTGTTCCTATCCCTATCAGATCTCCTCTTCCTCCCCCTACGATGGAGCCTATCCTGACAGGACAGCCCTGGGTGCCCCGCAGGCTGGATCAGGGCACTCCACCTCAGCTCTGGGCTCTTGCCAGTCCTCAGGCAGTCTCTGAGCTGCCTGCCGTGGGGAGAAGGGCCCCTCTGGCTTTTCAGAGATTTATTGTTCTGTAAAATCTCTCAGTGCTGGGGGTGCTGTGTGCTGGAAGAAGCTTGAGCCACCTCCTGGCTTGGCCGTGGGTTTCCTTCTCTGGGAATGTGGGCCGCCTCCCCCTCAATCCCTGAGCGAGTGGAGGCTGGGAGCGGCGCAGCGCGTCTGAGATCTCAGGCCGGCGTGGTGTCTGCGCTGGAGGCGGCGTTGCAGGGCTCTGGGGTGGGCTCTTCTTTTAAACTTGTGTCTCTGCTCTCTCGGTGCTGGCCTCAG
Seq C2 exon
ATGACGGGACAGGGCCCGAGAAGATTGCTCATATAATGGGGCCCCCAGACAGGTGCGAGCACGCAGCCCGGATCATCAACGACCTCCTCCAGAGCCTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247-KHSRP:NM_003685:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.687
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
GCATTCTGTTGGCGTGGTCAT
R:
CCTGAGGCTCTGGAGGAGG
Band lengths:
190-841
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)