HsaINT0085426 @ hg19
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]
Coordinates
chr19:6415152-6415468:-
Coord C1 exon
chr19:6415391-6415468
Coord A exon
chr19:6415313-6415390
Coord C2 exon
chr19:6415152-6415312
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTGCCTTTGTCCACCCACAGCGC
3' ss Score
9.96
Exon sequences
Seq C1 exon
GCCAGCAGCCCCAGCAGCCCGGAGCACCCCCACAGCAGGACTACACGAAGGCTTGGGAGGAGTACTACAAGAAGCAAG
Seq A exon
GTGAGTGGCCACCATGCGGGGACAGGGGCAGGGGCAGCCCTCACCCACAGCCTCTCACCTGCCTTTGTCCACCCACAG
Seq C2 exon
CGCAAGTGGCCACCGGAGGGGGTCCAGGAGCTCCCCCAGGCTCCCAGCCAGACTACAGTGCCGCCTGGGCGGAATATTACAGACAGCAGGCCGCTTACTACGGACAGACCCCAGGTCCTGGCGGCCCCCAGCCGCCGCCCACGCAGCAGGGACAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247-KHSRP:NM_003685:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.926 A=NA C2=0.897
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(17.9=19.2),PF090055=DUF1897=PU(91.3=80.8)
A:
NA
C2:
PF090055=DUF1897=PD(14.8=7.4),PF090055=DUF1897=WD(100=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCCCACAGCAGGACTA
R:
TGGGGTCTGTCCGTAGTAAGC
Band lengths:
167-245
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)