HsaINT0085423 @ hg38
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:HGNC:6316]
Coordinates
chr19:6415808-6416407:-
Coord C1 exon
chr19:6416298-6416407
Coord A exon
chr19:6415897-6416297
Coord C2 exon
chr19:6415808-6415896
Length
401 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CCCTTTCTTCTCTCCTGCAGTGC
3' ss Score
11.85
Exon sequences
Seq C1 exon
GGTCCTCTCTGCCCAGTTGGACCAGGCCCAGGTGGCCCAGGCCCTGCTGGCCCAATGGGGCCCTTCAATCCTGGGCCCTTCAACCAGGGGCCACCCGGGGCTCCCCCACA
Seq A exon
GTGAGTATCCTCTGCCTCCTGGGTTTTGAGGCCGGGGGCTTACTGAGCTGGCAAGAAGAATAGCAGACCCCATTTCCCTTTCCCTAGAAGTGCAGGCGGGGGGCCTCATCCAGCCCATTTTTGTGGATACCATCAACAGGCCCTCTCCTGTCTACTGGTAGAGCATGTGCCTTTCAGCATCCCTCTGTGCACGTGCAAGTTTCGCGGCTTCTTTCATGTCCTCAAGCTGACGCTGCGCGTCCTTCGAGTTGCTTCTTGTCTAGGCCTTTCCCAGGCGCCCCGTTGAGCCTGGTGGTCTGGGTCTCTGGCGCCTCCCCACTGAAAAACATCCCCACCCCAGGTGGTCCGGCTGCGGCCACCCCCGCACCACTGCTCAAGCATCCCTTTCTTCTCTCCTGCAG
Seq C2 exon
TGCCGGGGGGCCCCCTCCTCACCAGTACCCACCCCAGGGCTGGGGCAATACCTACCCCCAGTGGCAGCCGCCTGCTCCTCATGACCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247:ENST00000398148:15
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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCCTCTCTGCCCAGTTGGA
R:
TTGGGTCATGAGGAGCAGGC
Band lengths:
198-599
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