HsaINT0085427 @ hg19
Intron Retention
Gene
ENSG00000088247 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]
Coordinates
chr19:6413119-6415312:-
Coord C1 exon
chr19:6415152-6415312
Coord A exon
chr19:6414132-6415151
Coord C2 exon
chr19:6413119-6414131
Length
1020 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
TATCTCTTCCCTCTCCGCAGGCT
3' ss Score
12.38
Exon sequences
Seq C1 exon
CGCAAGTGGCCACCGGAGGGGGTCCAGGAGCTCCCCCAGGCTCCCAGCCAGACTACAGTGCCGCCTGGGCGGAATATTACAGACAGCAGGCCGCTTACTACGGACAGACCCCAGGTCCTGGCGGCCCCCAGCCGCCGCCCACGCAGCAGGGACAGCAGCAG
Seq A exon
GCAAGTGGGAATTGCCACCCTCCTCCTCCTCCTTTCTCCTTCCAACCCCCGGCCACCGTCCATCCTGCCTTAGTGGGTAGCGCCGGAAACCCCTTCCCCTGCGGGGTGTGCCCTTGATGCCTGCAGCGGGGGCCGTGTGGCCGGAGGTCTCCGGGAGTCCCCACGCACCGCCAGGGAAGCATTCGCTGGGTCCAGAGGTTAAACGAAGAGGCCTCCCTGCGCCGGCTGCTTGTTCCTGTGTGCCGCTGTCGTGATGCTGGGGAGCGCTGAGACTCGCAGGCGGGACTTCTGAACTGCTGGGGAGTCGGGGGGCAGGCAGACAGCGCGGACGGTGGGCACCGGCCCGGCCGCCACCACCTCGCTCACAATCTGGCCACTTGGGAAGAAAACGTCTATTTTTTCCCCTTCTCTGCATCACTTTTTTGGTTTTTGTTCTTTTTATTCTTTTATTTTTTAAACCCATGATCTTTTTTCCTGTGTCCAAGTGACTGTGTTGCAGGCGGCCTGGCTCTGGCAGGGACTGGTGGGGACGCGGGGAGCGGCCCAGGCCCCTGCCCCGCCGGGCTCAGCCTCCCATGCGCTCGCGCTTGCCTGTGTCCCGGGCTTGTCTGTGAAGTGGGCGTGAAGATCGTTGCCACCTTCCAACCTACCTCACAGGGGTGTTGTGGGGACACCATGATCTCTGGATTGTTCATGTCGTCGTGCTGCGCCGGGAGCCACCGCCCTCCGGAGACAGGGCAGCTCCCCTACGACCCTAGCGCCTCCGCCCTCCGCGGCCCCTCTCCTCTCTTCCTGCTCTGTCCCTCCTTCTCCATCAGGGAGCAGCGTGACTTCAGCGAGTCCCGCGAGCACCTGGCTAGACAGTTAACAAGCACGTCCTTCCAGCCTGAGCCAGCGCAGGTTTGGGAGGGGGCTTCCTGGCCCCCCCCACGGTGTTCCAGCCCCTCCTCTCTTCCGCCCCCTAGTCTCCCACCCTTCCCTCCCCGTAGTGACCAATTCCTATCTCTTCCCTCTCCGCAG
Seq C2 exon
GCTCAATGAATCGAATGAATGTGAACTTCTTCATCTGTGAAAAATCTTTTTTTTTTCCATTTTGTTCTGTTTGGGGGCTTCTGTTTTGTTTGGCGAGAGAGCGATGGCTGCCGTGGGGAGTACTGGGGAGCCCTCGCGGCAAGCAGGGTGGGGGGGACTTGGGGGCATGCCGGGCCCTCACTCTCTCGCCTGTTCTGTGTCTCACATGCTTTTTCTTTCAAAATTGGGATCCTTCCATGTTGAGCCAGCCAGAGAAGATAGCGAGATCTAAATCTCTGCCAAAAAAAAAAAAAAACTTAAAAATTAAAAACACAAAGAGCAAAGCAGAACTTATAAAATTATATATATATATATTAAAAAGTCTCTATTCTTCACCCCCCAGCCTTCCTGAACCTGCCTCTCTGAGGATAAAGCAATTCATTTTCTCCCACCCTCGGCCCTCTTGTTTTTAAAATAAACTTTTAAAAAGGAAAAAAAAAAGTCACTCTTGCTATTTCTTTTTTTTAGTTAGAGGTGGAACATTCCTTGGACCAGGTGTTGTATTGCAGGACCCCTTCCCCCAGCAGCCAAGCCCCCTCTTCTCTCCCTCCCGCCCTGGCTCAGCTCCCGCGGCCCCGCCCGTCCCCCCTCCCAGGACTGGTCTGTTGTCTTTTCATCTGTTCAAGAGGAGATTGAAACTGAAAACAAAATGAGAACAACAAAAAAAATTGTATGGCAGTTTTTACTTTTTATCGCTCGTTTTTAACTTCACAAATAAATGATAACAAAACCTCCCCGTCTGCGGGTGCTGTCTGTCTCCCCCCCTTTCCTTCCCTCCCTGTAGTTTTGAAGCGGATGTTTGTTCTTTATAGATGTTGTTTAAAAAGCCTGATAATGGTGATTGAAATTTACAAACTTTGTGTTTTTTTTTTTTTAAGAAAAATATAAAATAGTTTTCTTCAGGCTCAATGTGCTTTCCTAACCGTGCCCCCCCCCCTTTTTTTTTTTTGTTAAATAAAGTGCTTTTTGTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088247-KHSRP:NM_003685:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.897 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(14.8=7.4),PF090055=DUF1897=WD(100=55.6)
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATTACAGACAGCAGGCCGC
R:
TCTTCTCTGGCTGGCTCAACA
Band lengths:
346-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)