MmuINT0086537 @ mm10
Intron Retention
Gene
ENSMUSG00000007670 | Khsrp
Description
KH-type splicing regulatory protein [Source:MGI Symbol;Acc:MGI:1336214]
Coordinates
chr17:57026843-57027098:-
Coord C1 exon
chr17:57027049-57027098
Coord A exon
chr17:57026915-57027048
Coord C2 exon
chr17:57026843-57026914
Length
134 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TTTTTTTTCTTTCTGCTCAGTTA
3' ss Score
8.99
Exon sequences
Seq C1 exon
GACCTCAATGACAGAAGAGTATAGGGTTCCGGATGGCATGGTGGGCTTGA
Seq A exon
GTGAGTGTGGGTCCCCTTGATGAGGGTGGGGGCCTAAGAGCCTCTGGCCAAGGGGGTCTCCAAGGGACTACTGGTGGGGAGCCTTGGTCTGGGTGCCCTTATTCAGCCTTCACCTTTTTTTTCTTTCTGCTCAG
Seq C2 exon
TTATTGGCAGAGGTGGTGAGCAGATAAACAAAATCCAGCAGGACTCAGGCTGCAAAGTTCAGATCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007670:ENSMUST00000007814:5
Average complexity
IR
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCAATGACAGAAGAGTATAGGG
R:
CTGGTGAGATCTGAACTTTGCA
Band lengths:
122-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types