MmuINT0086526 @ mm9
Intron Retention
Gene
ENSMUSG00000007670 | Khsrp
Description
KH-type splicing regulatory protein [Source:MGI Symbol;Acc:MGI:1336214]
Coordinates
chr17:57164212-57164501:-
Coord C1 exon
chr17:57164403-57164501
Coord A exon
chr17:57164315-57164402
Coord C2 exon
chr17:57164212-57164314
Length
88 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TATGCCTCCCGTTCTCCTAGGTG
3' ss Score
10.86
Exon sequences
Seq C1 exon
CAAGCCTGTGAGATGGTGATGGACATCCTGCGAGAACGTGACCAAGGTGGCTTTGGGGACCGCAATGAATACGGATCTCGAGTTGGTGGAGGCATTGAT
Seq A exon
GTGAGTGCAAGCGCTTCGGGGAGGTGGGCAACTGGGAGCAGGGCAGAACTAGGGGCACGCCACGTAACTATGCCTCCCGTTCTCCTAG
Seq C2 exon
GTGCCTGTACCCAGGCATTCAGTTGGTGTAGTCATTGGCCGGAGTGGAGAGATGATCAAGAAGATCCAGAATGATGCCGGTGTGCGCATCCAGTTCAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007670-Khsrp:NM_010613:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.343
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=15.2),PF0001324=KH_1=PU(3.2=6.1)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=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:
AGCCTGTGAGATGGTGATGGA
R:
CACACCGGCATCATTCTGGAT
Band lengths:
181-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: