MmuINT0086527 @ mm10
Intron Retention
Gene
ENSMUSG00000007670 | Khsrp
Description
KH-type splicing regulatory protein [Source:MGI Symbol;Acc:MGI:1336214]
Coordinates
chr17:57024247-57024891:-
Coord C1 exon
chr17:57024789-57024891
Coord A exon
chr17:57024493-57024788
Coord C2 exon
chr17:57024247-57024492
Length
296 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTTTCTTGGTGTGGATTCAGATG
3' ss Score
5.47
Exon sequences
Seq C1 exon
GTGCCTGTACCCAGGCATTCAGTTGGTGTAGTCATTGGCCGGAGTGGAGAGATGATCAAGAAGATCCAGAATGATGCCGGTGTGCGCATCCAGTTCAAGCAAG
Seq A exon
GTGAGGGGTGGGCGCCACCTTGGTTTAGGCATTGGTGCTGCCCCCCAGCTCTTGCAGGCCCTCAGTGCCTGCAGAGGTTTGGTACCCAGTTTTTTTCAGTTGCTTTTCTGGAATTAGTTTCTCTAAGATTGCTTAGTTAGTTCTATGGACTTGGAAGGTGGGAGAATGTTCAAGCTGTTACGCTGAGTATGGACAAGCTTCCTGCTTGTTCACATGGAGTCAGCAAATTCGAGGAACTGATCTCTGAGGGCACTGGGTTTGCTTTGAGTAATATCTGTTTCTTGGTGTGGATTCAG
Seq C2 exon
ATGATGGGACCGGCCCTGAGAAGATTGCTCACATCATGGGGCCTCCAGATCGGTGTGAACACGCAGCCCGGATCATCAATGACCTCCTCCAGAGTCTTCGGAGTGGGCCCCCGGGTCCTCCAGGGGCCCCTGGCATGCCCCCTGGGGGCAGGGGCCGGGGCCGAGGCCAAGGCAACTGGGGCCCTCCTGGAGGGGAGATGACTTTCTCCATTCCTACCCATAAGTGTGGGCTGGTCATTGGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007670:ENSMUST00000007814:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.343 A=NA C2=0.807
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=30.1),PF0001324=KH_1=PU(25.8=20.5)
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:
GCCGGAGTGGAGAGATGATCA
R:
CCAATGACCAGCCCACACTTA
Band lengths:
307-603
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