MmuINT0086532 @ mm9
Intron Retention
Gene
ENSMUSG00000007670 | Khsrp
Description
KH-type splicing regulatory protein [Source:MGI Symbol;Acc:MGI:1336214]
Coordinates
chr17:57162482-57162836:-
Coord C1 exon
chr17:57162636-57162836
Coord A exon
chr17:57162560-57162635
Coord C2 exon
chr17:57162482-57162559
Length
76 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
CACCCTACCCTGTTCCTCAGGCC
3' ss Score
7.78
Exon sequences
Seq C1 exon
ACAAAGCTGCTGCAGCGGCTACAGATCCTAATGCTGCCTGGGCTGCCTACTACTCTCACTACTACCAGCAACCCCCAGGTCCTGTGCCAGGCCCTGCCCCAGCCCCTGCAGCCCCACCTGCACAGGGGGAACCCCCCCAGCCTCCACCCACTGGCCAATCAGACTACACCAAGGCTTGGGAAGAGTATTACAAAAAAATTG
Seq A exon
GTAAGTTCAGTGCTGGGAAGCAGTGGGGTTTTCTGCATAGGGTCCAACTACCCTGACACCCTACCCTGTTCCTCAG
Seq C2 exon
GCCAGCAGCCCCAGCAGCCTGGGGCACCCCCACAGCAGGACTACACCAAGGCCTGGGAGGAGTACTACAAGAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007670-Khsrp:NM_010613:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.793 A=NA C2=0.944
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(77.8=30.9)
A:
NA
C2:
PF090055=DUF1897=PD(18.5=18.5)
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:
CCCCAGGTCCTGTGCCAG
R:
CTTGGTGTAGTCCTGCTGTGG
Band lengths:
179-255
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: