MmuINT0086533 @ mm10
Intron Retention
Gene
ENSMUSG00000007670 | Khsrp
Description
KH-type splicing regulatory protein [Source:MGI Symbol;Acc:MGI:1336214]
Coordinates
chr17:57021058-57023136:-
Coord C1 exon
chr17:57023059-57023136
Coord A exon
chr17:57022971-57023058
Coord C2 exon
chr17:57021058-57022970
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
GATCCTCTCTGTGCCCACAGCAC
3' ss Score
9.84
Exon sequences
Seq C1 exon
GCCAGCAGCCCCAGCAGCCTGGGGCACCCCCACAGCAGGACTACACCAAGGCCTGGGAGGAGTACTACAAGAAGCAAG
Seq A exon
GTAAGCTGCTGGGTAGGGACGGGGTGGGGCTGCTGGGTCAGGGGTAGGTTCTTCTGCCAGCCACTCATGATCCTCTCTGTGCCCACAG
Seq C2 exon
CACAAGTGGCCACTGGTGGGGGTCCTGGAGCACCCCCTGGCTCCCAGCCTGATTACAGTGCTGCCTGGGCTGAGTATTACAGACAGCAGGCTGCTTACTACGGACAGACCCCAGGCCCTGGTGGCCCACAGCCACCTCCCACCCAGCAGGGACAGCAGCAGGCAAGTGGGAACTGCCACCCTCCTCCTCCTCCTTTCTCCTTCCAACCCCCGGCCACCGTCCATCCTGCCTTAGTGGGTAGCGCCGGAAACCCTTTCCCCTGCGGGGTGTGCCCTTGATGCCAGCCTCGGGCTCGTGGCCAGAGTCTCCCAGAGCCTCGCAGCCCCGCCGCTGGGAAGCGCTCGATGGGTGCAGAGGCTTACGGAAGAGGCTCCTCCAGTAGCCACTGTCGTGCGACGTTGTCGGGTGCTGGGGGCACCGGCCGCAAAGGTGGAACTCTGAACTGCTGGGGTGTCCCGGGTGGGGGCAGGATGTGGGGACTGTGCTGGGTGCCACACCGGTTGCTGAACCTGCTCGCTCAAAATCTGGCCACTTGGGAAGAAAATGTCTATTTTTTTCCCCCTTCTCAGCATCACTATTTTGGGTTTTGTTCTTTTTTTATTCTTTTTTCATGTCCAAGTAACTGTGTGTTGCAGGCGGCCCTGGCTCTGCTGGGATGAAGGGGAGCCCACTGAGGGGACTGGGCCCTCCCTGCCTGGCAAGGCCATCTCTTGTGTGCTTGCCTCTGTGTCCCGGTCTTGTCTGTGAAGTGGGCATGACGATCGTTGCCACCTTCCAACCTACCTCACAGGGGTGTTGTGGGGACACCATGATCTGAATGTTGTGACGCCGAGCTGCCGCCTCCCTCCTCTGTCCCCCTCCCCCCTGGCAACTTCTCCCCTGTGTGCCCTCTTCCACACCTCTGGCTTCTGCTGCAGACTTCTCCTCCTCTTCCTCTTCCTCCTGCTTCTCCTCCACCAAGGAGCAGTCTGGCCAGTGGAGTCCCCAAGACAGACAGTCACGGCCCCCTGCTTAGCCTGTGGGGGCTTGGGCCCGGCCTCTTGGCCCACTGCCTGGAGTTGTAGCCTCCTGTAGCCAGGCCGCCCTCCTGCCATGACCATTCCTGTCTCTCCCTCTCTGCAGGCAAATGAAGCAAATGGATATGAACTTCATCTGTGAAAATATTTTTTTTTCTCCATTTTTGTTCCATTTGGGGGCTTCTTTTATTGGTTTCTATATTTGATTGGTTTGGCGAGAGAGCAGCGGCTGCCTAGGGGCTGGGGATCCCCTTCATGCCGAGGCGCTCCCTCTCTCACTCTGTGTGTCTCATCTTTTTCCTTTCCAAAATTGGGATCCTTCATGTTGAGCCAGCCTTAGAAAATAGCAAGAATTTAACCTCTGCCCCGCCCCCCAAAAAAGTTTAAAAATTAAATCACAAAGAGCAGAACAAAACCTATAAAATGATATATGTATAGAAATATATAAATCTCTATTCCCCAGCCTCCGAGCCCACCCTCTGAGGGAAGCGGTTCACTATCTCCCTACTGTCTGGGGCCCTATTCTTGTTTTTAATAAACTTTTTAAAAGGAAAGAAACAGTCACTATTGCTATCTCTTTTTTTCTTTTTTTTTTCTTTTTCTTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTAGTTAGAGTTGGAACATTCCTTGGACCAGGTGTGGGTTTCACAGGCCCCTCCTGCCCTGCCCATCTCTCTCTGTCTCTCTTTCTCCCTGCCCCCGCTCTTCCCTGGCTCCTCCTTATACCCACCCCAACCCCAGGACTGGCCTGGTACGTTGTCATCTGTTGAAGATGAGATAAACTGAGAAAAAAATGAGAACAAAACAAAAAAATTGTATGGCAGTTTTTACTTTTTATCGCTCGTTTTTAACTTCACAAATAAATGGTATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007670:ENSMUST00000007814:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.804
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(18.5=18.5)
A:
NA
C2:
PF090055=DUF1897=WD(100=32.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCCCACAGCAGGACTA
R:
TGGGGTCTGTCCGTAGTAAGC
Band lengths:
167-255
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