MmuINT0152953 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48480959-48481316:+
Coord C1 exon
chr6:48480959-48481129
Coord A exon
chr6:48481130-48481236
Coord C2 exon
chr6:48481237-48481316
Length
107 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
AGACCACTCTGCCCTCCCAGTGA
3' ss Score
5.42
Exon sequences
Seq C1 exon
AAGCAGGGGGCTGGAGTCCTTGGAGCCCCTGGTCTGGCTGTAGTCGGAGCTGTGGAGGAGGCCTGCGGAGCCGGACCCGAGCCTGTGACCAGCCGTCACCCCAGGGCCTGGGGGATTTTTGTGAGGGACCTCAGGCCCAGGGGGAGGCCTGCCAGGCTCAGCCATGCCCAG
Seq A exon
GTACCTGCTGAGGATGGGGTGGTCCCAGGAACAAAAAAAGCTGGGAAGTAGTCCTGGGAGGCAGGCCAAGGTCTCCAACCTACTCTCAGACCACTCTGCCCTCCCAG
Seq C2 exon
TGACCAACTGCAGTGCCATGGAAGGGGCAGAGTACAGCCCCTGTGGCCCTCCTTGTCCCCGCTCCTGTGATGACCTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:65
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
NA
C2:
PF0182612=TIL=PU(41.8=85.2)
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:
GGGGCTGGAGTCCTTGGAG
R:
CACAAGGTCATCACAGGAGCG
Band lengths:
245-352
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