MmuINT1032247 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48451062-48451417:+
Coord C1 exon
chr6:48451062-48451220
Coord A exon
chr6:48451221-48451337
Coord C2 exon
chr6:48451338-48451417
Length
117 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
TTGGCTTCAACTTTTCTCAGATG
3' ss Score
6.4
Exon sequences
Seq C1 exon
GGATGAGCCTGCAGTGGCAGGGAGATTGGCTGGTGCTCTCTGGGGGCCTGGGGGTGGTTGTGAGACTGGACAGGTCCAGTTCCATCTCCATCTCCGTGGACCATGAGTTCTGGGGACGGACACAGGGCCTCTGTGGGCTTTACAATGGCAGGCCAGAGG
Seq A exon
GTATGTGAGGTGTCTGGAGGAGGGATGGAGGGAGGGAGGGCAGGAGAGAGGGAGGGGGAAGGAAGGGAGGGAAGAGACGTAGGACCCAGGTTTAGCTTTGGCTTCAACTTTTCTCAG
Seq C2 exon
ATGACTTTGTGGAGCCGGGAGGGGGATTGGCTACGCTAGCTGCTACCTTTGGGAATTCATGGAAGCTCCCTGGCTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:7
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=0.037
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(35.8=100)
A:
NA
C2:
PF0009420=VWD=PD(11.4=29.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGGCAGGGAGATTGGCT
R:
CAGAGCCAGGGAGCTTCCAT
Band lengths:
226-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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