MmuINT0152982 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48493745-48494188:+
Coord C1 exon
chr6:48493745-48493903
Coord A exon
chr6:48493904-48494071
Coord C2 exon
chr6:48494072-48494188
Length
168 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ACACTTTTACTTCTGGACAGGAG
3' ss Score
6.74
Exon sequences
Seq C1 exon
ACACGTGCCAATGGGGACCTTGGGGACCTTGGAGCCCCTGCCAAATGCCCTGCAGTGGAGGATTCAAGCTGCGCTGGAGAGTGGCAAGAGACACCTCTGCGGGAGAATGCCCTGGACCATGGGCTCAAACAGAAAGCTGCAATATGGGATCTTGCCCAG
Seq A exon
GTAACCAGTATCCCAGCATCCCAAGGGTATGGAGACTGGAACATTGGAAATGGCCCCTGAGGGGGATTGCACCAATCCCCTGCTCTGGTGGTTTAGAGTGGAAGAGAGGGTCTGCTGGGGGTGGGGTGGGCAAGAGTGTCCCCAGTTCACACTTTTACTTCTGGACAG
Seq C2 exon
GAGAGAGTTGTGAGACCAGGGACACGGTGTTTACCCTTGACTGTGCCAACCAGTGTCCTCGCAGCTGTGCTGACCTCTGGGATGGTGTTCAGTGTTTACAGGGACCCTGCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:91
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.0),PF0182612=TIL=PU(18.9=25.9)
A:
NA
C2:
PF0182612=TIL=PU(63.2=90.0)
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:
GGGACCTTGGAGCCCCTG
R:
GGGTCCCTGTAAACACTGAACA
Band lengths:
244-412
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