MmuINT0152902 @ mm9
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48407269-48407827:+
Coord C1 exon
chr6:48407269-48407363
Coord A exon
chr6:48407364-48407570
Coord C2 exon
chr6:48407571-48407827
Length
207 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGC
5' ss Score
5.91
3' ss Seq
GTCCTGTCTCTTGCCCACAGTGT
3' ss Score
10.68
Exon sequences
Seq C1 exon
GACAAGCACTGTGTGTCTCCTGATCTTTGTCCCTGTCGCCACAACGGGCAATGGTACCCACCCAATGCCACCATCCAGGAAGACTGCAACATTTG
Seq A exon
GTATGCTCAGTCCCATCACCTGTTACCATATGACCTTGTGACCCCTGACTCCCCAGGCCATCATACCTCTTCACTACAAGGGGTTAAAATGGCTGGGGCAGCACATGCAGAGTGGCCTGTACCCTGGGGACCCTCAAGAATTCTTCACACTCAGGCAGGGTATGTCTGGACTATTGTTGATGGCTCTGTCCTGTCTCTTGCCCACAG
Seq C2 exon
TGTGTGCCAGGGCCAGCGCTGGCACTGTACAGGTCAGCGGTGCAGTGGATGGTGCCAGGCGTCCGGCGCACCCCACTATGTGACGTTCGATGGGCTGGTCTTTACCTTTCCTGGGGCCTGCGAGTACCTGCTGGTGAGAGAGGCTGGTGGCCGCTTCAGTGTCTCCGTCCAGAACTTGCCTTGTGGGGCCAGTGGCCTCACATGTACCAAGGCGTTGGTTGTGCGTCTGGACAGCACTGTTGTGCACATGCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797-Sspo:NM_173428:19
Average complexity
IR-S
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:
PF0182612=TIL=PD(17.3=28.1),PF0009313=VWC=PU(38.5=62.5)
A:
NA
C2:
PF0009313=VWC=PD(59.6=35.6),PF0009420=VWD=PU(45.3=78.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGATCTTTGTCCCTGTCGCC
R:
CCAACGCCTTGGTACATGTGA
Band lengths:
294-501
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: