MmuINT0152896 @ mm9
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48403975-48404858:+
Coord C1 exon
chr6:48403975-48404092
Coord A exon
chr6:48404093-48404682
Coord C2 exon
chr6:48404683-48404858
Length
590 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
TGGTCAGGCTTCTCTTCCAGGAG
3' ss Score
7.07
Exon sequences
Seq C1 exon
GACTCTGTGAAAGGCCAGCTGCTGGTTGTGTTGGAACATGGGGCCTGTGACACTGGGAGCTGCCTCCATGCCCTCTCTGTCTTCCTGGGGAACACCCACATTCAGCTCAGATACTCAG
Seq A exon
GTAGCTGCAGCTCTGCCTCCTTGGCTAGCGTGGGACCTTTATTCTCTGCAGAGTAGACAACTCTGCAGTCTACTTCTTTGGGGTACCAACTGGGCCTGCTGTCCATTGTCCTTACTCAGCATACTCAGGCCTACCCAGTGCCTGCCCTCCACACACCCCTCTTGGATTCCAAAAACTGTCCCTTCTAGATTCCTGCACCTGCACTTACCACCCAGATCACCTCATGTCCCCAGCCCAGAAGCAGACACAGTTATAAGAGTTGGAAAGGCCTTGGGTATGAGCAGAAGGCTAACCCCTCTCAGCAACTATCCCTCCAACTCTGCCAAGCCCAGGCCTGCTGCCAGCTCTCTTTACCCAACTCCCCCCATATACTGACCACACAAACAGAGGGATATAAAAAAATGCATGGTGATGTGGTTCTTGAGCTATGGAAGGGTGGTCTCTGGTAGGACAGGTGTCCTCACAGGGATCACACTAGTTGTTCCCTCATCCCACACTAACACAGCCCCCTCTCCATTTTCTTGCCAAGTTCCTCTTGAAGCCCCTTCCTTCCACAGACTCCCCATTACATGGTCAGGCTTCTCTTCCAG
Seq C2 exon
GAGCTGTGCTGGTAGACGGGGAGGATGTAGACCTGCCCTGGATTGGTGTTGAGGGCTTCAATATTTCCTGGGCCTCTTCTACATTCTTGCTATTGCACTGGCCTGGGGCCTGGGTTCTCTGGGGAGTGGCTGAGCCTGCGGCATACATCACGCTGGACCCCCGTCATGCCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797-Sspo:NM_173428:13
Average complexity
IR-S
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:
PF0009420=VWD=FE(25.8=100)
A:
NA
C2:
PF0009420=VWD=FE(38.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTCTGTGAAAGGCCAGCTG
R:
CTGGTAGGCATGACGGGGG
Band lengths:
294-884
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: