MmuINT0152895 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48452935-48454093:+
Coord C1 exon
chr6:48452935-48453079
Coord A exon
chr6:48453080-48453975
Coord C2 exon
chr6:48453976-48454093
Length
896 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTCATCCTGTCTACCCTAGGAC
3' ss Score
10.66
Exon sequences
Seq C1 exon
TGTTTGCCAGGATGGTCGCTGGCACTGTGCCCAGGCCCTGTGCCCTGCTGAGTGTGCAGTGGGTGGTGATGGACATTACTTCACCTTTGATGGGCGGAGCTTCTTCTTCAGGGGCACTCCCGGCTGCCACTACAGCCTGGTGCAG
Seq A exon
GTGAGCAGACAGCCTGTTTCAGGAGGGGGATTTTGTTAGAGTGGGGGCCTCACATGGGAGTCCTGAGGGAGATGACTGTAAACAAGTCATTAAAGTAGACCCCTGCACTCCCCACACCATCCTTTCTAGTCCCCACCTCTAACTGGCCACAGAACTAAACCCATCTTCATAGTCCCTTATACAGACAGATGTAACACACTGGACTTGTCACAGGAGAAAGAAAGGACCCTCCTCAATAACGTTGAAGCTTCCCAACTCAGCACACATCATTTTTTTTCCATCCTTCTGAGGACTGATCAGTGATTTCTCAATTTTAGTGTTGGACCACTGTAGTCTCTTTATTCTCCCTCCCCCTCCCCCCTTGCTGGGTGACAGTAGGGTGAGAAAATCAGGGGAGAGCAGGGCCAACAAGCTGGTGTGTTATCCAGGGCAGCTGTCTCCCCATCATCTGACCAAAGATGCATGAGGTATTCACACACAGATGGAGGCTACATGCCAGCACAGGCTCATGCACACACACACACACACACACACACACACACCCCACACACAGTCATGCTGTGTATGTAGATTCAATAAAAGTATATGCATATATGGATATGTATACATAAAGGAACACTCATGGGGTGGAAGAGAAGTATGGGTGTGTATGAGCGCATACACACTCTCTCTCTCTGTGTCTCTCTCTCTCTCACACACACACACACCCCACACACAAACCTCCTCCCCATATACACTCATGTCCATTCGCCTATGTCAGTCCCTGGTGAGCTAAGCACATCTTGTCTCACAGAATCCGTCTGGTTAGCACCTGTGTAGGGTAGGAGCTGACATTACCTGAGGCCTCCTCATGGATCCTCCACACACTCTTACCATCCTCATCCTGTCTACCCTAG
Seq C2 exon
GACTCTGTGAAAGGCCAGCTGCTGGTTGTGTTGGAACATGGGGCCTGTGACACTGGGAGCTGCCTCCATGCCCTCTCTGTCTTCCTGGGGAACACCCACATTCAGCTCAGATACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:12
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:
PF0009313=VWC=PD(58.0=59.2),PF053758=Pacifastin_I=PD(59.4=38.8),PF0009420=VWD=PU(19.9=61.2)
A:
NA
C2:
PF0009420=VWD=FE(25.8=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:
TGTTTGCCAGGATGGTCGC
R:
TGAGTATCTGAGCTGAATGTGGG
Band lengths:
262-1158
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