MmuINT0152927 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48466957-48467748:+
Coord C1 exon
chr6:48466957-48467084
Coord A exon
chr6:48467085-48467597
Coord C2 exon
chr6:48467598-48467748
Length
513 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
GCAAGTAATGTCTTCCACAGCCT
3' ss Score
3.86
Exon sequences
Seq C1 exon
GCATCATCGTGCAGAGGGCTGGCTCCTCTGCCGCTTATGTCTCCACTTTGTCACTCCAGTTTAGCAGCGACAATCTACAGTGGCACAACTATGTCAACTCTCTGTCTAGTACCCTGTCTCCACCCAAG
Seq A exon
GTACTGAGACCTCCAGTGCCCTGGGCCAGGTGGCCCAACAAACCCCTTTGTGGATGCCACAGCCATTGTCCCCAAGGCACTTTTATTCCCCTGGGTGACAGTCCTTGCTTTAGATGTCTGTGGAACACCTACTAACTAGCAGAGACTATACTCAGTAGAGTTGAGAGTCCAGGGATATCGGAAAACACCAAAGTCGCTTAGCATCTTGCACGTGACCCTCTGCCAGCTTGTGAGGGGGCAGGATGGGACCACAGTCAGTTCACAAAGGCCCTGGAAGCACGGGTCTCTGCAGCAGCCTCTGCACAGCACTATTCCTTTAGGGGTGAGCATTCTTCCCAGGAACACAGGCCCCTGCAGCCGTAGGACTCAGTCCACTCAGGAGAGCACCTGCTTTATGTGGGAGAAACATCCATGCCATGAGGGTTGGGGGACTCAGGAGGGACATCAAAGCAGAGTTACAATGGCAGCTTGAGCAAGAGGTGGTACTCGGGCAGCAAGTAATGTCTTCCACAG
Seq C2 exon
CCTTCCCCGGAGAGCTCAAACCATATGGCCCCTGAGGTATGGACATTTGACCAGATGGTACAGGCAAGGTACATCCGGGTGTGGCCACACAGTGGCCACCTCAGAGACAACAACCAGCACGATATCTTCCTGTGGGTGGAGCTACTGGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.163 A=NA C2=0.271
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(34.1=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(38.2=92.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCATCGTGCAGAGGGCTG
R:
AGCCCAGTAGCTCCACCC
Band lengths:
278-791
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