MmuINT1032244 @ mm10
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48469157-48470591:+
Coord C1 exon
chr6:48469157-48469220
Coord A exon
chr6:48469221-48470426
Coord C2 exon
chr6:48470427-48470591
Length
1206 bp
Sequences
Splice sites
5' ss Seq
TGTGCACAG
5' ss Score
-17.35
3' ss Seq
TCCATCTTCAGGGGAGACAGCAG
3' ss Score
-12.3
Exon sequences
Seq C1 exon
GGTCTGCCAGACACAGAGCCCCAGCAGCCCAAGCAGGAATCATCCTTGCCTGGTGCAGGTGTGT
Seq A exon
GCACAGACTCCAAACCCCTCCCCATGTCTCCGCCCTTGTCATCCCTTCCCCTTGTAGAGCAAAGGCAGTTCCTCCTAATTCTCCTAAGGCCAGAGAGCTACAGGGTCAAGAGACACCACTCACCAGGCACATGGCCAGGTTCTGACTTGCTCAGCCTACTAGACCTAGGATGTCAGATCTGAGGGGACCAAGACAGTTTGTAGGGCCATGCAATTGTCTCCATGGCTGCAGCCCCCAGCCCCTATTCTGAACCAGCCTCCGTTGAGATACCACCTGGCCCCATCTTTGTCTTTCTGCTCACCTAACCATGATGTTAGGTGTTATTCTAAAGTGTTTGGTGGCAATAAATGCCCTAAGTAGGCAGGAGAGTAGGGAGGGTGCCTATCTTAGGATACTTCTAAACAGTAAAAGCGATTCCCTACCCAGCATGTACCAGTTTCCCCTTGGCCACTGATCAGCCACCTGTAACATGGTCCCAATGTGGGGTGGGATGGGTGTGGATCACCAAAGGAGCAAGCTATACTGACTGCCCTGGGAGATATTGGTCAAACCACCCCAACCCTGTGCCTCAGTTTCCTCACATATGAGACTAGGAGGCCCTTCCCTATGCATTCTAGAAGTTGTTCAACAGTCTGGCTGCACCATGTCTTTGTGTCTTTTGTAGGAAAAAAAAAATCACATCTACAACATGTGGGCTCAAGGGATGAATCCTAGTCTCATTCTAAATCTGGTTCCAAAAAAAGGCTGTCTTTGAAAATGAATATTTTGGCAGAAAATGCACGTCTGGCTCTCCTTTTCACTACAGTTGTCAGGAAGCTCAAATCAAGTTTGTGTCTTCACATCAGTAGCAATGCCCCCATTCCGAGTCTCAGTCATGTTTGCTCCTTCTGCTGTTATGTTTAAATGGCTCCAGGTCTTTCTCACTTCTTAATACCTTATTTTACAGTGAACTCATACTGGGAAGTTGCTGTGTCTTCGTGCAGCTAGAGTACAGTATTAGATGACGTCTGTTTTTTCCCTTAACTCTCTTCTCATGCTCCTTGGGTGATATAAACCCTTTCTTTTTATCTGAGGAGTCCTGTGATAGCTGTGATTATCCTGCACCATGTGGGAATCAGACTTCTTCAGAGTCTGTCCCACCACCTCTCATAGGACAGGGAGCTGAGGCAATGACGTCTCACTCCCCTCCATCTTCAGGGGAGACAG
Seq C2 exon
CAGGTCTCATCCCTGCTTCTGAGGGTACTCTGCCTGTTTCAGGGCAGCCCATGCAGACACTGTCTGCTACCTCCACCTTCCCTCCTGGTGCCAAGAGCCTACACCCAGGAATGGCAGCTGTGACGGTGCATCCTCCACACTCAGTCACACCAGGAGCTCCTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797:ENSMUST00000169350:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
GTCTGCCAGACACAGAGCC
R:
GAGCTCCTGGTGTGACTGAGT
Band lengths:
222-1428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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