MmuINT0113590 @ mm10
Intron Retention
Gene
ENSMUSG00000020435 | Osbp2
Description
oxysterol binding protein 2 [Source:MGI Symbol;Acc:MGI:1921559]
Coordinates
chr11:3703731-3705615:-
Coord C1 exon
chr11:3705389-3705615
Coord A exon
chr11:3705208-3705388
Coord C2 exon
chr11:3703731-3705207
Length
181 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCACTGTACCTGTCAAGCAGAGA
3' ss Score
3.24
Exon sequences
Seq C1 exon
GGAGAATGCGGAGAACATGTACTATTTCTCCGAGCTAGCCCTGACCCTCAACGAGCAGGAGGACGGCGTGGCGCCCACCGACAGTCGCCTGCGGCCAGACCAGCGGCTTATGGAGAGGGGACGCTGGGACGAGGCCAACACCGAGAAGCAACGGCTGGAGGAGAAGCAGCGCCTGTCCAGGCGACGGCGGCTGGAGTCATGCACGGCAGGCTGCGGTGGGGAGGAAG
Seq A exon
GTGAGCACAGAGCAGAGCATGGTGGGGACCGGAATGGGGGGTCGTTATCCCAGGGTAGAGGGGAAGATGAGAAGGGGTAATCTACGACCCCCGGGGGGCGGGGGGAGGTGAGCCCCAGAGCATGGCCAGACAGCAGGCAACTCACCCTCCACCCCCACCCACCACTGTACCTGTCAAGCAG
Seq C2 exon
AGAAGGAGTCAGATGGCTATGTGCCGCTCTGGTTCGAGAAGAGGCTGGACCCGCTGACTGGGGAGATGGCCTGCATGTACAAGGGCGGCTACTGGGAGGCCAAGGAGAAGAAGGACTGGCACATGTGCCCCAACATCTTCTGAGCCACTCCTGCGGCAAATACAGGCGCCTGCACTGCCTGCCAGCCTTTTCTTTAATGCACCCAATTTACTACAGAACCCACACACGCTTTCGAAGGGGTAAGGGCTGACCTGGGTTCTTGCCAGCCCCCAGGGTGTCGGGTCACCTGTGCCCGTTATGATTGACTTGGGCCCCATGGGCACCCTAGTTCCCAGTTCCCATAACTCAGGCCGGCTGGTCGGGCCATGGGCTGCCCAGGTCACTAACCCCACCCCACCCCCGCTAGGGAGTCTCTTTTGACTTTTTTAAGGAAAAAAAATCTCCATTTCTTTCCAACGATGAGGTTTAGTAAATATTTTTTAGCGTATCACTTAAAAGACTCACTTTCCAAGTGTTTGTTCTTGCCACATAACTATCCTGGCAAGAAGCCCTTTTTTAAAGACTCGAGGAAGCCAGGCCCCTTTGAATGGGGAGCACTTTTAACACAGCCAGGCTTTCTATCTGGACTGTCCAAGCTCCAGGGACGCAACACCACGGAGGCAGCAGGAGGCCTGGCTGACACCGCAGCATAGTGTGCAGAGCCCGTGTGGGGGGGGGGGGAACAGAGGAAGGTAGAAGGCAAACATGCCCCCCCACCCCGTGCCAGGTCTTGGCCATGCTGGGACAGCACCCCAGGCCCAGAGACACCAAGAAGGGCTGAAAGGCAGGGCCCTTAGGTGCTTCCTGCCCAAGAATCAGGCTCCCAAGTCAGCAATAAGGAACAAACCTTCATTTAGCCTGGGCTGGTGACCCGGGCTCCTGCACCTGGCCTCTTGCTGTCCTTAGGCGGCATCAGGGTGCCTCTCCTCAGCACTCCTGACATCTTTGTTTGCCTAATTTATATATATAATATACAAATATATATAACATAACTATTTTGCTTAAATTTCTATGATACGTGAAAGTGAAAAATGATGAAGACAGGAGTGCCTGTCTGAGTTTGGCCTCCTGTCGGCCCTGCCCTCACCTTGTAGTCCTCCCAGTGGCTTCTGCCAACCTTAGACCTGAAACCTGTCCCTCAGACCCTCAGCCTCCAACCCATTTCACTTCAGTTTGATCTGGAAAGTTCCTTGCAGGGCCTTTCTTTCTACTCCAGGCCTGGTTTTGATTGTTTTGTTTTGTTTTTTATTTAAAAAAAGATTGAGAAAGAGAAAACACCACGTATGAAATGCCTTACAACACCCACTCTAGAGACGGGGTGGGGAAGGAGAGGGAGAGGGCACCTGGTCTCCGTCAGAGCTGGGCTGTACCTCTTCCCAGCAGGCGTGAGCAAACACCTTCTGACCACAATAAAACCCTTGTTCTGGAGTTTTCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020435:ENSMUST00000070552:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.519 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(20.2=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=PD(8.8=68.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCTCCGAGCTAGCCCTGA
R:
CCAGCCTCTTCTCGAACCAGA
Band lengths:
252-433
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