MmuINT0113675 @ mm9
Intron Retention
Gene
ENSMUSG00000029822 | Osbpl3
Description
oxysterol binding protein-like 3 [Source:MGI Symbol;Acc:MGI:1918970]
Coordinates
chr6:50249315-50251049:-
Coord C1 exon
chr6:50250923-50251049
Coord A exon
chr6:50249438-50250922
Coord C2 exon
chr6:50249315-50249437
Length
1485 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCTTTGCCCTCAATCCCCAGGCT
3' ss Score
9.86
Exon sequences
Seq C1 exon
ATCCCATGCCGAAAGGCTATGAGCAGTATTATGGCTTCACACAGTTTGCACTAGAGTTAAATGAAATGGATCCTTTGTCAAGGTCTTTATTACCACCCACCGACACTCGGTTTAGACCAGATCAAAG
Seq A exon
GTAAGGATTTTTTTTCAAAGATCTTTCTCTCCAGAGACATTTAAAACAATCGACAAACAGTGGTATTCACAACTGCCTGGCCACCTGGAGTCTGAGGTGGGTACTGTCATCAGAAACACAAGGGTAAAATGGGGGCATGAAATGCTTGCACACCAGGACGGAACCATTTCTATTGAAGTACCAGGAAAGAGGAAGCAGTGGGGGCTACTTTGAAGACTTTCACTGCGTGTAGTAATAAAGAATTTACTGTTTATTTGGAATAATGGAAGCACCCTGCTTTCCTGACCCATCGATTTAAATTTCTTTTTAGTGCATTTGGATCTCACTTCTGATTCATGAGCTGTGTGGTCTATGACAAGGCTTTCCATCTTCCCCAACCTCCGATTCCTACTCCGTAAAACAGAATAATACCCCCCCAACCTTCTGAAATTGAGACTCGAAATCTAAAGGCCACATGAAAGGAAAGATGGCTGTGTACAATCTAGATTTGTGTAAGAAAGCCTTAATGGCATACCCAAGCTCCAAGACAATGATCAACATGAGTCTGTACTTACAACCTTACAGTGCGGGTTTGGTCTAGAGTCAGGAAGACATCACTCAATAGGGGAGAAAGTGGACTTGGGAGAATGAACAGTTCACAGACAAGAAACTCAAATGTTTCTTAAACATGGCACAAAAACCAGGTGAAAATACCATTTCTTAGACTGGCCAAAAAAAAAAAAAAAAAAAAAAAAAAGATGGCTGGTAACAGCATGCTATAATATGGATTATATATTATAAAATATTATATGATATAAAAGGGATATATAAATTGCTTGAACTCCCTATGAAGTATAGTTTTATAATATAGCAATTAAAGATTCGCTTTTGTCCAACAATCCTAAGTCTGGAAGTTTCTTGAGCAGATACACTTCCCTGTGTATAAAGGGCGGTGGTCCTAAGTCATTCACAGCAACATGAAGTGTAAACACTAAAAATAGTAAGCGCAACTCAATGCCTATATGTAGAGCATGTAATTAAGGTACATCCACAAAACTGAATACAGCTTCTAAAAATGAAGACGTCCAGGCGCTACTGTGCACAGATCTCTACGATCTGTTGTTAAGTAAAAAACAAAGTAAAACAAAGCTGTTTTGCCACCATTTGTGCCCTTAGAACAGAGGAAGGAGTAAGAATATCTACTTATAGCTGAAAACTATGTACCCAAGAAATGAACATTTCCTGTGATGTGGGGCTCCTGTGATGGGAGAGCGAGGGAAGAAGACAGACATGGGTTTTTCGGGTTTCCCTCTGGATAGAAATCTTGAACCCTGTAACTATCGCCTGCTCACAGCGGGGTCAGCCTCTTCCTGACTCAGAATGCTGCATCGAGGTGGGAGGAAGAGACTGGGTGCTGGAAATTTGAATACTCCGTCGTGTACCCAGAACTGGCTGGTTGTTATATTTTCAATGCACAGTCCTTTCCTCTTTGCCCTCAATCCCCAG
Seq C2 exon
GCTTCTAGAGGAAGGGAACATAGAGGAGGCTGAGGTTCAGAAGCAGAGGATCGAGAAGCTGCAGAGAGAGCGGCGGAGGGTCTTGGAGGAGAACGGTGTGGAGCACCAGCCCCGGTTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029822-Osbpl3:NM_027881:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(12.1=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCAGTATTATGGCTTCACACA
R:
CTGAAAAACCGGGGCTGGTG
Band lengths:
231-1716
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: