MmuINT0113673 @ mm9
Intron Retention
Gene
ENSMUSG00000029822 | Osbpl3
Description
oxysterol binding protein-like 3 [Source:MGI Symbol;Acc:MGI:1918970]
Coordinates
chr6:50250923-50253160:-
Coord C1 exon
chr6:50253016-50253160
Coord A exon
chr6:50251050-50253015
Coord C2 exon
chr6:50250923-50251049
Length
1966 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GTGGTTTATTTCTTTTTCAGATC
3' ss Score
11.03
Exon sequences
Seq C1 exon
GCTAAGTACTGGAGCACTAATGCCCACGAGATCGAAGGCACGGTGTTCGACCGCAGTGGGAAGGCTGTGCACCGGCTGTTTGGGAAATGGCACGAGAGCATCTACTGTGGCGGCGCCTCCTCTTCCACATGCGTCTGGAGAGCAA
Seq A exon
GTGAGTGTCGGCCAGACCCCAAGCTTATAGCTGATGAGTAGCTGCCTCAGGGCGGGGGTGGGGGAGCGCTGCTCTGTGTCTAGCTGCCATTGCTTGAATGAGGTTAGTGCTACTGGCCGGTCTGTCAAATCCTTCTCATGCTTACAACAGCATCTCAGTTGTTCTGGGTCCTTGGGACCTCAGAAAGGAGCCACTGCCAACCCAAGGGTGGCCTGATGGGCTCTAGGGGTTCACACATGGCACCATAACAGGCCTTGTTGGAATAACAGCAAAACGCAAGTAATTCTGGAGCAAACTGTCCGTAGAAATGACAGAGTGGCCTAGGCTTCCCAAAGCATGCAGGATCCCCCAATTGCTCCAACCCCAAAAGCCTCCCCAGTCTCCCCCTTGTAGTCCCAGAAGGACACTCCCCCTGGAGCACTTGTGTCAAGAAAGTGGTGGAAGCCCCGGCTGTACCAGCAACCCTTTCGTCTTCAGATCCAAAAAGAGCCTGTTTCCAAGTTGGAGTCGTTTTCTTAAACCGTTGTCCTGAGATGAGGCCTTTAAGAATGGGGTTAGTCTGTTTAAACGAGGGAGAGAAGGGTTGGGGGTTGAGGTGGGAATTTAATAATAAGTTGAGGGGTGATGGCCCCGTGTTGTTACCTCTGCAGCCTACTGGAATCAGAGACACAGACCAAGGAGGAAACATGTAACACACGTTCACCTGAAGTTGGGCTTGTGTTCTGTTAGGAAGAGATGTGACTGTAGGGTCAGTGGTGTCCCTTACAGGAGGCTGCAGCCGCATCTTCTTCCATCCTCAAGGCTGTTGTGGAACTGGAATAGTGTCCCAGGAGCTGCCGTTCTAGCTTCAGAGGCACCCACAAGGCTGCATGCCAGTCTCTCATTTGCTGACAGCCTCTCGTGGGTTACTGTCAGATCTTCACCATTCTTCCTTGACTGTGTCTCCACGTGGGCTTCCAGCTCCCCTGGCCCATGTTGGAGGAAACCATCTTCCCTCTGGTGGGCGGGGGTCTCGGCTGGAAAGCACAGCATGGAGCTTCGCTCTCACGTTCAAGCTTAGGATGAGATACCCAGAATGGCATTGGCTGCCAGTGAGTCTTGAAAGCTTCGAAAAGCGTGTCTGTGGCAAAGTTCACGGAAGACATTCCTATGTGGATGTGTGGCCAGCAAGGGCTAAGGCCGAAAGGGAAGTTCTGGAGTCTGTATTGGATCTCCCTGGTGTGCACCTGATCCTGATTCTTAGCTGAGGTGAAAGTTAGGGCAAATTAGAATCTAGTCTTCCAACCCTGCGATGTGAGATTTTAAGGGTTGAGGCTTGATGAAGAGAAAGTCAAGGAGGAAAGAAAAGAATACTCGTATTGACCACCCTCAGGGCCAGCACAATCGCAGCTGCAAGGGCTTCTAGTTTCGCTGTATGAACTTGGTCCTTTTGCAGTGGGAGTTTAGCTGGTTAAGATAGGGCCTTCTGACTTTATTCATTTGATTTTTAAAACATCATTGCATGTGTGTATGTGTGTATGTGTGTGTGTGATATGAGTGCAGGGGTATTCATGACAGCAAAAATGTGGAAGTCAGGGGACAGCTTTGTGCAGAAGTCAGTTCTTTCTACCGTGTAGGTTCTGAGCTCAGCTCATTAGTCTTGAGTGGCATCTCAGGAGGCCCCTGGTGTGTATATTTGAATAGCAAATTCTGTGATAGTTCATACAGTATGGATGCTTCACAGCACTGAATAAATTCACTACAGGACCAAGGCAAAGAGACTGTGAGTCCCTGCGATAGAAAACTCAGACAGGCAAGTCTACGGAGAGACGCGCGGTAGCCGCTTGTTAGTCAGAATATTTTAATAGAAATGGAACAGTTTAGAGTTAGAGATGAAACACAGCTGATCTGAGATGAAAACGGTGGCGGAATTAAACGAACATAAATGAATTGCGAATTAGACCTGGGTGGTTTATTTCTTTTTCAG
Seq C2 exon
ATCCCATGCCGAAAGGCTATGAGCAGTATTATGGCTTCACACAGTTTGCACTAGAGTTAAATGAAATGGATCCTTTGTCAAGGTCTTTATTACCACCCACCGACACTCGGTTTAGACCAGATCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029822-Osbpl3:NM_027881:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(13.9=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(12.1=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:
GCACTAATGCCCACGAGATCG
R:
CGAGTGTCGGTGGGTGGTAAT
Band lengths:
241-2207
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: