MmuINT0113680 @ mm9
Intron Retention
Gene
ENSMUSG00000029822 | Osbpl3
Description
oxysterol binding protein-like 3 [Source:MGI Symbol;Acc:MGI:1918970]
Coordinates
chr6:50297365-50298137:-
Coord C1 exon
chr6:50297970-50298137
Coord A exon
chr6:50297489-50297969
Coord C2 exon
chr6:50297365-50297488
Length
481 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CTCTTGTCATCCGTGAACAGCGT
3' ss Score
7.12
Exon sequences
Seq C1 exon
GTGAAGTCAGAAGAACTCTTTGACGAGTGGGTGTCCAAGCTCCGTCACCACAGAATGTACCGGCAGAATGAGATCGCCATGTTTCCCCGGGATGTCAATCACTTTTTCTCAGGGTCCTCTGTCACAGATTCTGCCCCAGGAGTGTTCGAGTCAGTTTCCAGTAGGAAG
Seq A exon
GTAATGATTGTGTTGCCAGGAGTAAGTCTGAGGGAAGGTTTGTCGGTGGAGCAGGGTAGGTTGGAGGTTGGTACCCAGTTAGTCTCTTGACCAGTATCAGATCCAGGATACAGCGAGCACGGATCAAGGCAGGAGCTCAGGTAAGGAGTGACCTGAAGGCTTAGGCTTTCTCTCAGCCACACTGACAGGTTTTTCCTACCTGCCTGTCGGATGCAGCTAAGCCTGCGTACAGCCTCATAGGATTGCGGACTGTTCCCCAAAGTATCTTTACTGTGGCGGCATCATTTCATAGAAGAAAATAAGGACTGCTGCCTAGGGCCATGGAGCATAGTGTGGCTTAGCTGGGGTGGTGGCCAGAAGTACCCAAATCTCCTGTGGGGTATTTTGCTCACCCCGCTATCCTATCCTTCCTTCCCTCTTGGAAGCTGTCCCTGCCTGGCTCTGTTTTGATGTCTAACCTCCTCTTGTCATCCGTGAACAG
Seq C2 exon
CGTAGCAGTCTATCAAAGCAGAATTCATTTCCACCCGGAAGCAATTTGTCATTTTCTTGTGGTGGCGACACTCGAGTTCCTTTCTGGCTACAGTCTTCAGAGGACATGGAAAAATGTTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029822-Osbpl3:NM_027881:6
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=0.095
Domain overlap (PFAM):
C1:
PF154091=PH_8=PD(18.9=30.4)
A:
NA
C2:
NO
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:
TGAAGTCAGAAGAACTCTTTGACGA
R:
TGAACATTTTTCCATGTCCTCTGA
Band lengths:
287-768
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: