MmuINT0153354 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31162907-31163127:-
Coord C1 exon
chr14:31163042-31163127
Coord A exon
chr14:31162977-31163041
Coord C2 exon
chr14:31162907-31162976
Length
65 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGACTTACTGCATTAACAGGAA
3' ss Score
6.76
Exon sequences
Seq C1 exon
AGTGCCCTGGTGGTCCGGCGACACCGTGTAGTGGCCACGGGACCTGCCTGGATGGCATAGAAGGAAACGGGACCTGTGTGTGCCAG
Seq A exon
GTAAGGGTTGGGTAGGGATGAGGTGGGGGTGTCAGGGGAACCCCACTGACTTACTGCATTAACAG
Seq C2 exon
GAAAACTTCAGCGGTTCAGTCTGCCAGGAGTGCCGAGACCCCAACAGATTTGGGCCTGACTGCCAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PU(77.1=93.1)
A:
NA
C2:
PF0000822=EGF=PD(17.1=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACCGTGTAGTGGCCAC
R:
GCAGTCAGGCCCAAATCTGTT
Band lengths:
130-195
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