MmuINT0153372 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31141789-31142121:-
Coord C1 exon
chr14:31141972-31142121
Coord A exon
chr14:31141894-31141971
Coord C2 exon
chr14:31141789-31141893
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CAACTTGTCCTTCTCCCCAGCTT
3' ss Score
8.09
Exon sequences
Seq C1 exon
CTTGCCCTGGTGGCCCCAGAAGCCCCTGCAGTGACCATGGCGTGTGCCTGGATGGTATACGTGGAAGTGGGCAGTGTAATTGCCATCCGGGTTTTGCTGGGACAGCCTGTGAACTCTGTGCCCCAGGTGCCTTTGGACCCCAGTGCCAAG
Seq A exon
GTAAGCTCTCTCTTCCCTGTCCCATTCTGTCCTGCCCCAGTTTCTTTGCCCTGTGTGTCAACTTGTCCTTCTCCCCAG
Seq C2 exon
CTTGCCGCTGTACCCAACATGGCCGTTGTGATGAAGGTCTTGGGGGCTCTGGCTCCTGCTTCTGCGATGAAGGCTGGACTGGGGCACGCTGTGAAGTGCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:56
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=92.2)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF126612=hEGF=WD(100=36.1)
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:
TGGTATACGTGGAAGTGGGCA
R:
CCTTCATCGCAGAAGCAGGAG
Band lengths:
171-249
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