MmuINT0135474 @ mm10
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:108071151-108071457:-
Coord C1 exon
chr9:108071378-108071457
Coord A exon
chr9:108071246-108071377
Coord C2 exon
chr9:108071151-108071245
Length
132 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGA
5' ss Score
6.45
3' ss Seq
TCACACATCTCCCTTCCCAGGAC
3' ss Score
9.22
Exon sequences
Seq C1 exon
GAAACCGCTAAACTTCCATAACCTGCCTGAGCACGTGGACCAGCTGCTACAGGTGGACAGTGAAGACAACGAGAGCCAGG
Seq A exon
GTAGGAGGTGTTCTCAGGGGTGGGGTGGGTGAGGAATGTGGTGTCAAAGCCTGGAGTTCTCTGCACAGCTCATGTCTCCCTGTGTCTGTCAGACCCTCTGCCATCCCTGATTTCACACATCTCCCTTCCCAG
Seq C2 exon
GACAAGTTGAAGGTCGACTTGGCCCATCTACTGTGGTCCTAGACCACACAGGAGGCTTTGAGGGGCTTCTCCTTGTGGATGATGACCTCCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528:ENSMUST00000160249:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.627 A=NA C2=0.298
Domain overlap (PFAM):
C1:
NO
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:
ACCGCTAAACTTCCATAACCTGC
R:
CCCAGGAGGTCATCATCCACA
Band lengths:
171-303
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