MmuINT0135481 @ mm10
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:108052035-108052308:-
Coord C1 exon
chr9:108052214-108052308
Coord A exon
chr9:108052121-108052213
Coord C2 exon
chr9:108052035-108052120
Length
93 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCCTCCACTCTGCCCTGTAGCCC
3' ss Score
6.87
Exon sequences
Seq C1 exon
ATACAGATTATATCAGCGCTGAGGAGCTGGCCCAGGTGGAACAGATGCTGGCTCACCTGACCGCTGCATCTGCCCAGGCGGCCGCCGCCTCCCTG
Seq A exon
GTGAGTGTGGCATAACAGAGGCCGTTTTACTAATCTGTAAACACCAGGACAGGGGTAAGGATCCCAGCCCAACTCCTCCACTCTGCCCTGTAG
Seq C2 exon
CCCACCAATGAAGAGGACCTCTGCCCAATCTGCTACGCCCACCCCATCTCTGCTGTGTTCCAGCCTTGTGGTCACAAATCCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528:ENSMUST00000160249:37
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:
PF042167=FdhE=FE(32.3=100)
A:
NA
C2:
PF042167=FdhE=FE(29.2=100),PF139201=zf-C3HC4_3=PU(51.0=86.2)
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:
CAGATTATATCAGCGCTGAGGAGC
R:
GTGACCACAAGGCTGGAACAC
Band lengths:
167-260
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