MmuINT0135459 @ mm9
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:107969186-107969525:-
Coord C1 exon
chr9:107969426-107969525
Coord A exon
chr9:107969248-107969425
Coord C2 exon
chr9:107969186-107969247
Length
178 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGC
5' ss Score
7.09
3' ss Seq
TATTCCTTTTCCCATCCCAGTGG
3' ss Score
7.32
Exon sequences
Seq C1 exon
AGCAGAGACGGTAAGGAAGCAAGGGAGGAGACCACCGAAGAGCGGCAGCGGAGGCGAGCCTATGAGCGTGGCTGCCAAAGACTCAAGAAACGCATTGAAG
Seq A exon
GTCAGCCCCCTGCCTCAGGCCTTGGGTAGGGAGATGGATTTGTGTGTATACGTAAGAGGAACAGTTGGCAACCATACCTAGGGTAGGCTTGGGGTACCCAGGTGCTGGAGGTCTGACAAAATTTCTGCCTGCTACCTGTCCTGGGAGCCTAAGGGCCATATTCCTTTTCCCATCCCAG
Seq C2 exon
TGGTGGAAGAACTGCAGGTCCAGATCCTGAAGCTGCTGTTGGACAATAAAGATGACAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528-Rnf123:NM_032543:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.588 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGAGACGGTAAGGAAGCA
R:
CCCATTGTCATCTTTATTGTCCAACA
Band lengths:
162-340
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: