MmuINT0135485 @ mm10
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:108070217-108070630:-
Coord C1 exon
chr9:108070545-108070630
Coord A exon
chr9:108070304-108070544
Coord C2 exon
chr9:108070217-108070303
Length
241 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAC
5' ss Score
5.99
3' ss Seq
CACAAGCAGTTCCTTTCTAGGAA
3' ss Score
2.38
Exon sequences
Seq C1 exon
GGAAGTGGGTCTACGAGGTGCTCATCTCCTCCCAGGGCCTCATGCAGATCGGCTGGTGCACCATCAACTGCCGCTTTAATCAGGAG
Seq A exon
GTACACACGAGGGAAGGGGCTCTCCCAAAGAGGGTCTTCTGTTGCAGGCGTCCTCAAAACAGCTCCCAGAGCCACTCAGGAGCCTGCCTGATACGGGCTGCCCCCCCCCGAGGATGGACTATGCCCCATTCTACTCAAGGGCATCTAGTAGACACGTCACACCCCTTCTCTAAAGTCATGAGGGTACTAGGTTAGTAACCTTACCCATCTTCCCCAGACCTCACAAGCAGTTCCTTTCTAG
Seq C2 exon
GAAGGGGTTGGAGACACACATAACTCCTATGCCTATGACGGCAACCGAGTGCGCAAGTGGAATGTTACCACCACGAATTATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528:ENSMUST00000160249:7
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:
PF0062223=SPRY=FE(23.0=100)
A:
NA
C2:
PF0062223=SPRY=FE(23.0=100)
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:
GAAGTGGGTCTACGAGGTGCT
R:
CTTGCCATAATTCGTGGTGGT
Band lengths:
172-413
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