MmuINT0135470 @ mm10
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:108058783-108059840:-
Coord C1 exon
chr9:108059663-108059840
Coord A exon
chr9:108058858-108059662
Coord C2 exon
chr9:108058783-108058857
Length
805 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTCATTGCCCTCTTTTGCAGGCT
3' ss Score
10.4
Exon sequences
Seq C1 exon
GAGAAAATGCTGGATATCTACTGGTTACTGCGTGTCTGCCTACGGACCATTGAGCATGGGGACCGCACGGGGTCTCTCTTTGCCTTCATGCCTGAGTTCTACCTAAGTGTGGCTATCAACAGCTACAGTGCCCTGAAGAACTATTTTGGCCCTGTGCACAGCATGGAGGAACTCCCAG
Seq A exon
GTGATGGGGCCATTCACGATCTGGGGAGTAGGGGGCACAGAAAGAGACCTGCAGACTGAATTTGGCAGGCCCAAGTTCATTGTCATGACCCAACCACACACACACACACACACACACACACACATTAAACTTTTGTACTGAATTAGTGCCTGCAGGCTTAGAAGCAGCAACTGAGGTGCCCCAAGGACTGTAACTGGGTGGGGCCCCTAGCTCTTTCCTTTGCTGGTGTTGCTGATGGCTGCTGTGGTCTCATAGCTAACTGGCTCCTCACTCTGCTACTCTGGTACTGTCACAGAGCGGCAGTGAGACAGGCAGAGTAGCTTGCCATTGTAGCAAGACAGAGCCTTGCTGGGGCTCACTGAGAACCTCTGTTTCATTAAGGTCACTGATCCAAGCTAGGCCTAGCAATGGGGCTTCAGAGTAGCTGTAAGCTGGCGGGCCCTCACTTGTCTTGTGCCTGGCCCAGTCCTTGGTATTACTTCTGTCTTTGAAGACTGAACTATGGGGACCAAGGGACTTTGACTGTTGAGTCACCAGGCATGTTCCAGAATGAGTTAGAGCCCAGGTCAGGCTCAGATTTGGATCTGTCCAATCCCCACAGTGAATCTATGCCTTAATCAATCCCCTTTCCAATTGCCATTATATTGTATCACTTTGCCCAATGTCCTCAGATGCTCACATGGGTCCAGACTGGCTCCCACAGCCAGCTCTAGGCTCTGCTACACAAGCCCACCCACACTGACAGAGGACAGGTCTTCTCTGGTCCTTTATTCCCGGCCGCAGTCTTCATTGCCCTCTTTTGCAG
Seq C2 exon
GCTATGAAGAGACCCTGACACGCTTAGCTGCCATCCTCGCCAAACACTTTGCTGACCCTCGAATAGTAGGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528:ENSMUST00000160249:27
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:
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:
TGCTGGATATCTACTGGTTACTGC
R:
CAGTGCCTACTATTCGAGGGT
Band lengths:
246-1051
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