MmuINT0135488 @ mm9
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:107971503-107972132:-
Coord C1 exon
chr9:107972007-107972132
Coord A exon
chr9:107971618-107972006
Coord C2 exon
chr9:107971503-107971617
Length
389 bp
Sequences
Splice sites
5' ss Seq
GCGATATCA
5' ss Score
-5.21
3' ss Seq
CTGGCTTAACTCAGTGGCACCTA
3' ss Score
-10.23
Exon sequences
Seq C1 exon
GAATGGCGTGTCACTGGGCACTGCCTTCGAGAACCTTTCCAGGGGCCTAGGAATGGCGTACTTCCCAGCCATCAGCCTGTCATTCAAGGAGTCTGTGGCATTCAACTTTGGCAGCCGTCCTTTGCG
Seq A exon
ATATCATTTTGGGAAGGTGGCTGTGGGTGGCTTGGCATCTAGGATAAGGGTCTCCCTACCCCAGGAGCACTGTGGGCTGGTGGCAGGCCTAGCTGTTGTGGTGTGTACACAAGAAGCAGCTTAGTTAGGTTGGCCCAAGAACAAAAGTCCTTTTAAAGGTGGGTGCCATTAGCTGTCTCCATTGAGCAGGTAAGCATAAAAATGACAAAGGGGTTTTCCCCTACAGAGCCCCTGACCAGGCAGAGAATTTGATGCAGATGGGGTGCGCCCTGCAGCTTGCACCTCTGGTTAAGCTCTGGTTAGGAGAAAGGGAGAAAGGGGGGGAACAAAGGAGAGGAGCCATGTATCCAAGCCTCAGGTTGGGCATTGCTGGCTTAACTCAGTGGCAC
Seq C2 exon
CTACCCAGTTGCGGGCTTCCGGCCCCTGCAGGACCCTCCGTTTGCTGACCTGGTCCGGGCACAGAGGTTGCTGGGCTGCTTCCAGGCAGTGCTAAGTGTGGAGCTGGACCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528-Rnf123:NM_032543:9
Average complexity
IR-S
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=PD(32.8=93.0)
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:
GAATGGCGTGTCACTGGGC
R:
AGGGTCCAGCTCCACACTTAG
Band lengths:
238-627
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: