MmuEX6099904 @ mm10
Exon Skipping
Gene
ENSMUSG00000015846 | Rxra
Description
retinoid X receptor alpha [Source:MGI Symbol;Acc:MGI:98214]
Coordinates
chr2:27677201-27741203:+
Coord C1 exon
chr2:27677201-27677460
Coord A exon
chr2:27737299-27737564
Coord C2 exon
chr2:27741053-27741203
Length
266 bp
Sequences
Splice sites
3' ss Seq
TGCCAATTCTTGTCTTGCAGACT
3' ss Score
9.21
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
Exon sequences
Seq C1 exon
GCGCGGCGGAGGCGCGGGCGGCGGGTGCGCGCGCGGGGCGCGCGCAGGCACAAGTAGTTTACATTGTTGGGCGACTTTTGCAACAACTCGCCGCGCCGCGGCCTCCGCGCGCCGCCGCCGCCGCTGCCGCCGCCGGCTCCCCGCCGCCCGGGCCCCGGGCGGGCCGCGCCGGGGGCCGCCGCGCTGCCGCCCTGCTGCTCCGCCGCCGGCTGGGCATGAGTTAGTCGCAGACATGGACACCAAACATTTCCTGCCGCTCG
Seq A exon
ACTTCTCTACCCAGGTGAACTCTTCGTCCCTCAACTCTCCAACGGGTCGAGGCTCCATGGCTGTCCCCTCGCTGCACCCCTCCTTGGGTCCGGGAATCGGCTCTCCACTGGGCTCGCCTGGGCAGCTGCACTCTCCTATCAGCACCCTGAGCTCCCCCATCAATGGCATGGGTCCGCCCTTCTCTGTCATCAGCTCCCCCATGGGCCCGCACTCCATGTCGGTACCCACCACACCCACATTGGGCTTCGGGACTGGTAGCCCCCAG
Seq C2 exon
CTCAATTCACCCATGAACCCTGTGAGCAGCACTGAGGATATCAAGCCGCCACTAGGCCTCAATGGCGTCCTCAAGGTTCCTGCCCATCCCTCAGGAAATATGGCCTCCTTCACCAAGCACATCTGTGCTATCTGTGGGGACCGCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015846-'2-9,'2-7,21-9
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.480 A=0.888 C2=0.482
Domain overlap (PFAM):
C1:
NO
A:
PF118253=Nuc_recep-AF1=PU(69.8=91.0)
C2:
PF118253=Nuc_recep-AF1=PD(28.4=64.7),PF0010513=zf-C4=PU(15.7=21.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTTTGCAACAACTCGCCG
R:
TGCTTGGTGAAGGAGGCCATA
Band lengths:
307-573
Functional annotations
There are 1 annotated functions for this event
PMID: 11162439
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, protein kinase assay. ELM ID: ELMI001406; ELM sequence: GRGSMAA; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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