RnoEX0077631 @ rn6
Exon Skipping
Gene
ENSRNOG00000009446 | Rxra
Description
retinoid X receptor alpha [Source:RGD Symbol;Acc:3610]
Coordinates
chr3:6211789-6276637:+
Coord C1 exon
chr3:6211789-6211843
Coord A exon
chr3:6272561-6272826
Coord C2 exon
chr3:6276487-6276637
Length
266 bp
Sequences
Splice sites
3' ss Seq
TGCTCATTCTTGTCTTGCAGACT
3' ss Score
10.8
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
CCGGCTGGGCATGAGTTAGTAGCAGACATGGACACCAAACATTTCCTGCCGCTCG
Seq A exon
ACTTCTCTACCCAGGTGAACTCTTCATCCCTGAGCTCTCCAACGGGTCGAGGCTCCATGGCTGCCCCCTCGCTGCACCCTTCCCTGGGTCCAGGACTCGGCTCTCCTCTGGGCTCCCCTGGGCAGCTGCACTCGCCTATCAGCACCCTGAGTTCTCCCATCAATGGCATGGGCCCACCCTTCTCGGTCATCAGCTCCCCGATGGGCCCGCACTCCATGTCGGTACCCACCACACCCACACTGGGCTTCGGGACTGGCAGCCCCCAG
Seq C2 exon
CTCAACTCACCCATGAACCCCGTGAGCAGCAGTGAGGATATCAAACCCCCTCTAGGCCTCAATGGCGTCCTCAAGGTTCCTGCCCACCCCTCAGGAAATATGTCATCCTTCACCAAGCACATCTGCGCTATCTGTGGGGACCGCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009446-'3-2,'3-1,21-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=0.944 C2=0.549
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:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGGGCATGAGTTAGTAGC
R:
CTGAGGAGCGGTCCCCAC
Band lengths:
204-470
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]