HsaEX0056027 @ hg19
Exon Skipping
Gene
ENSG00000204231 | RXRB
Description
retinoid X receptor, beta [Source:HGNC Symbol;Acc:10478]
Coordinates
chr6:33166085-33168391:-
Coord C1 exon
chr6:33168019-33168391
Coord A exon
chr6:33166946-33167193
Coord C2 exon
chr6:33166085-33166241
Length
248 bp
Sequences
Splice sites
3' ss Seq
TGTACATACCCCTCCCTCAGACT
3' ss Score
7.23
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
Exon sequences
Seq C1 exon
GCAGAGCGACGGGCTTAATTCGACCCAATCCAGGCCAGAGTCTTTCTCTCAGGGGCTTCCTCGTGCTCAGCTAATCCTCCGATCAATCCTTGGGAATCCCTGGGACCTCTTCGGTATCCCTACTCTCAGCCAGGGATCATGTCTTGGGCCGCTCGCCCGCCCTTCCTCCCTCAGCGGCATGCCGCAGGGCAGTGTGGGCCGGTGGGGGTGCGAAAAGAAATGCATTGTGGGGTCGCGTCCCGGTGGCGGCGGCGACGGCCCTGGCTGGATCCCGCAGCGGCGGCGGCGGCGGCGGTGGCAGGCGGAGAACAACAAACCCCGGAGCCGGAGCCAGGGGAGGCTGGACGGGACGGGATGGGCGACAGCGGGCGGG
Seq A exon
ACTCCCGAAGCCCAGACAGCTCCTCCCCAAATCCCCTTCCCCAGGGAGTCCCTCCCCCTTCTCCTCCTGGGCCACCCCTACCCCCTTCAACAGCTCCATCCCTTGGAGGCTCTGGGGCCCCACCCCCACCCCCGATGCCACCACCCCCACTGGGCTCTCCCTTTCCAGTCATCAGTTCTTCCATGGGGTCCCCTGGTCTGCCCCCTCCAGCTCCCCCAGGATTCTCCGGGCCTGTCAGCAGCCCCCAG
Seq C2 exon
ATTAACTCAACAGTGTCACTCCCTGGGGGTGGGTCTGGCCCCCCTGAAGATGTGAAGCCACCAGTCTTAGGGGTCCGGGGCCTGCACTGTCCACCCCCTCCAGGTGGCCCTGGGGCTGGCAAACGGCTATGTGCAATCTGCGGGGACAGAAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204231-'0-2,'0-0,1-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.755
Domain overlap (PFAM):
C1:
NO
A:
PF118253=Nuc_recep-AF1=PU(58.5=66.3)
C2:
PF118253=Nuc_recep-AF1=PD(39.4=69.8),PF0010513=zf-C4=PU(15.7=20.8)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCAGGGATCATGTCTTGG
R:
GTGGCTTCACATCTTCAGGGG
Band lengths:
308-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)