HsaEX0056027 @ hg38
Exon Skipping
Gene
ENSG00000204231 | RXRB
Description
retinoid X receptor beta [Source:HGNC Symbol;Acc:HGNC:10478]
Coordinates
chr6:33198308-33200614:-
Coord C1 exon
chr6:33200242-33200614
Coord A exon
chr6:33199169-33199416
Coord C2 exon
chr6:33198308-33198464
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-'0-3,'0-0,3-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.992 A=1.000 C2=0.757
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)
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:
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