HsaEX0056029 @ hg19
Exon Skipping
Gene
ENSG00000204231 | RXRB
Description
retinoid X receptor, beta [Source:HGNC Symbol;Acc:10478]
Coordinates
chr6:33162722-33163479:-
Coord C1 exon
chr6:33163347-33163479
Coord A exon
chr6:33163140-33163231
Coord C2 exon
chr6:33162722-33162827
Length
92 bp
Sequences
Splice sites
3' ss Seq
ACCTGCAGGTCCCTCTCCAGGGT
3' ss Score
5.34
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
Exon sequences
Seq C1 exon
GCTGGAATGAACTCCTCATTGCCTCCTTCTCACACCGATCCATTGATGTTCGAGATGGCATCCTCCTTGCCACAGGTCTTCACGTGCACCGCAACTCAGCCCATTCAGCAGGAGTAGGAGCCATCTTTGATCG
Seq A exon
GGTGCTGACAGAGCTAGTGTCCAAAATGCGTGACATGAGGATGGACAAGACAGAGCTTGGCTGCCTGAGGGCAATCATTCTGTTTAATCCAG
Seq C2 exon
ATGCCAAGGGCCTCTCCAACCCTAGTGAGGTGGAGGTCCTGCGGGAGAAAGTGTATGCATCACTGGAGACCTACTGCAAACAGAAGTACCCTGAGCAGCAGGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204231_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
Show PDB structure
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(23.5=100)
A:
PF0010425=Hormone_recep=FE(16.9=100)
C2:
PF0010425=Hormone_recep=FE(18.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTCCTTGCCACAGGTCTT
R:
TGCTGCTCAGGGTACTTCTGT
Band lengths:
174-266
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)