HsaEX0056025 @ hg19
Exon Skipping
Gene
ENSG00000186350 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:10477]
Coordinates
chr9:137263817-137293386:+
Coord C1 exon
chr9:137263817-137263985
Coord A exon
chr9:137265853-137265976
Coord C2 exon
chr9:137293242-137293386
Length
124 bp
Sequences
Splice sites
3' ss Seq
TTTTCTCTGCCTGTTTGTAGCCC
3' ss Score
9.28
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
CTGGGTGCCAGGCCCAGCCTGGGCCTCCCTTGTGGGGTGCTCAGGCCCCACTTCCCTCCCTGGGGAGGGGAGGAGAGGCCACCTCGAGGGAGTGACGTCAAGGCAGGGTGACATTAGTCTGGGCCCACGGGATCCTTGCTACTTCCCCATTTATGGAGGGGAAACTGAG
Seq A exon
CCCTGGGTTCGACGGGGGAAGCAGTCGCCTGATGGGCAAGTGCTCTCTGAGTGGTGCATGAAGGTGGCTGTCCACGTGGCTGTCTGTGGTGTCGGTTAATCGTCACGGCTTCCGGGAGTTAAAG
Seq C2 exon
GCCCAGCCTAAAGCCGGGGTCAGGCGCAGAACAGTACCTTGGAGGGGAGCTCTGGGCACACCTGGCCCGTAGTGAGTGTGAATTTGCGTCAGAGAGCTGTCGAGACCCACGGGGCCACCTTGAGGGTGCCGGGGTCTTCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186350-'3-4,'3-3,4-4
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGTGGGGTGCTCAGGC
R:
GGGTCTCGACAGCTCTCTGAC
Band lengths:
249-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)