HsaEX6034617 @ hg19
Exon Skipping
Gene
ENSG00000143171 | RXRG
Description
retinoid X receptor, gamma [Source:HGNC Symbol;Acc:10479]
Coordinates
chr1:165380186-165389251:-
Coord C1 exon
chr1:165389107-165389251
Coord A exon
chr1:165386278-165386457
Coord C2 exon
chr1:165380186-165380346
Length
180 bp
Sequences
Splice sites
3' ss Seq
TGTTCTTTTCTTCTAACCAGGAA
3' ss Score
10.83
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
CTAAATGTGGTCAACAGTGTCAGCAGTTCAGAGGACATCAAGCCCTTACCAGGGCTTCCCGGGATTGGAAACATGAACTACCCATCCACCAGCCCCGGATCTCTGGTTAAACACATCTGTGCCATCTGTGGAGACAGATCCTCAG
Seq A exon
GAAAGCACTACGGGGTATACAGTTGTGAAGGCTGCAAAGGGTTCTTCAAGAGGACGATAAGGAAGGACCTCATCTACACGTGTCGGGATAATAAAGACTGCCTCATTGACAAGCGTCAGCGCAACCGCTGCCAGTACTGTCGCTATCAGAAGTGCCTTGTCATGGGCATGAAGAGGGAAG
Seq C2 exon
CTGTGCAAGAAGAAAGACAGAGGAGCCGAGAGCGAGCTGAGAGTGAGGCAGAATGTGCTACCAGTGGTCATGAAGACATGCCTGTGGAGAGGATTCTAGAAGCTGAACTTGCTGTTGAACCAAAGACAGAATCCTATGGTGACATGAATATGGAGAACTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143171-'5-5,'5-4,6-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=0.000 C2=0.519
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PD(30.6=69.4),PF0010513=zf-C4=PU(15.7=22.4)
A:
PF0010513=zf-C4=PD(82.9=95.1)
C2:
PF0010425=Hormone_recep=PU(5.7=20.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCAGAGGACATCAAGCCC
R:
TGGTTCAACAGCAAGTTCAGCT
Band lengths:
244-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)