HsaALTA1051655-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000186350 | RXRA
Description
retinoid X receptor alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr9:134408940-134417327:+
Coord C1 exon
chr9:134408940-134409119
Coord A exon
chr9:134417158-134417165
Coord C2 exon
chr9:134417166-134417327
Length
8 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
CTGCGCCTCCCGGGTTGTAGCCG
3' ss Score
5.33
Exon sequences
Seq C1 exon
GCAAGCACTATGGAGTGTACAGCTGCGAGGGGTGCAAGGGCTTCTTCAAGCGGACGGTGCGCAAGGACCTGACCTACACCTGCCGCGACAACAAGGACTGCCTGATTGACAAGCGGCAGCGGAACCGGTGCCAGTACTGCCGCTACCAGAAGTGCCTGGCCATGGGCATGAAGCGGGAAG
Seq A exon
CCGTGCAG
Seq C2 exon
GAGGAGCGGCAGCGTGGCAAGGACCGGAACGAGAATGAGGTGGAGTCGACCAGCAGCGCCAACGAGGACATGCCGGTGGAGAGGATCCTGGAGGCTGAGCTGGCCGTGGAGCCCAAGACCGAGACCTACGTGGAGGCAAACATGGGGCTGAACCCCAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186350-37-17,37-16-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.635
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NA
C2:
PF0010425=Hormone_recep=PU(4.7=15.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTACTGCCGCTACCAGAAGT
R:
TCGACTCCACCTCATTCTCGT
Band lengths:
97-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains