DreALTA0023603-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000078954 | rxrba
Description
retinoid x receptor, beta a [Source:ZFIN;Acc:ZDB-GENE-980526-436]
Coordinates
chr19:7333380-7333979:-
Coord C1 exon
chr19:7333938-7333979
Coord A exon
NA
Coord C2 exon
chr19:7333380-7333471
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCCTGTTTTAATGGCATCAGGGT
3' ss Score
4.25
Exon sequences
Seq C1 exon
GGAGAGTGCGCACAATGCAGAGGTTGGGGCCATATTCGACAG
Seq A exon
NA
Seq C2 exon
GGTGCTGACCGAGCTGGTGAGCAAAATGAGGGACATGCAGATGGATAAAACGGAGCTGGGATGCCTCAGAGCCATCATCCTATTCAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954-18-22,18-21-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(7.1=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(15.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGTGCGCACAATGCAGAG
R:
TGGGTTGAATAGGATGATGGCT
Band lengths:
132-234
Functional annotations
There are 1 annotated functions for this event
PMID: 9150434
A Four-Amino-Acid Insertion in the Ligand-Binding Domain Inactivates hRXRbeta and Renders Dominant Negative Activity
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]