DreALTA0023603-2/2 @ 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
chr19:7333472-7333573
Coord C2 exon
chr19:7333380-7333471
Length
102 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCTGATTTGTTGCATTTCAGATG
3' ss Score
8.99
Exon sequences
Seq C1 exon
GGAGAGTGCGCACAATGCAGAGGTTGGGGCCATATTCGACAG
Seq A exon
ATGTTAACGTGAATCATCTGTGTTTTGTTTATCCCTCCTCCTGACGTTCCCTTCCTGCTTGGCATCCCTCGCTCTTTCCTGTCCCTGTTTTAATGGCATCAG
Seq C2 exon
GGTGCTGACCGAGCTGGTGAGCAAAATGAGGGACATGCAGATGGATAAAACGGAGCTGGGATGCCTCAGAGCCATCATCCTATTCAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954-18-22,18-21-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
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 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]