DreEX0063837 @ danRer10
Exon Skipping
Gene
ENSDARG00000078954 | rxrba
Description
retinoid x receptor, beta a [Source:ZFIN;Acc:ZDB-GENE-980526-436]
Coordinates
chr19:7348960-7351301:-
Coord C1 exon
chr19:7351072-7351301
Coord A exon
chr19:7349544-7349570
Coord C2 exon
chr19:7348960-7349113
Length
27 bp
Sequences
Splice sites
3' ss Seq
ACTGCATTTCTGCTTCACAGATG
3' ss Score
9.11
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
Exon sequences
Seq C1 exon
ATTCTCGTAGTCCAGACAGTTCATCCGTTTCCTCACCACCATCAGGTCAGCGTTCGCCCCCGTTGGCCCCGTCAGCTGCCGCCATGACTTCTCTCCCACCCATCACTTCGGCTGTGAACAGCCCCATCAGCAGCATGGGCTCACCCTTCTCGGTCATCAGCTCATCCCTGGGGTCTCCTTGCCTTCCTGGAACTCCCTCGGTGGGCTACGGCCCCATCAGCAGCCCACAG
Seq A exon
ATGAACATGTTTCCCAGAAACGCAGAG
Seq C2 exon
ATCAACTCCACCGTGTCCATGTCAGGTCTGCATGCCGTCAGCAGCTCCGATGACGTGAAGCCACCCTTTGGTTTGAAGCCGCTGTCCTCTCACAGTCCAGGACCCATGGTTTCACAGAAACGCCTGTGTGCCATCTGTGGAGACCGCTCCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.426 A=0.889 C2=0.348
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PU(67.3=98.7)
A:
PF118253=Nuc_recep-AF1=FE(9.8=100)
C2:
PF118253=Nuc_recep-AF1=PD(31.0=67.3),PF0010513=zf-C4=PU(15.7=21.2)
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:
TCTCCTTGCCTTCCTGGAACT
R:
AAAGGGTGGCTTCACGTCATC
Band lengths:
126-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]