DreEX6071899 @ danRer10
Exon Skipping
Gene
ENSDARG00000078954 | rxrba
Description
retinoid x receptor, beta a [Source:ZFIN;Acc:ZDB-GENE-980526-436]
Coordinates
chr19:7348960-7353410:-
Coord C1 exon
chr19:7353274-7353410
Coord A exon
chr19:7351072-7351301
Coord C2 exon
chr19:7348960-7349113
Length
230 bp
Sequences
Splice sites
3' ss Seq
TCTTTTGTCTGTCTTCACAGATT
3' ss Score
11.43
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
GGATCACTTCGGTTGGTAAAAGATCCAAAGGCCCGGGCCTCAGTCCGCGGTCTTGAGTTCGACAGCCACCCGACATCAGAGCGAGAGAGTCGGTGTGAACAGCAGAGCCCGGCTGCACAACATGGGCGACAGCAGAG
Seq A exon
ATTCTCGTAGTCCAGACAGTTCATCCGTTTCCTCACCACCATCAGGTCAGCGTTCGCCCCCGTTGGCCCCGTCAGCTGCCGCCATGACTTCTCTCCCACCCATCACTTCGGCTGTGAACAGCCCCATCAGCAGCATGGGCTCACCCTTCTCGGTCATCAGCTCATCCCTGGGGTCTCCTTGCCTTCCTGGAACTCCCTCGGTGGGCTACGGCCCCATCAGCAGCCCACAG
Seq C2 exon
ATCAACTCCACCGTGTCCATGTCAGGTCTGCATGCCGTCAGCAGCTCCGATGACGTGAAGCCACCCTTTGGTTTGAAGCCGCTGTCCTCTCACAGTCCAGGACCCATGGTTTCACAGAAACGCCTGTGTGCCATCTGTGGAGACCGCTCCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954-'3-9,'3-7,6-9=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.426 C2=0.348
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PU(0.1=0.0)
A:
PF118253=Nuc_recep-AF1=PU(67.3=98.7)
C2:
PF118253=Nuc_recep-AF1=PD(31.0=67.3),PF0010513=zf-C4=PU(15.7=21.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
GGATCACTTCGGTTGGTAAAAGA
R:
GAGCGGTCTCCACAGATGGC
Band lengths:
286-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]