DreEX6071901 @ danRer10
Exon Skipping
Gene
ENSDARG00000078954 | rxrba
Description
retinoid x receptor, beta a [Source:ZFIN;Acc:ZDB-GENE-980526-436]
Coordinates
chr19:7344155-7349113:-
Coord C1 exon
chr19:7348960-7349113
Coord A exon
chr19:7346448-7346627
Coord C2 exon
chr19:7344155-7344178
Length
180 bp
Sequences
Splice sites
3' ss Seq
CTGGCGTCTGTTCTCTCCAGGCA
3' ss Score
9.5
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
ATCAACTCCACCGTGTCCATGTCAGGTCTGCATGCCGTCAGCAGCTCCGATGACGTGAAGCCACCCTTTGGTTTGAAGCCGCTGTCCTCTCACAGTCCAGGACCCATGGTTTCACAGAAACGCCTGTGTGCCATCTGTGGAGACCGCTCCTCTG
Seq A exon
GCAAGCACTATGGAGTGTACAGCTGCGAGGGCTGCAAGGGCTTTTTCAAGCGCACTGTGAGGAAGGACCTTAGCTACACATGCAGAGACAATAAAGACTGTCTGGTGGACAAGCGCCAGAGGAACCGCTGCCAGTACTGCCGCTACCAGAAGTGCCTGGCCATGGGGATGAAGAGAGAAG
Seq C2 exon
TGGTCCAAGATGAACGACAACGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954-'9-11,'9-10,11-11=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.348 A=0.000 C2=0.778
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PD(31.0=67.3),PF0010513=zf-C4=PU(15.7=21.2)
A:
PF0010513=zf-C4=PD(82.9=95.1)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAACTCCACCGTGTCCATG
R:
ATCGTTGTCGTTCATCTTGGACC
Band lengths:
178-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]