DreEX0063836 @ danRer10
Exon Skipping
Gene
ENSDARG00000078954 | rxrba
Description
retinoid x receptor, beta a [Source:ZFIN;Acc:ZDB-GENE-980526-436]
Coordinates
chr19:7341558-7346627:-
Coord C1 exon
chr19:7346448-7346627
Coord A exon
chr19:7344155-7344178
Coord C2 exon
chr19:7341558-7341718
Length
24 bp
Sequences
Splice sites
3' ss Seq
TCCTCCCTCTCCTTCTGTAGTGG
3' ss Score
8.74
5' ss Seq
GATGTAAGG
5' ss Score
6.35
Exon sequences
Seq C1 exon
GCAAGCACTATGGAGTGTACAGCTGCGAGGGCTGCAAGGGCTTTTTCAAGCGCACTGTGAGGAAGGACCTTAGCTACACATGCAGAGACAATAAAGACTGTCTGGTGGACAAGCGCCAGAGGAACCGCTGCCAGTACTGCCGCTACCAGAAGTGCCTGGCCATGGGGATGAAGAGAGAAG
Seq A exon
TGGTCCAAGATGAACGACAACGAT
Seq C2 exon
CCGTTCAGGAGGAGCGTCAGAGAAACAAAGAGCGCGATGGAGAGGTGGAGTCCTCCAGCGCTGCCAATGAGGAGATGCCCGTGGAGAAGATTCTGGAGGCAGAGATGGCTGTAGAGCAGAAGACTGAGCTGCATGCTGATGGCAGCTCAGGGGGAAGCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078954_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.778 C2=0.747
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(82.9=95.1)
A:
NO
C2:
PF0010425=Hormone_recep=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Skipping 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:
GGCCATGGGGATGAAGAGAGA
R:
ATCTTCTCCACGGGCATCTCC
Band lengths:
114-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]