DreEX0063854 @ danRer10
Exon Skipping
Gene
ENSDARG00000004697 | rxrgb
Description
retinoid X receptor, gamma b [Source:ZFIN;Acc:ZDB-GENE-040718-34]
Coordinates
chr20:33972376-34006982:+
Coord C1 exon
chr20:33972376-33972462
Coord A exon
chr20:34002254-34002486
Coord C2 exon
chr20:34006838-34006982
Length
233 bp
Sequences
Splice sites
3' ss Seq
CTCTTGTCATCTCTTCACAGACT
3' ss Score
9.48
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
Exon sequences
Seq C1 exon
GAGAGGGGTGCTGCCGCGCGCCTCCAGGACAAGACCTGACTATAAACTAACGCGGAATGGATACTCACGACACATATTTACATCTCC
Seq A exon
ACTCTAGTCCTCTTAACTCGTCCCCCTCTCAGCCGCCGGTCATGAGCTCTATGGTGGGTCATCCGTCCGTCATCAGCTCCTCTCGCCCCCTGCCGTCCCCCATGAGCACTCTGGGCTCCTCTATGAATGGCCTGCCCTCACCCTACTCCGTCATCACCCCGTCTCTCAGTTCGCCCTCCATTTCCCTGCCCTCCACACCCAGCATGGGCTTTAACACCCTCAACAGCCCACAG
Seq C2 exon
ATGAACTCTCTCAGTATGAATGGCAATGAAGACATCAAGCCCCCGCCAGGATTGGCACCGCTGGGCAACATGAGCAGCTACCAGTGCACCAGCCCTGGATCTCTGTCCAAACACATCTGTGCCATCTGTGGAGACCGATCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004697-'0-2,'0-1,3-2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=0.724 C2=0.408
Domain overlap (PFAM):
C1:
NO
A:
PF118253=Nuc_recep-AF1=PU(67.9=97.4)
C2:
PF118253=Nuc_recep-AF1=PD(30.4=69.4),PF0010513=zf-C4=PU(15.7=22.4)
Main Skipping Isoform:
NA
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:
CGCCTCCAGGACAAGACCT
R:
CTGAAGATCGGTCTCCACAGA
Band lengths:
214-447
Functional annotations
There are 1 annotated functions for this event
PMID: 11162439
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, protein kinase assay. ELM ID: ELMI001406; ELM sequence: GRGSMAA; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]