GgaEX1050639 @ galGal4
Exon Skipping
Gene
ENSGALG00000002626 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr17:7333799-7341651:+
Coord C1 exon
chr17:7333799-7333949
Coord A exon
chr17:7334731-7334910
Coord C2 exon
chr17:7341482-7341651
Length
180 bp
Sequences
Splice sites
3' ss Seq
GCCCTTTCACCCATCTGCAGGTA
3' ss Score
10.66
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
CTCAACTCACCCATGAACCCCGTCAGCAGCTCAGAAGACATCAAGCCACCCCTGGGGCTCAATGGAGTCCTCAAAGTGCCAGCACATCCCTCAGGAACAATGGCCTCCTTCACCAAGCACATATGTGCCATCTGCGGGGACAGATCTTCAG
Seq A exon
GTAAACATTATGGGGTGTACAGCTGCGAGGGCTGCAAAGGCTTCTTCAAACGCACGGTGAGGAAGGACCTGACCTACACCTGCCGTGACAACAAGGACTGCTTGATCGACAAGCGCCAGCGCAACCGCTGCCAGTACTGCCGCTACCAGAAGTGTCTTGCCATGGGGATGAAGAGGGAAG
Seq C2 exon
CTGTGCAGGAGGAGAGGCAGCGGGGGAAGGACCGCAACGAGAACGAGGTGGAGTCCACAAGTAGCGCCAACGAGGACATGCCCGTGGAGAAGATCCTGGAAGCAGAACTCGCTGTGGAGCCAAAGACAGAGACGTACATTGAGGCAAACATGGGCCTGACGCCGAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626-'2-5,'2-2,3-5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.490 A=0.000 C2=0.561
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PD(28.4=64.7),PF0010513=zf-C4=PU(15.7=21.6)
A:
PF0010513=zf-C4=PD(82.9=95.1)
C2:
PF0010425=Hormone_recep=PU(3.7=12.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACATCAAGCCACCCCTG
R:
CGTCTCTGTCTTTGGCTCCAC
Band lengths:
252-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]