BtaEX6047573 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017851 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr11:105996708-106004390:+
Coord C1 exon
chr11:105996708-105996858
Coord A exon
chr11:105997303-105997482
Coord C2 exon
chr11:106004221-106004390
Length
180 bp
Sequences
Splice sites
3' ss Seq
CACGGCCGCCCCGCCCGCAGGCA
3' ss Score
9.45
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
Exon sequences
Seq C1 exon
CTCAGCTCGCCCATGAACCCCGTGAGCAGCAGCGAGGACATCAAGCCCCCACTGGGCCTCAATGGTGTCCTCAAAGTGCCGGCCCACCCCTCAGGGAACATGGCGTCCTTCACCAAGCACATCTGTGCCATCTGCGGGGACCGCTCCTCAG
Seq A exon
GCAAGCACTACGGGGTGTACAGCTGCGAGGGCTGCAAGGGCTTCTTCAAGCGGACGGTGCGCAAGGACCTGACCTACACCTGCCGGGACAACAAGGACTGCCTGATTGACAAGCGGCAGCGCAACCGCTGCCAGTACTGCCGCTACCAGAAGTGCCTGGCCATGGGCATGAAGCGCGAAG
Seq C2 exon
CCGTGCAGGAGGAGCGGCAGCGGGGCAAGGACCGGGGCGAGAGCGAGGTGGAGTCCAGCAGCAGCGCCAACGAGGACATGCCAGTGGAGAAGATCCTGGAGGCCGAGCTGGCCGTCGAGCCCAAGACCGAGACCTACGTGGAGGCGAACGTGGGGCTGAACCCCAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017851-'4-4,'4-3,5-4=AN
Average complexity
A_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=0.544
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(2.1=7.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGGGCCTCAATGGTGTC
R:
CTCCACGTAGGTCTCGGTCTT
Band lengths:
245-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]