BtaALTA0025895-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000000602 | RXRB
Description
Bos taurus retinoid X receptor, beta (RXRB), mRNA. [Source:RefSeq mRNA;Acc:NM_001083640]
Coordinates
chr23:7321936-7322275:-
Coord C1 exon
chr23:7322143-7322275
Coord A exon
NA
Coord C2 exon
chr23:7321936-7322027
Length
0 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
ACCTGCAGGTCCCTCTCCAGGGT
3' ss Score
5.34
Exon sequences
Seq C1 exon
GGTGGAACGAGCTGCTCATCGCCTCCTTCTCTCACCGATCCATCGATGTCCGAGACGGCATCCTCCTCGCCACAGGTCTCCACGTGCACCGCAACTCAGCCCATTCCGCAGGCGTGGGAGCCATCTTCGATAG
Seq A exon
NA
Seq C2 exon
GGTGCTGACAGAGCTAGTGTCCAAAATGCGGGACATGAGGATGGACAAGACAGAACTTGGCTGCCTGCGGGCAATCATTCTGTTCAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000602-10-11,10-10-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(24.0=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(16.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
CGTGGGAGCCATCTTCGATAG
R:
TGAACAGAATGATTGCCCGCA
Band lengths:
107-119
Functional annotations
There are 1 annotated functions for this event
PMID: 9150434
A Four-Amino-Acid Insertion in the Ligand-Binding Domain Inactivates hRXRbeta and Renders Dominant Negative Activity
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development