BtaINT0127973 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000602 | RXRB
Description
Bos taurus retinoid X receptor, beta (RXRB), mRNA. [Source:RefSeq mRNA;Acc:NM_001083640]
Coordinates
chr23:7322143-7322617:-
Coord C1 exon
chr23:7322488-7322617
Coord A exon
chr23:7322276-7322487
Coord C2 exon
chr23:7322143-7322275
Length
212 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCCACCCCCCGCCCCCCCAGGGT
3' ss Score
9.71
Exon sequences
Seq C1 exon
CCAAATGACCCTGTGACCAACATCTGCCAGGCAGCTGACAAACAGCTCTTCACGCTTGTTGAATGGGCAAAGAGGATCCCCCACTTTTCCTCCTTGCCTCTGGATGACCAGGTCATATTGCTACGGGCAG
Seq A exon
GTCAGTGACCATGGACCCCTCAGACCTCTTGTCTTTGGACCCCTCTTGGACCTCCTGACCTTCAGGGACCCCAGAGACCTTACCTTGCATTTTCAGGGAGCCAGTCTCGTTGACCTCACCCCCTCTTCTCCCCTTCCCTCAATGTGCTCTCCATCCCGTGGCCTCGTCCCTGGCCCCTGACCCTTGTGGCACCCCACCCCCCGCCCCCCCAG
Seq C2 exon
GGTGGAACGAGCTGCTCATCGCCTCCTTCTCTCACCGATCCATCGATGTCCGAGACGGCATCCTCCTCGCCACAGGTCTCCACGTGCACCGCAACTCAGCCCATTCCGCAGGCGTGGGAGCCATCTTCGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000602:ENSBTAT00000000860:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(23.5=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(24.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAATGACCCTGTGACCAACA
R:
TCGAAGATGGCTCCCACGC
Band lengths:
260-472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]