BtaINT0127976 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000602 | RXRB
Description
Bos taurus retinoid X receptor, beta (RXRB), mRNA. [Source:RefSeq mRNA;Acc:NM_001083640]
Coordinates
chr23:7320233-7321617:-
Coord C1 exon
chr23:7321512-7321617
Coord A exon
chr23:7321402-7321511
Coord C2 exon
chr23:7320233-7321401
Length
110 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
AGCATCTCCCATGCCCTCAGGTT
3' ss Score
8.11
Exon sequences
Seq C1 exon
ATGCCAAGGGCCTCTCCAACCCCAGCGAGGTTGAGGTCCTGCGAGAGAAAGTATATGCATCCCTGGAGACCTACTGCAAACAGAAGTACCCTGAGCAACAGGGCCG
Seq A exon
GTGAGATAGCGCTGAGGGGCCCCGGGCCCGCGCTGGGGTGGGGGTGCCACCGGGGCGTGTTCAGGGCCCGCGTGGCCCCAGCTCTTACTCAGCATCTCCCATGCCCTCAG
Seq C2 exon
GTTTGCCAAGCTGCTGCTGCGTCTTCCTGCTCTCAGGTCCATAGGCCTTAAGTGTCTAGAGCATCTGTTTTTCTTCAAGCTCATCGGCGACACCCCCATCGACACCTTCCTCATGGAGATGCTTGAGGCTCCCCACCAACTGGCCTGAGCCCACTCACAGACGTGCTGTTCCTCATGCTGGGGGAGGGCACAGCGGCGAGGGATTCTGGGCCTTCGGGCCGGGTGGGGAGGGACTGTGTTCCTAGAATCTTGATGGGAAGGAGGAGCACAGGGCAGAACTGAGGCCTCCAGGGGGTGTCCCTAAACCCTGCAAGGGTTTGCTTGAGGTCCCAAGTCAGAGGGACCCAGACCTGGTGGGCCTCTCCCTGCGGCGGCCTCGAGTCTCCGAGTTTGGCTCTGCCATGGTCTGGGGGGCTTTCAGAACTCCAGCCTGGAGTGGCCTCTCCTCCCCCAGCACAAAGCCCTGGCCTTGCTCCCAGGTCCTTGCTTCTTGTCGTCTTGCCTGACTCGGCATCCCCATCCGAAGAATGGAAAGAGAACTCCCGCAGAGATGGACGTTGGGGGGCAGGCCCCCCAAACTGATGGACATGGGAGGCAAGCTCTGACAGGCCTTCCTCTAACCCAGCCTGGCAGATGGGGGCTTCTCTGGAAGGAAGGGACCCTGTCACTGTCTCCTGGCCAGAGTCCTGTCTCACACTTCCCCACCTCCAGCAGTCAGACTGAAAAAGGTGGTGGTGGTGAAGGGGTGGTGGGAACCCATCTGCTATTTTTAATTTCCTCGAGGACAGAGACTTGCAGTTAGACTCAAAGAAGTACTGTACTTCCCCAGGTTGACTAAGAGATGCCAGTGGTGGAGGTGGTGTCTGGGAAAGGCAGGGGCCGGGGTGCTCTGGGTTCTCTGCGGCTCTTATGTCTGTCTTGGGGAAGGGGCCTGGGCTGAGGGCAGGGCCGGGGTGGTGAGTTGTCCTCAGGCCTTTCCCGTTTCAGCTCCCCCTGCAGCCCCGGGCTCACCCCGCAGAGCCTGGGACACTGAGTGTCAGGGCCTGATTGAGGGGAGATGGCCGGCCTGCGGAGGTGGGGTGCTGGGGCTGCATGACTTCTGCCCGGCGGCTCTTCTCTCCGGGGTTCTCTTCCCCTGTCTTTCACTCACATAAAATCGCTTTCAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000602:ENSBTAT00000000860:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(19.1=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(15.3=56.0)
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:
TGAGGTCCTGCGAGAGAAAGT
R:
CAGCATGAGGAACAGCACGTC
Band lengths:
255-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]