RnoINT0130052 @ rn6
Intron Retention
Gene
ENSRNOG00000000464 | Rxrb
Description
retinoid X receptor beta [Source:RGD Symbol;Acc:3611]
Coordinates
chr20:3826394-3827173:+
Coord C1 exon
chr20:3826394-3826566
Coord A exon
chr20:3826567-3827043
Coord C2 exon
chr20:3827044-3827173
Length
477 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
ATCTCATCCCGTCTCCACAGCCC
3' ss Score
10
Exon sequences
Seq C1 exon
CGGTACAGGAGGAGCGACAACGGGGGAAGGACAAAGACGGGGATGGGGATGGGGCTGGGGGAGCCCCCGAGGAGATGCCGGTGGACAGGATCCTGGAGGCAGAGCTTGCTGTGGAACAGAAGAGCGACCAAGGCGTTGAGGGCCCTGGGGGCACCGGGGGGAGTGGCAGCAGC
Seq A exon
GTGAGTGATGGGTTGATACTTTCTCTCGAGGTGGGGGTGGGGGTGGGGGAAGGAGGCTGGATGTGTTCCGCCCCCCACGACCCCCTTCTTTCAATCCCTCCTCACCTTGCCCTGAACTGAAAGGCCTTTAAGTGATCTGAGGTGAACCAGGGATGGAGGCTAACAGTCTCAGCACTTGGATAGACAGAGACAAGGGATCTCTAGGAGTTAAAGACCAGCCTGGTCTACATAGCAGGTTCCAGTGATAACCGCATGGGAGACTGTCTCAGAAAGTCCTGTCTCTGGTATGGGGTGAAAGCTCCTCCTCTGCTCCCACTGGACGGCCCAAGGTTGGTGTGGTCTCTGACTGCCATCAGAGAAGCTCGCCCTGCACAGCTGTGTCCGACAGGGAGCGAGCGGAGGCATAGAGAGGAGCAGAAAAGCTCTCAGGAGGGAGGTGTTTCCATCGCTCTCATGCATCTCATCCCGTCTCCACAG
Seq C2 exon
CCCAATGACCCAGTGACTAACATCTGCCAGGCGGCTGACAAGCAGCTGTTCACACTCGTGGAGTGGGCCAAGAGGATCCCGCACTTTTCCTCCCTACCTCTGGACGACCAGGTCATACTGCTGCGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000464:ENSRNOT00000041613:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.862 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(0.1=0.0)
A:
NA
C2:
PF0010425=Hormone_recep=FE(23.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACAGGAGGAGCGACAACG
R:
CAGCAGTATGACCTGGTCGTC
Band lengths:
294-771
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]