RnoINT0130053 @ rn6
Intron Retention
Gene
ENSRNOG00000000464 | Rxrb
Description
retinoid X receptor beta [Source:RGD Symbol;Acc:3611]
Coordinates
chr20:3827044-3827479:+
Coord C1 exon
chr20:3827044-3827173
Coord A exon
chr20:3827174-3827346
Coord C2 exon
chr20:3827347-3827479
Length
173 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CGGTGCCTTCTGGCCCCTAGGCT
3' ss Score
8.9
Exon sequences
Seq C1 exon
CCCAATGACCCAGTGACTAACATCTGCCAGGCGGCTGACAAGCAGCTGTTCACACTCGTGGAGTGGGCCAAGAGGATCCCGCACTTTTCCTCCCTACCTCTGGACGACCAGGTCATACTGCTGCGGGCAG
Seq A exon
GTCAGTGGCTGTGACTCTCTGACCTCGCCTCCTGGCCTTCAGTGACCCCAGTAGCGTTCATTCTCTTGCACATTCAGGGAGCCCAGCGGCTACTTTGCCCCCTGTTGTCTTTGTACTTGGGTTCCCATGGCCTGGTGTCTGGCCGCTGACCCTCGGTGCCTTCTGGCCCCTAG
Seq C2 exon
GCTGGAATGAGCTCCTCATTGCGTCCTTCTCCCATCGGTCCATCGATGTCCGAGATGGCATCCTCCTGGCCACGGGTCTTCATGTGCACAGAAACTCAGCCCATTCTGCAGGCGTGGGAGCCATCTTTGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000464:ENSRNOT00000041613:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACTAACATCTGCCAGGCG
R:
CGATCAAAGATGGCTCCCACG
Band lengths:
251-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]