RnoINT0130056 @ rn6
Intron Retention
Gene
ENSRNOG00000000464 | Rxrb
Description
retinoid X receptor beta [Source:RGD Symbol;Acc:3611]
Coordinates
chr20:3827861-3829140:+
Coord C1 exon
chr20:3827861-3827966
Coord A exon
chr20:3827967-3828066
Coord C2 exon
chr20:3828067-3829140
Length
100 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCCTCCCACCCTCACCTCAGGTT
3' ss Score
9.45
Exon sequences
Seq C1 exon
ACGCCAAGGGCCTCTCCAACCCTGGAGAGGTGGAGATCCTTCGGGAGAAGGTGTATGCCTCACTGGAGACCTACTGCAAGCAGAAGTATCCTGAGCAGCAGGGCCG
Seq A exon
GTGAGGGGCTGCGGGGCTGTGGCCAGCTCGGAGGGTGAAGCAGGGCTCTGTCCAGGGCCTGGGTGGTGCTGGCTCTCACTCCCTCCCACCCTCACCTCAG
Seq C2 exon
GTTTGCCAAGCTGCTACTACGTCTTCCTGCCCTGCGCTCCATCGGCCTCAAGTGTCTGGAGCACCTGTTCTTCTTCAAGCTCATTGGCGACACCCCCATTGACACCTTCCTCATGGAGATGCTTGAGGCTCCCCACCAGCTAGCCTGAGTCCGGATGCACACGGAGGGAGAGTGTCGCTGAGGAGGACTTGAGCCGGGCGGGGGCGAGAGCCATGGGACAGGTGCAGAGCAGGAGGGGACTTGCCCATCCTGCCAGGGGTCTGGCAACACTTAACAGGGTTTGCGTGGTCCCCAAGTCAGAGCAGAGGGGACCCCAGATCCCTGTGACGACTACATGTCTACCTTCAGTGGCCTTGAGTCTCTGAATTTGTCGGGGTCTCCCATGGTGCGGGTGACTCCTCATCCTGACTCCCCAGCACCAAGCCCTGCCCTGCTCCCGGGACCCTGCCCCCTTCTCATTAGCCTCACTCCCTTCTGAAGAGTGGAACGGAGCTCCCCAGAAAGGGGTGTTGTGGGGCAGGCCCCCAAGCCGGTGGTCTTGGGAGGGAGCAGGGCTCGGACAGCCCTTCAGCCTCCCAGGCTCGGCAGGTGGGGCAGAGGAGGGCCTGCCTCTGTCCTGTCAGCCCTTTCCACAGTACCTGCTGCAGTCAGACTGAAGAACAAAGAGGCTGTGAAGGGGCCGCTGAGGAGGAGGCCATTGCTATTTTTAATTTCCTGTGAGGAGAGACTGGGAGTTAGACTCAAAGAAGAAGTACTGTACATCCCCAGGTTGACTTAAATGTCAGGGCTGGAGGTGGCATGTGGGCAAGGAGGCCCCTCAGGTGGTCTGTCCTGGAGCTGTCTGGGCTCTGCCTTCCTCATCTTCCCTGCAGCTCTGGACTGAGAGGCGGTGGCCCCTCCTTGCCCCGCTCTTCCCTAATCCTCAGCGCAGCTAGTCTGGGAACAGGGAGAATGTGGGGTGGCCAGCCTGCAGAGATGGGTGCTGGGCTGCATGGTTTTTGCCCTGGATCTCTTTTGGGGGGGGGTTCCCTCCCATCTTTCACTTGCACATAAAGTCGCTTTCCAGTTAAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000464:ENSRNOT00000041613:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PD(25.0=94.6)
A:
NA
C2:
PF0010425=Hormone_recep=PD(15.3=56.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCACTGGAGACCTACTGCA
R:
CTCAAGTCCTCCTCAGCGACA
Band lengths:
242-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]