HsaINT0144179 @ hg38
Intron Retention
Gene
ENSG00000186350 | RXRA
Description
retinoid X receptor alpha [Source:HGNC Symbol;Acc:HGNC:10477]
Coordinates
chr9:134401396-134401882:+
Coord C1 exon
chr9:134401396-134401540
Coord A exon
chr9:134401541-134401631
Coord C2 exon
chr9:134401632-134401882
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
TGCGGCTTCTTGTCTTGCAGATT
3' ss Score
11.08
Exon sequences
Seq C1 exon
GCCCAGCCTAAAGCCGGGGTCAGGCGCAGAACAGTACCTTGGAGGGGAGCTCTGGGCACACCTGGCCCGTAGTGAGTGTGAATTTGCGTCAGAGAGCTGTCGAGACCCACGGGGCCACCTTGAGGGTGCCGGGGTCTTCCCGCAG
Seq A exon
GTGCGTGCATCTGTAGCTGGGGGGAGCAGGCATTTGGTGGGGCCTGGAGTCACCTGCACTGACCACTCTCCTGCGGCTTCTTGTCTTGCAG
Seq C2 exon
ATTTCTCCACCCAGGTGAACTCCTCCCTCACCTCCCCGACGGGGCGAGGCTCCATGGCTGCCCCCTCGCTGCACCCGTCCCTGGGGCCTGGCATCGGCTCCCCGGGACAGCTGCATTCTCCCATCAGCACCCTGAGCTCCCCCATCAACGGCATGGGCCCGCCTTTCTCGGTCATCAGCTCCCCCATGGGCCCCCACTCCATGTCGGTGCCCACCACACCCACCCTGGGCTTCAGCACTGGCAGCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186350:ENST00000356384:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.905
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF118253=Nuc_recep-AF1=PU(68.8=91.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGAGAGCTGTCGAGACCC
R:
GATGGGAGAATGCAGCTGTCC
Band lengths:
183-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development