HsaINT0144186 @ hg19
Intron Retention
Gene
ENSG00000186350 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:10477]
Coordinates
chr9:137323751-137326053:+
Coord C1 exon
chr9:137323751-137323842
Coord A exon
chr9:137323843-137325947
Coord C2 exon
chr9:137325948-137326053
Length
2105 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGG
5' ss Score
7.13
3' ss Seq
CTGTGGCTTCTTCCTTTCAGACT
3' ss Score
10.03
Exon sequences
Seq C1 exon
GGTGCTGACGGAGCTTGTGTCCAAGATGCGGGACATGCAGATGGACAAGACGGAGCTGGGCTGCCTGCGCGCCATCGTCCTCTTTAACCCTG
Seq A exon
GTATGGCCTTCCTGCCTTGAGGCTTCTGGCCCCGTTCTCTGGTGGGGCAGAGGTGCCTGGGCCTCCTCCTGGCTGTACTTCTTGCCTCTGGCTACATGTGGGGCCAACTCCCACCCTCCTTGAGCTCAGTGTGCCCCCCTCCCAGTGAAAGTGTGGCCATGCTGCCTTCTGCTCACCTTGAGGGCCAGCCAAGGGGGCATGGTCCCTGGGCACAGGGGGACCCAGCAAGGCAGTTGTCATGAGGGGCTTGGTGGTGCCGTCTGGGCTCCGCGGTTCATAGTGTTCATCACTGTGCGTCGGAATCCAGACTCCGAAAGTGGCCAGCTGTGGTTGTGAACTTCCGGTGCTGAAGTTCAGGAGTCCCAAGCCCTGCAGGCTGGGGATGGGTCAGGCCTGCCGGGTGTTCCAGAGGGGACCAACCTCATCCCCAAGCCTCGGGTCCAGGGTGTTTCTGGGGCTGGGCCCCTGTGGTTGAGGAGAGCAGGGCTTGGGGCTGTGGGGCTGGGGCTGGGCACAGGCCTCCTGGCCGACAGTGCGGCCCTTCTCCAGCCTCTGGGTTCTCGGCTTGAAAAGCCTCCTAGGTGCTACTCCTTCGCCCAACAAGTGCTGACACGTGCCTGTTTGCTCGGTGCCCTGCTGGCATGGGAGGGCCCCTTCAAGCTGCTGGATAGGGCTTGCCTGCCTAGAGCTTGGGGTTTAGAGGGTCACGCCCACCAGCAGGCACCCCCGGCACGTGAGGGCAGGAGCACGGTTGGTCGAGGGTGCGGGCCACTTCCTCCGGGAGCTGCAAGTTAGGGGCCAGGGGAGTGAGAGGCACGGAGGTGGGGTGGGCTGGTGGAGGCAGCCCAGGCAGGGCCTTGAAAGTCTTGCTAAGTTTGGGTTTTTTCTTGGGGCCACAGGGAGCCAAGTCCTGAGGGGTTCCAGCCGGGAGGGAGCTATGGGTTTCTGTGTTTGGAAACTCAGCTCATTGCGTGATAGGGGCAGGTGGCTGGGGTGTGGAGGGAGAGGTTTGGGGCTGCTGTGGGGAGCTCACTTGGGCTATGGTGGAGGGAGTGGAGCCCTCTCGGCTCCTGGCCCTGACCTTCTGACCTTGCCCTTTGTCAGACCTGGCTCTGAGGGACCGGGCCGGGATGGAGATGGGCATCTTCTTGTGGGGAGAGCTTGTTTCCAGGGTCATTTTATCACCCAGGCTGTGCATCCGGGCCGTAATCCTGCCAGCTCGGAGGCTGAGTCATGCCACGGCCCGGCCCGGCCCGAGGAATCCCCATTCAGGTCCTGTGTGGTCTGGTTGCTAGAGCTGGGGCACCAGCAGGACCTGGGCACCGGCTTGCAGGGAGGGTGAGATTGTCTGGCACAAGCAGGGTCCAGGCACAGGCTTGCAGGGAAAGCGAAGAGACCAGGGCACAGGCATGCAGGGAGGGCGAGGAGACTGGCTGGAGCGGAGGCAGCTGGGGGAGCCAGGTACGTTGCCAAGGAGCCCAGGACACAGGCCAAGGTGGCATTCACAGGGGGTCCCTGGGCCTTGGGGGCCAAGGTGGCATTCACAGGGGGTCCCTGGGCCTTGGAGGTTTTGGTGGCTGCAATCTTAGCCTCTCTGTCCACTCTAGGCTCTTGAGCCCGGGTCCTGAGCTCAGGACTCCGCAAGCACACCGAGGATGGGTTTCCGCAGGGTCTGGGTACTCCTGGGGGCAGCAGCGCTATCTCCCATCCATGTTATGGGGCTGGGACCCAAGGGCAGCAGCAGCATCCATTGTCTCTCCCAGTTCCCAAGGCGGCTGGAAGGAAGGCAGCAGATCCCTGACACTTTATCGATGGGGAAACCGAGTCTCTGGAGGTCAAATAGTTGACCCAAGGTCACGTGGCTGGCAAGTGGCAGAGCTGAGCCTGGACCCAGAGCAGCCTGGCCTGGCCGTGGGTTCCACAGTCGTCCCCCTGCCACCAGGCTCTGGGGGAGCGGGCGGAGGCATGTCCAGCGGCATTCCTCCACCACCTGCTCTGCCCATGGTGGGGCAGCCTGGGAGACCCCACACAAGCCTGGGTCCTGGGGGCAGGTGCCCGAGACACGCCCCAGCTGAGGGTTCTGACCTGTGGCTTCTTCCTTTCAG
Seq C2 exon
ACTCCAAGGGGCTCTCGAACCCGGCCGAGGTGGAGGCGCTGAGGGAGAAGGTCTATGCGTCCTTGGAGGCCTACTGCAAGCACAAGTACCCAGAGCAGCCGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186350-RXRA:NM_002957:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(16.1=100)
A:
NA
C2:
PF0010425=Hormone_recep=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)