HsaINT0144180 @ hg19
Intron Retention
Gene
ENSG00000186350 | RXRA
Description
retinoid X receptor, alpha [Source:HGNC Symbol;Acc:10477]
Coordinates
chr9:137293478-137300145:+
Coord C1 exon
chr9:137293478-137293728
Coord A exon
chr9:137293729-137299994
Coord C2 exon
chr9:137299995-137300145
Length
6266 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GCTGTGGTTGCCCCCCCCAGCTC
3' ss Score
5.45
Exon sequences
Seq C1 exon
ATTTCTCCACCCAGGTGAACTCCTCCCTCACCTCCCCGACGGGGCGAGGCTCCATGGCTGCCCCCTCGCTGCACCCGTCCCTGGGGCCTGGCATCGGCTCCCCGGGACAGCTGCATTCTCCCATCAGCACCCTGAGCTCCCCCATCAACGGCATGGGCCCGCCTTTCTCGGTCATCAGCTCCCCCATGGGCCCCCACTCCATGTCGGTGCCCACCACACCCACCCTGGGCTTCAGCACTGGCAGCCCCCAG
Seq A exon
GTGAGTGCGGGGCTGGGGCAAGGGGAGGGGGTGGGGCCTGGGGTGGGGCTGTGGCTTCAACTGCAGGACGACCGCCTCATCTTGAGGCCTCTGGGAGGTAGGTGCTGTGGTCTCCCCGCTTGACGCAGAGTATACAGAGCCTCGGGGAGCAGAGTGCCGTGGGGGTTTGAGCCCAGGTGGGGCTGACTGCTGAGCCTGGGCCTTTGGATCATCAGCCGAGGTGACTTGCAGCTGGTTATCTGCCCACGTGGCCCCTTCCCATGCCGGAGGGCTCGGGACTCCCTGTTCCCATGACTGGGGGACTCAGCAGAGAGAGGCTGTGGCCTCCCTCAGGCCTAAGCCTGCTTCCCCAAAAGCTTGTGCCCACACAGCCTGGGTCCTCCCCTGAAGTCTCTGCTTACACCCAGGCCAAAGGGCCCCCAGGGAAGGCGTGTTCGGGCTCAGGGCAGCTGCGTCCCCTCTCAGGGATGCCGGCCCTGGGACCTGCAGTGGCCAGGTGTGGCAGCGGTGCTCTGTGGTCTCGGCTCCCCCACGGCTCTGTGGGCGCCTGGCCGTCTGTGGGGCGTGGGGACCTTTTCCACAGTTGAGGTTTGCTCAGTCGCTTCTCCAGCTCAGCCTGGCCCTTTGGGCTGTTTCTGGATCAGGAAGGGCTGGTGCCTGGCAGAGCCTGGCGCAGTCCAGGTCTTGTCATGGAGAACTTGGGGACCTGGTCCGTGCTCCCCTTCTTCCTTGGAGAAGACACCCCGAGTAGTGTCTCTTGTGGAGTTGTTCCCAGCCCTGGGGTGTCCGGTCTGTGAGGGTGGAGGGCGAGGCTGGGCCTCGTCCCCTGGCTCCCGGTGGTTGCTTGTGGATTTCCACCTGGCCGGCCGGAACCTCCCAGACTCCCACTAGGCCCTCCCTCTCCAGGGGCTCCTCACATGAGCAGGGGTGCTCCTTCCGCTCTGAATTTCTGTGTTTGGGTTTCACCCTGTGTTCCTAGTAGCTGAAGGCTCCATGGCAGAGTTTTGGTGCCATCTCAGGACAGCCCACCCGGGTGGGACTCGCCCTAGGAGCTCCTCTGCCCACACACAGCTGACAGCACCAGATGTGTCCTGTGGACTCCCAAACCCCCTGCTGCCCTGCCTCAGTTTACCTAGGGCAGGCACTAGGCCCAAGGGATTGCATGTGAGGGGGCCAGGAGGCAGCAGGTGGACACCTAGTCCCAAGCCCCCATGCCATCTCCCGGGTAGTCCAGGACTGCTCCTGACCTAGGACTGGGCTGTAGTTGGGGTCTGGAGCCGGCCTGCTGCCCATCCACCTGGCCCTGTTTAGAGCTGGCCTTGACCTCCCGAGCTCCTTTTCCCTGGAGAATCTTGCTGGCTTTCTGGGCCAACCCCATCAAAGCCCCTCTGCTTTGGGGGATGTGTGCAGAAGAACTGGGGCCTCTGCTCCGTGTCCCCCTCATATCACCTGGCCTTCCGAAAGCAGGCAGCAGGCCCAAGGTGCTGGCACGAGGGAGGCCTGGTCATGTTATTTTTAGCACACCAGCCCTGCCCCTGCTCTTGTTGGCAGCATGGTGCCCTGTGGCGAGAGGGCGATGAAGACTCGGCTTCCGCCTGTCCCTTGGCTGACTGGCTGGCACCTGCTGGGTCCCAGGGCCCCAGGATGCCCCTTGCTGGGTCCTCCCAGGTCTGCCGCCTGTCCTGGACACCCAGGGGTCTAGTGCACAGTAGGTTACCCCCTGCGGGTGGCAGTGGTGCTCCCAGAATCCTCAGGGATGCCTGGTGTCCTCCGCACTGTTGAGCTCTTCTCGGGGAGGGGATGGGCAGCACTAGGGGAGGAGGCTTTTCAGGGCTGCTTCTGGGCCATTCTCTGTTGCTTCCTGTGCAGCCAGGCTCCTGGCACAAAGTAGGGACTTGTTGAAGCCAAGTTGCTTGGGAGTGAGTGGTGCAGGTCCCCTTGACATTGGCGAGGTCCCCGGGGTGGGTGTGGGTGAGGAGCAGACGCGGGTTGCCCCAGACGTTCCCTGCCCGGCCGCTGTTGGCGTCGGTCTGCCGTTGGGCTGTGGGTCTCACCCGCAGTTAGTTTGCCGTGGTCTGAGGCCCATGCTTGACTTGGCCCTGGTTCCCCAGAACCCATAGCTCCTTCCCTGGGGGTTGAGTCCAGCTTTGAGGCCTCAGCAGTTTGTCTTGGAACCCTGGGGTTCCTCACATTCATGGGAGTGTGAGCAGGGTTTCAGGAGGGATGTGCCCCCACTCCTAGCCCCAAAACCACAACCGCAAAGTCAGAGTCGCTGGAGCCAGAGAGATTCTCTGACTTCTGCTGCTGTTGGGGAGGGCCAGGCACTCTGCCAAATGCTGCCTTCTGCCTTCTCAAGTCCATGGCCAGGAAGGGCCTTCCATGTGGCGGCGTCCAGGCCACTCGCCCCTCCTGGTGGGGGAATAGGAGTCTGGGGGGGCTTGGGTAGACCCAGGCCAGACCGCAGCTGCCTGGCCCCTGAGCTGTCCCAAATCTCTTCCCTGGTCTGCAGGCTGTACTCCCAGAGCAGGCCCGGGGGACATTCCCCACAGTGTCCCAGAGCCTTCCTGGCTGCAGCCGGCTCACCTGGGCGCGTTGCAGGTATTGGTGGAGTGAGTTGGTGCCAGCTTCCACACAGCACTTCTGAGTGCCCGGCATGGAGCTGGACTTGGTGTCAAGGCCTCTGAGCTCTAGCAAAGCCTCCTGGTGGGAGGGCCTGCCCAGGGCCTGTGGGGCTGTGATGTGTGCACAGGGAGTGTGGACGCGAGGCTGAGCGGGCTTCACGGGGTCGGAAGCAGGGCAGCACAGGCGCCTACCCGCCAGGGACTGAGGTCGGAGGGGAGTGTGCAGAGGAGCTGGTTTGCTCCTGCCTCGATGGACAGATGAGGTCCAGCAAGGTCCAGGGGCCTGCTCCTGGCGCAGAGTGGGCCTTTCCCAAGTCGGGGCTGGTGGAGAGACCCTTCAGGGGCTCAGGAAGGAAGGGTGTGGTGGGTGTGAGGAGAGAGCCAAGAGACGGGCAGGAGACCTGGGTGGGGCATCGAGGCGGCGGGAACTGAAATAAGTGCCAAGGATCTGAAAGGGGAAATGCGATGGCCCCCACCCTGGCCACGCGTGGAGTCCTGAGGCTCCAGCGAAGCAACAATGGCAGCCTGGCTCTCCTGGGAGCGGGAGCAGGGAGTGTGGGAGGAGACCCTGGATAGCTGGGGGGCTGTGGAGCCCACTGGGGGAGGGACAGACCAAGGCAGACCCCCGGGGCGGCCCTGTGCTGTGCTCCGGGGGCTGTGAGCCAACCCGAGGCCCAGCAGCCTGGGGCTGGAAGGGCGGAAGAACGCCCGCCTGGCCTCCCCATCCTGGCACAGCCTTGCTTCTGTAGCCTGGACCGTCCTCCAGGTGAGCCCAAAGAAGCAAGGTGGGTGGCCCCAGGGCCTGCAGCCTGGATGGGCACCTCAGCCCGGGCTCCACTCTTCTCAGATGTGCAGAGGCTCACCGGGCCCTGGGCTCACTGGGCTAGCCAGACCCTCTGATATCACTGAGGTCTGGGGGAGCCAGGGATGCAGGCTAAGTTCAGCGCGGGAGCTGGCTTGGCCCTGACACTGAGAGGGAGGGGGACCGTCTGCCATTCTGTCCTGCCTGGAGTCCCTTTCCCGGCCAGGGCTGCTCTGGTGCTCCCTCAGTTTACCCAGGGCAGGTGCTAGGCCCAAGGGACTGCACATGGAGGGCCGGGAGGCAGCAGGTGGATCCCTACCCACCCGAGGTGGTTTGGGACAGCCTAGAAAGAGGAAGTGCGTGAGTTCCTTTCCTTTGTGCTTCCGAGCAACCTGGACCTGCAGAGTCATGGCCTGTGCTCCTCCAGCCTCTGGCCCAAGGGGCTCCTGCTCACACGCCTCGGTGCCTCCCCAGTGCTAGGGCACAAAGCGAGGGTGCCCGACACTTCCTGCTTGTGGATGCCTTTGCTGCCCCTGCTCTGACCTGATCCCCGCCCTGGCTGTACCTACTTCTTTCCTTTTTTCAAACAAGCCCTTTGCTTCCCCACCTCTGAACACTGGCTTGGGGGCCCCTGTGCCTGGGACACCCCTTTCTTCCTCCCAGGCCCTGGCCCATCTCCTCCAGGAAGCTTGAGTGCTCACTGCAGCCACCGGCCTCCCTGTAAGACAGTGAGTTGTCTGCGAGCTCTGCTCTGAGCCCTGGCACATGGAGCGACTCAGTTACACTTAATCAGCTCTTAGAGGCACTGGCTGGGCATGGTGGCTCAACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGAGGATTGCTTGAGCCTAGGAGTTGGAGACAAGCCTGGGCAACATAGTTGAGACCCCACCACTAGAAAAAAAAAAAATAGCTGAGTGCAGTGGCATGGACTTGTAATCCCAGCTACTCAGGAGGCTGAAGCAGGAGGATCAATTGGGCCTGGAAGTTTGAGGCTGCAGTGACTGTGATTGTGCCACTGTCCTCCAGCCTGGGCAACAGAGTGAGACCCTGTTTCGGAAAAAAAAAAAAAAAAAAAAGAGAAAAGAAGTAGGCACTAACATGGTTCCAGTTTTGCCGACGAGGAAACTCAGGCTCACAGTGATTAAATCATTTTCCGAATGTCACACGAGAACGTAGGAGGCAGGCAGAATCCGGAGCCAGGGATCCGCCTCTGGGGCCTCCAGTGCCTCCAAGCGAGACAGCCACTAGACCAGCGAGCCCTGGAGGGCTGGGCAGGGCCTTGTCCCCTGGTGCCTCCCGGAGCCCAGCACGGGGCAGGGCCAGCTGGGCACTTAGTTTGGACGAGCTCTGTCCCTCCAGGGGCTTCACTTTCGCCTTCTGCAGCGTGGGGGATCATGTGTGACCTTGGCCAGCCCCTGACCTCCCTGAGCCGCAGCCTCTGCATCTGGGACACCCAGGGTTTCCCATGCAGGGAGTGTCAAGTGTGGGTGCAAAGCCCAGGCACCGCACCCCTCTGCAGACGTCTGGGGCTTTCTCTTGCCCCTTCAGTTCCCTCCCTTCTCTGAGAAGCGCACCTGCTGCCTGTGGACATGAACACTGGGCATTTGGTGAGTCACACAGTGGCCACCCGCTTCTCCAGTGGGAGCTTCATGGCACCCCCACTGTGCTGAGTTGTCACGGGGGACCTCCTGGCCTCTCGCAGCCCACCTGAGTCCTGCAGGGACCAAGCATCCTTGTAAAGCCTCACAGCCCACCTGGGCAGATCGAGGAAGAACCTAGAAGCCAGAACAAGCTGGGGCTGGAAGACTCATTCCAGGCACCGAGGTCCATGTGAAAGGAGGCTTTGCGGTGGTTTCTGCTTTGCTTGCATTGAGCCTCAAACTCTTCCTGTCCCGTGAGAAGGGGGGATGGGATTTGGAGGCCTGAGGAAGGAAGGAGGGGAGCTTCCTGCGCACAAGCGGCGGCAGGGGTTTGCAGAAGTGGAGGCTGGGGGCTGCCTGGCCAAGCGCTTACCGCCCTGCGCAGCCAGGCTGGCTGGCAGGCTGCAGCGGGAAGCGCCTGTGGGTCCTCGGCGCTGACTGCAGAGCTGGGTGGAGGCAGCGGAACCAAAACTGCTGTGTCACTGCACGCTGCAGCTGTTGCCAGGGTGACCGGGTGAGTTTCCCACGCTTGCCCGGGCGGCAGCGTGCGGGCCGGCGGGTGGGGCGGAGGGGTGTGCAGAGAGGCCAGTGGTGTCGTGCCACCCGATGCCCGGGGGTGTCCACTCCCCTCTCCTGGGTCACGTGACCAGGGCCCCTGCCCTGCGGTGTTGTGGGGTGTATGTGTGGTTCTTGGGGGGGTCCCCAGCCCTCCTCCGTCCTGGGAACTGGGCTTCGGCGTCCTCATGTGTGGGTTGGGACCCCCCAGAGTGCCTGCCTCATGGAGTGTCCGGGGGCACCCAGCGGGGCTGGGCACTGCCAGGGGCTCAGTAATGAGAGGCAGCTCTCATTTAGGTGGGCAGCGGGCAGGGGGTTGCAAGCAGGGACCGCCCATGTGTTGGGGGGGGTGTTGAAGGTCCTTTTCCACAGAGGCCTGGGGTCTGCTGCGGGCGAGTCCTGAGGTTGCCACAGCCTCTGCTGGCCTTGCTGAGCAAGCACAGTGGCCCCGCTGCTCCGGAGCAGCGTGGCGGGTGGGGGGCACGGCCCTCTCTAGCCTCGGTGTCTGTGTGTGAAGTTGGGGGTACAGCTGCGCCATCCTTGCTGCAGGGCCGTGGGGGACATAGGGACAAACCTGGTGTACACCCCGCTGACTGCTGTGGTTGCCCCCCCCAG
Seq C2 exon
CTCAGCTCACCTATGAACCCCGTCAGCAGCAGCGAGGACATCAAGCCCCCCCTGGGCCTCAATGGCGTCCTCAAGGTCCCCGCCCACCCCTCAGGAAACATGGCTTCCTTCACCAAGCACATCTGCGCCATCTGCGGGGACCGCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000186350-RXRA:NM_002957:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.905 A=NA C2=0.490
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PU(68.8=91.7)
A:
NA
C2:
PF118253=Nuc_recep-AF1=PD(29.5=64.7),PF0010513=zf-C4=PU(15.7=21.6)
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)