HsaINT0115665 @ hg19
Intron Retention
Gene
ENSG00000119508 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:7982]
Coordinates
chr9:102606931-102609897:+
Coord C1 exon
chr9:102606931-102607130
Coord A exon
chr9:102607131-102609718
Coord C2 exon
chr9:102609719-102609897
Length
2588 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
GTCTTCCTCTCACCTCCCAGGTC
3' ss Score
11.41
Exon sequences
Seq C1 exon
TACTGTCCCACTGACCAGGCTGCTGCAGGCACAGATGCTGAGCATGTGCAACAATTCTACAACCTCCTGACAGCCTCCATTGATGTATCCAGAAGCTGGGCAGAAAAGATTCCGGGATTTACTGATCTCCCCAAAGAAGATCAGACATTACTTATTGAATCAGCCTTTTTGGAGCTGTTTGTCCTCAGACTTTCCATCAG
Seq A exon
GTAATTACTACTATTTTATCTTCAGTCTACGTCCTTTGAAGAAGCCTGAAACCTTCTGTGTTTGTAACTGAATCATTGGTGAAACGTTTTCTCAAGAAGCAAATGTGAAATATGATCAGGCACTAAAAAGACTGAGCAGCGAGTCACGGAGGGAGCACTAGGCTTGCCACCAGGACCCGTGGGTTCTAGTCCCAGTTCTAATGTGGACTTGCTGTCACACCCTGAGCAGGTCACTTGCCTGACGGGAAGTTCAATTCCATCCTCCTTAAAAGGAAGAGGTTGGATTTGATGATCTCTTGAGGTCCCTTGCAGCTCCAACATTCTATGATTCTCGAAAGATTCTCATAGTGCATAAGCTATTTCCTGGGAGCAAGTGTTTGCTTTGGAACATTGTATTTACCTCGTGGGTTTCTGTTTAACAAGTTACTATTCTAGCACACCTGATGGGGCCCTAAAGAGTTCCCACACCTTCTCAACCCCCAGTTTTATTCCAAGAGAACACTCTTAGATAGAAAGATTTAGTCCATCCTATCATACTCAGTGACGCCAAACACAAAAAGGAAAAGTGATTTTTCAAAAACATAGAACCTTGGATCTAAGCTCCTCTAGTAAGTTCCACATGTAGATTTTTTAAAGTTTATTTTATTATTGTTTTTATTCACAAATAGCCTGTTTAACTCCATCTTCCTTGCTTCCTTTCAGTTATATATTTTTAGGAGATGATACCAACTTTTTACCAAATATTATCAGAAAAATCCATCTTTCCCCTCTTTCTCTTTCCTGCCATCACCTCCCCAATTTCATATCACTACCAGAAACTCCTGTTTAATTTTTAAAGTGCAGATTGCCAGGCCTCATTGCCATCTATTTTGGTTTGGTAGACTGTGGAAGTCCAGAAATCTGCATTTTTAACATATGCTTTAATGATTCTGATGTCATCAGGGTCCATGTTTTATACTCTGAGACTAAATCATTCTGTCCTGTGTATGCCTTCTGTGGAGGGATCAGTAGGAGAGATGGGGTGGAGTTACAACTAGAGTGCCAGTAATAGCTTAATTTGTAGCCAATCTAGTGTACACCAGAGCTGAGCCAGCAATGTGACTGTCATCTATTAGGCATGCAACAAAGGATTAAGTAGACTGTAAGCTCCATGCAGGCAGGTGCCATATATGTCCTATTCACCATGTTTTCTCCCAGTGCCTGGCTCCAGGAATAACACATACTTCATGCTCAGTAGACACTTGGCTGAGTGAAGGAATGAATGAAGCTGTTCATCCAAGAAGCACAAAGAGATATTTGACTTGTGAATACAACAGGCCAAGATAGATACATACGTGGCAAGAGATTTGAAAGTTAAAGGAAATCTAAGATTAAAGGAAGAACCACATATAATTCAGCCCCTTACTTGTTATACCCAATATTTGTCGAACCATCCTGTGTACTGGGCACCATGCATGGGCTTTCAAATCCTTTCTTTTATTTAATTCCCTCAACAATCTTAGGAGGTAGCAATTAGAATTTTTGTTTTATAAATAAGGAAAAAGAAGTCCAGAGAGATTTAAGGAGCACCCAAAGCCACACCCCAAGTCATCATGTCCACCTGGAAGTTCCAGGGCACCTATCATGAAAGAAGAATGAGATGATGATGGACATAATATAAACTATCAGGACAGATTTAGAAATAGCCCTCTGCAGCCCCAATGTTAAAAGCAGAGAAGGTAATACAAAATAAGGACTTGTTTTATGTTAGGCCACCCTTTAATTTGTGATAGACTTCTGGCACTTACAGGGACTTGATTTTTGTTTTGTTTTGTTTTGAGACAGAGTCCCACTCTGTCACCCAGGCTGGAGTGCAGTGGCACGATCTTGGCTCACTGCAACCTCCGCCTCCCAGGTTCAAGTGATCCTCCTGCCTCAAGCTCCTGAGTAGCTGGGACTACAGGTGCACACCACCAAGCCTGGCTAATTTTTGTATTTTTAGTAGAGATTGGGTTTCACTATGTTGCCCAAGCTGGTCTCAAACTCCTGACCTCAGATGATCCACCCGCCTTGGCCTCCCAAAGTGCTGGGCTTGCAGGCGTGAGGCATCGCACCTGGCCAGGGACTTGGTATTTTTAAAGTGTGCACAATGGAATTGTAGTGTCTAGCCTCAGGCCTTGGCAGTTTTTAACATTTAAGAAAATCAAGGACAAGCCCTGTCTCAGGATCCCTGGAGGGAACAGTCTCATGTTCATTGCTGAGAGAGGGGTGCACTGGGCTTCATCTCTGGAACCCATGAGTGCCTGCTCCCCCATTTCCTGTCCCAAGGAAAGCCAGTAATTGATTCTAGTAATAAGATAGCAGGTGCCACAGCCCATATCTTCCCCTGGGCTGATGTTCACCAAAGACATTAGCATAGACAAGTGGTGCTAGTTGTTTATCCCAGAGAACATAGTCTTATTCATTGTGGGTATCTGGCATGCTTCATAGCACCACACTGGGGTCCCAATGCTGCCCCATGGCTGTCTGTGTGCCTGTGTGTCATAATGTTATCATGTTGGACAGATTGAACAGACCTGTTTAATGTTTGTCTTCCTCTCACCTCCCAG
Seq C2 exon
GTCAAACACTGCTGAAGATAAGTTTGTGTTCTGCAATGGACTTGTCCTGCATCGACTTCAGTGCCTTCGTGGATTTGGGGAGTGGCTCGACTCTATTAAAGACTTTTCCTTAAATTTGCAGAGCCTGAACCTTGATATCCAAGCCTTAGCCTGCCTGTCAGCACTGAGCATGATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119508-NR4A3:NM_173200:5
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=PU(32.8=91.0)
A:
NA
C2:
PF0010425=Hormone_recep=FE(32.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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
- Genotype-Tissue Expression Project (GTEx)
- 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)