HsaINT0115661 @ hg19
Intron Retention
Gene
ENSG00000119508 | NR4A3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:HGNC Symbol;Acc:7982]
Coordinates
chr9:102587941-102591275:+
Coord C1 exon
chr9:102587941-102588108
Coord A exon
chr9:102588109-102590316
Coord C2 exon
chr9:102590317-102591275
Length
2208 bp
Sequences
Splice sites
5' ss Seq
ACCCTCCAG
5' ss Score
-29.63
3' ss Seq
AGAGACCCTTTTCTCTGTCCCTG
3' ss Score
-10.38
Exon sequences
Seq C1 exon
AGCCCACTGCGGAAGAGGGCAGCCCGGCAAGCCCGGGCCCTGAGCCTGGACCCTTAGCGGTGCCGGGCAGCACTGCCGGCGCTTCGCCTCGCCGGACGTCCGCTCCTCCTACACTCTCAGCCTCCGCTGGAGAGACCCCCAGCCCCACCATTCAGCGCGCAAGATACC
Seq A exon
CTCCAGGTAGGTCCGAAGGCAAGACCCTTTTCTCCTCCCTGGCTGAGGGAAGTGGGTGGGGGAACCACACACTCGGCGGGCAGCGTGGTCGACCTGCCCAGTGCCAGGACAGTGACTGCTGGCCGCGAATTTCACAACACAGGTGGCTTCCTCACAGGAAGCTCCTCTGTATACCACACCCTGTTGCTACTGAGTGGAGCAGCCAAATTAAATTAAGCTTGCATTGCTCAAAATTAATTTTCCTAAGAGAAATACAAATACACCAATAGATTAGGGTATTTTATACATTTTTAATTTCATTTTTGCTCTTCTTTTATAGCCAGTGTGCACATGTAAGAGTTATGGAATCACTTAGAGCAATACTGAGCATTTTCATTTATATAAAACCCAAATCATTTGGGTGCAGAAGTTTGGATGATTGAAGCTCAGAGGGAAGGAGAAAAGCATTTGAGATGAAAACCAAAGAGTAAATTTGAGTTTGGCAAAAGAACAGATTGCACTTTTGGTTTGTACCACCTCTTTACAAATTTGTTAAAGGAATACTAGGTGCCAAGCCTGTGTGGGCACCATAGATAATGCAGATAAATAGAATACAATCCCAGCAAGCTCATCTTCTAGCTAGAAACCTCAGAAAGACACAAATAAGAGCAGTAAAAAGGGATTGGCCGGAAAGAATGACAGAAAAGAGTAATGGAGAAATCCTAGAGGTGCTGAAGGGAGAAGGAGAATAGATCAAAGATCAGGCAGTGTTCTTTCTTTTAAATGATTAGCCTTTCATTTCATCCCAACAACTGGACAGCAAGATAAGTAACTGGACTTCAAACTAGTGAGTGTATTTTTAAGGCCCTGCTTGTTAAAGAAAGGCTTGAACTGGCCTCTCCTCATCACTGCTTCTTCCAACAGGCCCTCATCACCTTTTTTCAAGTCAAGATTTCATCCCATACATGCATGACTCAATCAGATTTGGAAATGTGGGTAAGAGAAAGATGTCAAAGGAAATGTGAAGTATTCACTTCTCTATTAGTCACACCTTTTACACCATAGACTCCAAAGAGGCGTTAAGCACCTGGTTTTCCTTTGGCTCAGAAAAACCAACCACCAAAAACCGCCGTTTTTTACCATTTATATTTAGCCATAAAGAAAGAAAAATAATTAGATAAATCATCCACTACATCCAATAATTCTCAGCGCCTTCTCACTCAGTTCAGCCTCTCTGAACAATAGTAAGCACCCTGGATACCAGCCACTTTGGGGGCAACATAGTCAAACTGGCAGAGAAATCAAGTCTATTGAGAAACTGCTTTTTTTCATGGGTACTAATTCTAGTGTCATAAGGAAATACCTATACTAACTTGCCTATTATGATAGTTATAAACTGTTATCACAAAACAGTCACTGATATGTTTTATTAGTTAGAATTGGGATATATATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATATATATATATATGGGTGGGTGTTTTGTTGCAGCTGCTGATCTTTTTCTTTGCAGATGGTACAAACTCTCCCGAGTCAATTTCCTGGGCCTATGTCCCCACCTAGCTGACTGAAGTTATCAACAGGGGTCCAGTTTGTGCAGGCTGCTAGCCCTATTGGAAGAGTGGGGATGAGGTGGGAGAAAGCAACCACAACGTGTGTGGGCAACCTCAATTGGCACTCATAAAATGTTAGAATGTCAACTCTCTCCCTTGGCCACTAAATCTCTCACAGGGTAGTTTTTCTTGCCTAACTCAGGTTTACAAATCAATGTGTATGCCTTGGGGGACCAATGGCCTCTTTCCTCCCAAATAAACCACTGGCTTTCTCTTTGTCCCCCTAGGTTATAGCTGAGGAGCCCACTCCAATTAGTTTATAGGATTCAAAGCCTCTTTTTAAAAACATCTCTGAGCTTATGAGGAAAGACTTCAAGTTTCCCAAATCTAGTGGAGGACAGGGCAAGGGAGGAAAGATAGGTACAGGAGTCCACAGGAGGCCAGGTTTTGGCACCCCTTTGTCAGGAATTCAGCTTCCTTACTAGGGATGAAGAAAATAAGTGTGGGGCTTTGTGTCTATGCTACCAGAAGGAGGAGAGGATGACACTTCCTCTCTGTTTCCCAGATTAGAGAACAGTGAACCCAATGCTGCCTGTTGGCTAGAAAACAAGTGTTAACTTGCTTCTGAGAGACCCTTTTCTCTGTCC
Seq C2 exon
CTGCAGATATGCCCTGCGTCCAAGCCCAATATAGCCCTTCCCCTCCAGGTTCCAGTTATGCGGCGCAGACATACAGCTCGGAATACACCACGGAGATCATGAACCCCGACTACACCAAGCTGACCATGGACCTTGGCAGCACTGAGATCACGGCTACAGCCACCACGTCCCTGCCCAGCATCAGTACCTTCGTGGAGGGCTACTCGAGCAACTACGAACTCAAGCCTTCCTGCGTGTACCAAATGCAGCGGCCCTTGATCAAAGTGGAGGAGGGGCGGGCGCCCAGCTACCATCACCATCACCACCACCACCACCACCACCACCACCATCACCAGCAGCAGCATCAGCAGCCATCCATTCCTCCAGCCTCCAGCCCGGAGGACGAGGTGCTGCCCAGCACCTCCATGTACTTCAAGCAGTCCCCACCGTCCACCCCCACCACGCCGGCCTTCCCCCCGCAGGCGGGGGCGTTATGGGACGAGGCACTGCCCTCGGCGCCCGGCTGCATCGCACCCGGCCCGCTGCTGGACCCGCCGATGAAGGCGGTCCCCACGGTGGCCGGCGCGCGCTTCCCGCTCTTCCACTTCAAGCCCTCGCCGCCGCATCCCCCCGCGCCCAGCCCGGCCGGCGGCCACCACCTCGGCTACGACCCGACGGCCGCTGCCGCGCTCAGCCTGCCGCTGGGAGCCGCAGCCGCCGCGGGCAGCCAGGCCGCCGCGCTTGAGAGCCACCCGTACGGGCTGCCGCTGGCCAAGAGGGCGGCCCCGCTGGCCTTCCCGCCTCTCGGCCTCACGCCCTCCCCTACCGCGTCCAGCCTGCTGGGCGAGAGTCCCAGCCTGCCGTCGCCGCCCAGCAGGAGCTCGTCGTCTGGCGAGGGCACGTGTGCCGTGTGCGGGGACAACGCCGCCTGCCAGCACTACGGCGTGCGAACCTGCGAGGGCTGCAAGGGCTTTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119508-NR4A3:NM_006981:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.536
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0253517=Zip=WD(100=34.6),PF0010513=zf-C4=PU(38.6=8.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
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
- 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)