HsaINT0115647 @ hg19
Intron Retention
Gene
ENSG00000123358 | NR4A1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:HGNC Symbol;Acc:7980]
Coordinates
chr12:52445191-52448988:+
Coord C1 exon
chr12:52445191-52445352
Coord A exon
chr12:52445353-52448110
Coord C2 exon
chr12:52448111-52448988
Length
2758 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
GGGGTCTCCTCTCTCTCCAGAGA
3' ss Score
8.93
Exon sequences
Seq C1 exon
GGAGCGCTTAAGAGGAGGGTCGGGCTCGGCCGGGGAGTCCCAGTGGCGGAGGCTACGAAACTTGGGGGAGTGCACAGAAGAACTTCGGGAGCGCACGCGGGACCAGGGACCAGGCTGAGACTCGGGGCGCCAGTCCGGGCAGGGGCAGCGGGAGCCGGCCGG
Seq A exon
GTAGGTTCCCTTCGGGGAACGTGCATCTGTTTTTAGGAGCGGTGCATGAAGGAGATGGGTGTACGCGCGGGCAGAGAGGATGTTGTAGGGCCGGCATGCAAGAGGGTAGGTGTAGTGTGCAGCTGTAGCACAACGGGATGAGAACCCAGGTCAGACTGGAAACTACTGGGTGCGGGGTAGGAGGTAGGGGAGGTTGACTACCTGCAAAGTGGAAGCTGTAGGGGGTTGGGGTTGGCGCCGGGAGTAGGGACTTGTCCAGCAGGCGGCTGGCCTTAGTTCAGTCTCCTAGGGTGCCCAACTGGGCGCACGGTGCTCTGAACTTGGGTGGGTGTGGATGGGGGTCACAGCACCGTGGGGGAACAGGTACACAGAGCTTTGGCGCTGCTGGGATCCGTACGATTCTAACTGGGATTGGATTTCCAAAAGGCCCTCCTTCCTCCCAGCCTGTCAGCTCCCTCCCAGTGTCCCGGTTGTTTTCTTAACACTTTAGAGGCTGTGGCTGAGTTGGCAGGGGTTCCCCACCCTGAACTTTCTGTCTGAGGTGCGTTAGGAAGCCTCCGGATCATTGAAGGAAGTGACTGGCTTGGTGGCTGACCTGTGGAGGGCTGCTTGCTGTGTATTGAATAAAGGAGGCTTCTTGGGGTCGGGGCAGGGTCTCTGTAAGCACAGGGAGAATTGATTTCGCTGGGGCTTGGATCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGACAGAGGTGGAAACCCTTGTCCTTGGGGATCCTGGATAGAAGTTGCCAGTGTTGGAGTCTTGGGGCGGTGCTGCCTAGAGGATACCTCCCAACCATTCCAGCTCCAGATGCTGATCATCCCTATGCCCCCTCCCCCAGTAGTCTCTGTTGGATCTTACAGGTAGGGTGCAGCCTGAGGCTTGTTCAGCAGAACAGGTGCAAGCCACATTGTTGCCAAGACCTGCCTGAAGCCGGATTCTCCCCACTGCCTCCTTCAACCCCGCCTCTTCCTCCTCCTGTGGGACTGCTCCCCCCTCCTGTGAGGCTAGATGTAGGTCCATATCTTGTGTTGTTAAGAACCTGCATGAAGGGGGAGGGACTGATGGGGGTTGATCCGGATGTGGGACGTCCAGGTGGAGAAACAGGATTTGAATAAGGCAGGAACAAGCGCCCAGTTCTGCCCAACTGCTGTCTTTCCTCCTTCACCCCCAGCCCATCCCTGGCCAGGCTGTCCTAGTGCAGGCAGATGTGGCCACCCTCACCTCTCGCAGGGTGCTGCATGCCTGTGGACTGGTGCCACTGGGTGTGTGGGGCCTGAGCTACAAGGGTCTCTGTTGTCTTGGTTGTCAGGCTAGGGGTGGAGGTGCCCTGTTCAGGGCCTGTGGAGTTAGAAGGAAGGCTAGGACCAGAGAGGACTTCCTGGGCTCTTGGCCAGGAGGTGGTGACAGCCTTTGCCCCCATCACTGCACCCCTTGATTATGGTACTCTGTTCCTGCTTGATTTCTTCTCCAGCTTCCCTCATTGACTGGTGAGGCCAGAGTTACGCAGACCCCAGGTGTGTAGGTTGGGAGGGAGACTGTCCTGGAGCCTCCTCTGCATTATTTTTTGACCATTCTGTGAATGTAAGGATCTGCCTGAATGATGCTATCTCTGTTCAGGCTCTCTTCAGGCTCCTCGGGACTGGGGCTGTGTAACCCCCTTTGCCTGAGCCTCTGGATTCTTCAGGGCACAGACCCTGCTTTAGTGGAGGGACCCAGGCAGGGGCAGAATGTCTTCCACCCACCCACCAGCAGGCTTCTCCTTAAGTCTTCTGCTGGACTCTCAGAGTTCTCTTATTAAGATAACTGGGGGCAGCAGAACATTCTTTTTAGGTACTGTTGTCCATTCTCCTGAGAGTCCAGGGGGCTGTGGTCTCCTTCCTCCCCCCTTGCCCTGTCCCCAGCAAATGGCCTTTAAAGGTCTGGAGCCAGGTTACCGATGAGGAGGCCTAGGTTCCCTTCCTCTTTGCTTCTGGGAGCATCTCGAGCAGTGCAGAGTGGCTTCCCAGCCCCAGATGGCAGGATTGGGGTGGGTTTGGGATCTGCTGCCTTTGCTCAGTGTGCAGGGTTGGGGTGGAAATGGGGGACAGGCTAGGGCCTCTGCATTAGGCTGCCTTCTTAGGCAGGTGGGCTTTCACTTCCAGCTCCTCTTCCATTTTCACGATGTCCTTCTTCCTAGGCACTGCGAGGGGAGGAGAAAAGGGGCTTTGCAGAGGCCTGGGAGTATTCCCAGGAAGTGCCTGGTTGGCGAAACAACCAGGGAGCTGCTCCTGGGAGCTGGGCTGAGGCTTTGCTGGGCTGCCTCTCCCACTCACCCTTCTCCCGGCCCCCACCATGCCTTCCCCATGGGGGAGGGGCAGGGGGCTGGAGGAACACAGCTTCCCCCTGTTCTAGCAGAGAAATGCTGGCTGTATGCCTCCCCTAGGGTTCCCAGGCTGACTAGGGTGTGGCTGGCCTTCTGATGGAGCCCACTCATGCTGGGCCGCTGCCCAGGGGCTTTGTGGCACCTAGGTCGAGATGGTACTCAGGCCAGGGGTCAGGATTCCTGGGTGCTCTGGTCCCGGTGCCTCTGTCTCATCTTTAGGCTGGGATTCCTGCCACCTTGCTGCTCTGGGGCCCAAATACTTTGAGACAAGGCTATAGGCTTGTCCCACTGACTCTCCTTTCCCTCCCTGGGGTCTCCTCTCTCTCCAG
Seq C2 exon
AGATGCCCTGTATCCAAGCCCAATATGGGACACCAGCACCGAGTCCGGGACCCCGTGACCACCTGGCAAGCGACCCCCTGACCCCTGAGTTCATCAAGCCCACCATGGACCTGGCCAGCCCCGAGGCAGCCCCCGCTGCCCCCACTGCCCTGCCCAGCTTCAGCACCTTCATGGACGGCTACACAGGAGAGTTTGACACCTTCCTCTACCAGCTGCCAGGAACAGTCCAGCCATGCTCCTCAGCCTCCTCCTCGGCCTCCTCCACATCCTCGTCCTCAGCCACCTCCCCTGCCTCTGCCTCCTTCAAGTTCGAGGACTTCCAGGTGTACGGCTGCTACCCCGGCCCCCTGAGCGGCCCAGTGGATGAGGCCCTGTCCTCCAGTGGCTCTGACTACTATGGCAGCCCCTGCTCGGCCCCGTCGCCCTCCACGCCCAGCTTCCAGCCGCCCCAGCTCTCTCCCTGGGATGGCTCCTTCGGCCACTTCTCGCCCAGCCAGACTTACGAAGGCCTGCGGGCATGGACAGAGCAGCTGCCCAAAGCCTCTGGGCCCCCACAGCCTCCAGCCTTCTTTTCCTTCAGTCCTCCCACCGGCCCCAGCCCCAGCCTGGCCCAGAGCCCCCTGAAGTTGTTCCCCTCACAGGCCACCCACCAGCTGGGGGAGGGAGAGAGCTATTCCATGCCTACGGCCTTCCCAGGTTTGGCACCCACTTCTCCACACCTTGAGGGCTCGGGGATACTGGATACACCCGTGACCTCAACCAAGGCCCGGAGCGGGGCCCCAGGTGGAAGTGAAGGCCGCTGTGCTGTGTGTGGGGACAACGCTTCATGCCAGCATTATGGTGTCCGCACATGTGAGGGCTGCAAGGGCTTCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123358-NR4A1:NM_173157:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.575
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
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
- 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)