HsaEX0043716 @ hg19
Exon Skipping
Gene
ENSG00000123358 | NR4A1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:HGNC Symbol;Acc:7980]
Coordinates
chr12:52435594-52448430:+
Coord C1 exon
chr12:52435594-52435713
Coord A exon
chr12:52446280-52446429
Coord C2 exon
chr12:52448111-52448430
Length
150 bp
Sequences
Splice sites
3' ss Seq
GTCTCTGTTGGATCTTACAGGTA
3' ss Score
9.88
5' ss Seq
GATGTAGGT
5' ss Score
4.9
Exon sequences
Seq C1 exon
GCCTCCACCATGGACAGAGGCCAGGCCCTGCCCCTCCCAGGCAGCCTGGCTCCTTCTGCTGGGCCCTGAAGGCAGACGGGATAATGTGGTTGGCCAAGGCCTGTTGGTCCATCCAGAGTG
Seq A exon
GTAGGGTGCAGCCTGAGGCTTGTTCAGCAGAACAGGTGCAAGCCACATTGTTGCCAAGACCTGCCTGAAGCCGGATTCTCCCCACTGCCTCCTTCAACCCCGCCTCTTCCTCCTCCTGTGGGACTGCTCCCCCCTCCTGTGAGGCTAGAT
Seq C2 exon
AGATGCCCTGTATCCAAGCCCAATATGGGACACCAGCACCGAGTCCGGGACCCCGTGACCACCTGGCAAGCGACCCCCTGACCCCTGAGTTCATCAAGCCCACCATGGACCTGGCCAGCCCCGAGGCAGCCCCCGCTGCCCCCACTGCCCTGCCCAGCTTCAGCACCTTCATGGACGGCTACACAGGAGAGTTTGACACCTTCCTCTACCAGCTGCCAGGAACAGTCCAGCCATGCTCCTCAGCCTCCTCCTCGGCCTCCTCCACATCCTCGTCCTCAGCCACCTCCCCTGCCTCTGCCTCCTTCAAGTTCGAGGACTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123358-'1-7,'1-4,5-7
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=0.000 C2=0.575
Domain overlap (PFAM):
C1:
PF100904=DUF2328=PU(35.3=92.3)
A:
PF100904=DUF2328=PD(61.8=91.3)
C2:
PF0010513=zf-C4=PU(38.6=9.2)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
AGGCAGACGGGATAATGTGGT
R:
CTCTCCTGTGTAGCCGTCCAT
Band lengths:
242-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)