HsaEX0043720 @ hg19
Exon Skipping
Gene
ENSG00000123358 | NR4A1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:HGNC Symbol;Acc:7980]
Coordinates
chr12:52435594-52448988:+
Coord C1 exon
chr12:52435594-52435713
Coord A exon
chr12:52437586-52437695
Coord C2 exon
chr12:52448111-52448988
Length
110 bp
Sequences
Splice sites
3' ss Seq
CAGCACGTCTCTCCCCACAGGGC
3' ss Score
9.94
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GCCTCCACCATGGACAGAGGCCAGGCCCTGCCCCTCCCAGGCAGCCTGGCTCCTTCTGCTGGGCCCTGAAGGCAGACGGGATAATGTGGTTGGCCAAGGCCTGTTGGTCCATCCAGAGTG
Seq A exon
GGCTCCCTGAGACCACCAGGAAGAGCCCCCAACCAATCTTGGGATTCTCCCTTCGTGCGGTTGTCTGGGACCTTTTTCCAGGGTCAAAGCAGATCGTGAGGAGGAAGCTG
Seq C2 exon
AGATGCCCTGTATCCAAGCCCAATATGGGACACCAGCACCGAGTCCGGGACCCCGTGACCACCTGGCAAGCGACCCCCTGACCCCTGAGTTCATCAAGCCCACCATGGACCTGGCCAGCCCCGAGGCAGCCCCCGCTGCCCCCACTGCCCTGCCCAGCTTCAGCACCTTCATGGACGGCTACACAGGAGAGTTTGACACCTTCCTCTACCAGCTGCCAGGAACAGTCCAGCCATGCTCCTCAGCCTCCTCCTCGGCCTCCTCCACATCCTCGTCCTCAGCCACCTCCCCTGCCTCTGCCTCCTTCAAGTTCGAGGACTTCCAGGTGTACGGCTGCTACCCCGGCCCCCTGAGCGGCCCAGTGGATGAGGCCCTGTCCTCCAGTGGCTCTGACTACTATGGCAGCCCCTGCTCGGCCCCGTCGCCCTCCACGCCCAGCTTCCAGCCGCCCCAGCTCTCTCCCTGGGATGGCTCCTTCGGCCACTTCTCGCCCAGCCAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123358_MULTIEX1-1/2=C1-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=0.054 C2=0.575
Domain overlap (PFAM):
C1:
PF100904=DUF2328=PU(35.3=92.3)
A:
NO
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:
242-352
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)