HsaALTA1021397-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000123358 | NR4A1
Description
nuclear receptor subfamily 4 group A member 1 [Source:HGNC Symbol;Acc:HGNC:7980]
Coordinates
chr12:52051402-52054439:+
Coord C1 exon
chr12:52051402-52051568
Coord A exon
chr12:52054144-52054326
Coord C2 exon
chr12:52054327-52054439
Length
183 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
AGGGGCTTTGTGGCACCTAGGTC
3' ss Score
4.75
Exon sequences
Seq C1 exon
GTCACGGAGCGCTTAAGAGGAGGGTCGGGCTCGGCCGGGGAGTCCCAGTGGCGGAGGCTACGAAACTTGGGGGAGTGCACAGAAGAACTTCGGGAGCGCACGCGGGACCAGGGACCAGGCTGAGACTCGGGGCGCCAGTCCGGGCAGGGGCAGCGGGAGCCGGCCGG
Seq A exon
GTCGAGATGGTACTCAGGCCAGGGGTCAGGATTCCTGGGTGCTCTGGTCCCGGTGCCTCTGTCTCATCTTTAGGCTGGGATTCCTGCCACCTTGCTGCTCTGGGGCCCAAATACTTTGAGACAAGGCTATAGGCTTGTCCCACTGACTCTCCTTTCCCTCCCTGGGGTCTCCTCTCTCTCCAG
Seq C2 exon
AGATGCCCTGTATCCAAGCCCAATATGGGACACCAGCACCGAGTCCGGGACCCCGTGACCACCTGGCAAGCGACCCCCTGACCCCTGAGTTCATCAAGCCCACCATGGACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123358-10-34,10-33-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.553
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
CTTAAGAGGAGGGTCGGGCTC
R:
TGATGAACTCAGGGGTCAGGG
Band lengths:
252-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains