MmuINT0110546 @ mm9
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:56962525-56963177:-
Coord C1 exon
chr2:56963048-56963177
Coord A exon
chr2:56962689-56963047
Coord C2 exon
chr2:56962525-56962688
Length
359 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CTTGAGTAATTCCTTTACAGTGG
3' ss Score
3.14
Exon sequences
Seq C1 exon
CGCACGGTGCAAAAAAACGCGAAATATGTGTGTTTAGCAAATAAAAACTGCCCAGTGGACAAGCGCCGCCGAAATCGTTGTCAGTACTGTCGGTTTCAGAAGTGCCTAGCTGTTGGGATGGTTAAAGAAG
Seq A exon
GTAGGTCGAGGCAAGTTGTTGACCTTCCATTTCACGCCCCTGAAAGTCCACCAGCTGCTTGTGGACTCCGGTCCCTGCCTTACTCCCCACGCCCTTGACTCCAGGATTCCACTGCTAAATGCCCTCCTCTAAAGAAAGCCACCCGGCCCTCCTTGTCTTTAAGTATAGGACCCAGTTGGAGGAAGGTATAAAATAACCCGCCATTTATTAATGCTTCTCGTCAGTAAAGTCTTTAAAATCAGAGGAGCCCTGGACCACCAGGTTGGGCTTCTTCCACTGTTCCCTCGGGGAGGAGGCCGTGAGGCAGCTGAGTCTGGGCTCAAGGGAACAGCGTTAACCCTTGAGTAATTCCTTTACAG
Seq C2 exon
TGGTTCGCACGGACAGTTTAAAAGGCCGGAGAGGTCGTTTACCCTCGAAGCCGAAGAGCCCACAGGATCCCTCTCCCCCCTCACCTCCGGTGAGTCTGATCAGTGCCCTCGTCAGAGCCCACGTCGATTCCAATCCGGCAATGACCAGCCTGGACTATTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826-Nr4a2:NM_001139509:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.473
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
NA
C2:
PF0010425=Hormone_recep=PU(0.5=1.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACGCGAAATATGTGTGTTTAGCA
R:
GGAATAGTCCAGGCTGGTCAT
Band lengths:
278-637
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: