MmuINT0110548 @ mm10
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:57108561-57109265:-
Coord C1 exon
chr2:57109063-57109265
Coord A exon
chr2:57108740-57109062
Coord C2 exon
chr2:57108561-57108739
Length
323 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CTCTTTGGTATTAATTGCAGGTC
3' ss Score
8.65
Exon sequences
Seq C1 exon
TTCCAGGCAAACCCTGACTATCAGATGAGTGGAGATGATACCCAACATATCCAGCAGTTCTACGATCTCCTGACCGGCTCTATGGAGATCATCAGAGGGTGGGCAGAGAAGATCCCTGGCTTTGCTGACCTGCCCAAAGCCGACCAGGACCTGCTTTTTGAATCAGCTTTCTTAGAATTATTTGTTCTGCGCTTAGCATACAG
Seq A exon
GTAATGAATGAGGCCTGGAGGAGGGATCAGAAGTAAAGGAAAGGAAGAGAAAAGGGTTGGGGTTGGAGGCAAGATAAAAACAAAGCAAAGGTGAAGAAGGGAAGGAGTGAGCCCAGAGCCTTGGGTGACCGGAGTGGTGGTGGGATAGGGGAGTTCTTGATTGTTATGAAATTAAACCCTTTCAAGGTCCACTGGTCTACATTTTATTAACTCTTCAGTAATTAGGTGCCTCTTAAATCCCTCATTTATTGCTCTTCAAGTAATTAGTTGTTTAGCTTCTCTCTCTCTCTTTTTCTCCCCTCTCTCTTTGGTATTAATTGCAG
Seq C2 exon
GTCCAACCCAGTGGAGGGTAAACTCATCTTTTGCAATGGGGTGGTCTTGCACAGGTTGCAATGCGTGCGTGGCTTTGGGGAATGGATTGATTCCATTGTTGAATTCTCCTCCAACTTGCAGAATATGAACATCGACATTTCTGCCTTCTCCTGCATTGCTGCCCTGGCTATGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826:ENSMUST00000112629:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(33.8=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(16.5=75.0)
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:
AGGCAAACCCTGACTATCAGA
R:
GCAATGCAGGAGAAGGCAGAA
Band lengths:
358-681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types