MmuINT0110507 @ mm10
Intron Retention
Gene
ENSMUSG00000032292 | Nr2e3
Description
nuclear receptor subfamily 2, group E, member 3 [Source:MGI Symbol;Acc:MGI:1346317]
Coordinates
chr9:59949182-59950117:-
Coord C1 exon
chr9:59949788-59950117
Coord A exon
chr9:59949309-59949787
Coord C2 exon
chr9:59949182-59949308
Length
479 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AGCCCTGCCTTCTTGCTCAGGTG
3' ss Score
8.48
Exon sequences
Seq C1 exon
GGATCATACACTGTGTCCAGCGCTGTGCTGGCAGAAGTCTGGACCCAGAGCCAGGGTGGTGAGAACGCTTCAGAAGGAAGAAACGCTCCTAACTTACAAGGCAAGGGAAGTAGAGGAGAGACAGGCACAGACTGAAAGACAGACAGACAGACAGACAGGGGTTAAAGATGGATGCATCGGTTGGGCCCAGCAACTTCTAGCAAGCAGGCTACCCTTAGGACCATCCATATCCGATGAGCTCTACAGTGGCTGCCTCCACTATGCCTGTGTCTGTGGCGGCCTCCAAGAAGGAGTCTCCAGGTAGATGGGGCCTTGGAGAGGATCCAACAG
Seq A exon
GTATGATTTTTCTGGAGGTGTGGTCTGGACCTTTGAGGAAGAGAGTGTAAGCAGTAGGTTCAGAGAGCCACGAGCGAGCTTGAGCCACATAGCCCCAACCCCAGGGCTGTGAGCAAGCATGAGAGTCTGCTGGCAACCCCAGAGTCCTAGAAACTGAGAGGCCAGCAGAGCAAGACCCAACAACTGGCTGCTGAGGCAGGAAATGGGTGCTCTTGAGACACAGAGAGATCTCGAGAGAGGCTGCAGCCGCCCATAGGGGAGGAATGGGGCTGGGAAGGTGGAAGCCATGGAGGGAAAAGAGAGGGGAAGGGGTGGGAGCAGAGGTTAGGATGCCACAGTGAGGAAGCTGCTGTTTCCGGTGGGAGTCACATGGGCAGATCTAGTTTGAGGAACGTGGGAACCTATGGACCGGAGGGAAAGGGGGTGACTAGGGGAGGGAGTGGGGAGCTATCTCAGTTCAGCCCTGCCTTCTTGCTCAG
Seq C2 exon
GTGTGGGCCCCTCGCTCCAGTGCCGAGTGTGTGGGGACAGCAGCAGTGGGAAACATTATGGCATCTATGCCTGCAATGGCTGCAGTGGCTTCTTCAAGAGGAGTGTGAGAAGGAGGCTCATCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032292:ENSMUST00000034831:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(52.1=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGGCAAGGGAAGTAGAGGA
R:
GCCTCCTTCTCACACTCCTCT
Band lengths:
352-831
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