MmuINT0110544 @ mm9
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:56963987-56965483:-
Coord C1 exon
chr2:56965362-56965483
Coord A exon
chr2:56964853-56965361
Coord C2 exon
chr2:56963987-56964852
Length
509 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TCACCCTGTTTCGTTTCCAGCCA
3' ss Score
10.11
Exon sequences
Seq C1 exon
GGAGATCTGACGGGCTGGATTCCCAATAGCTCTTTTTTAAAATCTTGGAAACTTTGTCCTTCGCTGAATTACGACACTGTCCACCTTTAATTTCCTCGAAAACTCCAATAACTCTGCTGAAG
Seq A exon
GTCAGTGAGCTTTATCTTTCATTACCTTTCCTGAGTTCCCCCATACCCTCAGAAAAACAAAACAAAACAGGGCAACAGGATCTTTCCAGGCCAACCCTGTGCCTTATAGTCACAGAGGACAACTTTCTTATTGTGCAATTCAACTTCATTTCTAGAGCATGGCTTCTAGAAATCCTGTCGACCCTGAGCTTCAAAGAAGAAGCTCATCAGAGTGGGACTGTCTGCGGGAAGGGGGTGGAGCGCGGGGGGGGGGCGTTTGGAAATGAGTGTAGACCCTCAACAGCTTTCCAGCTCTGGGTCGTCCCGGGATCAGCCCTTTCCTTTCTTCATCGCTGTTCCACCTCTTTTGCCCTTCCCCCTGCATCCCTAAACCCCCATCCTCTCCCCGCCTCCCTCCACCCCCAACCCCGACGCCGCGGGCTGCCGGTGTAGCCCCGGGTGTAGACCGAGCCCGGAAGAAAGTGTTCAGTTGACCAGGCTGAGTGTATATCACCCTGTTTCGTTTCCAG
Seq C2 exon
CCATGCCTTGTGTTCAGGCGCAGTATGGGTCCTCGCCTCAAGGAGCCAGCCCCGCTTCTCAGAGCTACAGTTACCACTCTTCGGGAGAATACAGCTCCGATTTCTTAACTCCAGAGTTTGTCAAGTTTAGCATGGACCTCACCAACACTGAAATTACTGCCACCACTTCTCTCCCCAGCTTCAGTACCTTTATGGACAACTACAGCACAGGCTACGACGTCAAGCCACCTTGCTTGTACCAAATGCCCCTGTCCGGACAGCAGTCCTCCATTAAGGTAGAAGACATTCAGATGCACAACTACCAGCAACACAGCCACCTGCCCCCTCAGTCCGAGGAGATGATGCCACACAGCGGGTCGGTTTACTACAAGCCCTCTTCGCCCCCGACACCCAGCACCCCGAGCTTCCAGGTGCAGCATAGCCCGATGTGGGACGATCCGGGCTCCCTTCACAACTTCCACCAGAACTACGTGGCCACTACGCATATGATCGAGCAGAGGAAGACACCTGTCTCCCGCCTGTCACTCTTCTCCTTTAAGCAGTCGCCCCCGGGCACTCCTGTGTCTAGCTGCCAGATGCGCTTCGACGGGCCTCTGCACGTCCCCATGAACCCGGAGCCCGCGGGCAGCCACCACGTAGTGGATGGGCAGACCTTCGCCGTGCCCAACCCCATTCGCAAGCCGGCATCCATGGGCTTCCCGGGCCTGCAGATCGGCCACGCATCGCAGTTGCTTGACACGCAGGTGCCCTCGCCGCCGTCCCGGGGCTCTCCCTCCAATGAGGGTCTGTGCGCTGTTTGCGGTGACAACGCGGCCTGTCAGCACTACGGTGTTCGCACTTGTGAGGGCTGCAAAGGTTTCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826-Nr4a2:NM_001139509:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.520
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=12.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACGGGCTGGATTCCCAATA
R:
CAAGGTGGCTTGACGTCGTAG
Band lengths:
347-856
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: