MmuINT0110547 @ mm10
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:57109063-57110277:-
Coord C1 exon
chr2:57110114-57110277
Coord A exon
chr2:57109266-57110113
Coord C2 exon
chr2:57109063-57109265
Length
848 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TTTTTAAAATGAAATTCCAGTTC
3' ss Score
3.59
Exon sequences
Seq C1 exon
TGGTTCGCACGGACAGTTTAAAAGGCCGGAGAGGTCGTTTACCCTCGAAGCCGAAGAGCCCACAGGATCCCTCTCCCCCCTCACCTCCGGTGAGTCTGATCAGTGCCCTCGTCAGAGCCCACGTCGATTCCAATCCGGCAATGACCAGCCTGGACTATTCCAGG
Seq A exon
GTAAGAAGCCGGTGGTGGGGGAATATCAATCATGTGGACAAGCCAACAAATGGGCAGGACCCTCTCCCTATACCCAGCTTTAGCACCCCCAAACTCAAGGGTAAAGGAGGAACAGCAGAATACATACTTCACAACTTTGGGCAGGTTTTCAGGAGACAGGTGGTGCTGCTCAAAGTACAGACCGGAGAACACACCGGAGGGGTTGAATCTTTGTGAACCATTATTGTCCGACAGTCCCTCCAGCTGCGGTCTGGAAGGCAAAACCTAGACAGTCTAGCCTTCCTTCCCAAGTCTACTTTACGAAGTTACTAGAATACATTCCCCTCCCCCTTGACTTGTCTGGGGCCAGGGAGTGAAAAGAGGGGTGGAAGGGATGGCAATGGGGGGGGGGGGTTGTCCCCGGGTCAGGGATCAAGTGGTGCAATTCTTCTTTTACTCCAGCTGTGAAAAATGTGCAGGCTTTGGGCAGAGGGAGTGTGGCCAAACCTAGTAGCGACTGCAATATTATTAAGCTTTGCAAAAGGCGCCTCCGTGCAAGACCCACTCTGGGATTAGCATGAATACTACCGTGTCAATTGTTTTGTGGCGATAAGACTGAACGTTTCCCAGGGCTGGATGGCACTGTATTTAGTCTGTATGGAAATGGTAATTTACATATTTAAAGCAGCGACCTCATAGCACCGTCCCTAATTGAATTAATTGCCCCGGAACATCTAATTTCCTTACTGGTCAGAGAGAGGTTTAATTGTTATAAAAACCTGGCTCCCCTACTAGAAACGGGGTTAGCAATTTCACGGGTTATATATTTTAGAGAACCTCATTAAGTGCTTTTTAAAATGAAATTCCAG
Seq C2 exon
TTCCAGGCAAACCCTGACTATCAGATGAGTGGAGATGATACCCAACATATCCAGCAGTTCTACGATCTCCTGACCGGCTCTATGGAGATCATCAGAGGGTGGGCAGAGAAGATCCCTGGCTTTGCTGACCTGCCCAAAGCCGACCAGGACCTGCTTTTTGAATCAGCTTTCTTAGAATTATTTGTTCTGCGCTTAGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826:ENSMUST00000112629:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.473 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(0.5=1.8)
A:
NA
C2:
PF0010425=Hormone_recep=FE(33.8=100)
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:
CGGACAGTTTAAAAGGCCGGA
R:
TGCTAAGCGCAGAACAAATAAT
Band lengths:
353-1201
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