MmuINT0110549 @ mm9
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:56959637-56961150:-
Coord C1 exon
chr2:56960972-56961150
Coord A exon
chr2:56960824-56960971
Coord C2 exon
chr2:56959637-56960823
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TCTGGTTGCATTTTCTGCAGAGA
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTCCAACCCAGTGGAGGGTAAACTCATCTTTTGCAATGGGGTGGTCTTGCACAGGTTGCAATGCGTGCGTGGCTTTGGGGAATGGATTGATTCCATTGTTGAATTCTCCTCCAACTTGCAGAATATGAACATCGACATTTCTGCCTTCTCCTGCATTGCTGCCCTGGCTATGGTCACAG
Seq A exon
GTCAGTACTGCTGGTGCAGGACACTTCCCCTTCCGAACTTCCTCTGGTGGGACCGGTCATGGCTTTCCCTAATCGCAGATTCTTTCTGATTCTGCCATCTGACTAACTCCCCTCTGCATTCTTTTGTTTCTGGTTGCATTTTCTGCAG
Seq C2 exon
AGAGACACGGGCTCAAGGAACCCAAGAGAGTGGAAGAGCTACAAAACAAAATTGTAAATTGTCTTAAAGACCATGTGACTTTCAATAATGGGGGTTTGAACCGACCCAACTACCTGTCTAAACTGTTGGGGAAGCTGCCAGAACTCCGCACCCTTTGCACACAGGGCCTCCAGCGCATTTTCTACCTGAAATTGGAAGACTTGGTACCACCACCAGCAATAATTGACAAACTTTTCCTGGACACCTTACCTTTCTAAGACCTTCTCCCAAGCACGTCAAAGAACTGGAAAGAAAAAAAAAATAACATCCAGAGGGGGCTGGTCACATGGGCAGAGAGCTGGTTGAAGTGTCCAGTTCACCTTATCTCCCTTCTGTAGACCCCTAGCCCTCACCCCTTAAGTAAACAAACAAACAAACAAACCACAAATAAAAACTGTCGCTATTTCCTAACCTGCAGGCAGAACCTGAAAGGGCATTTTGGCTCCGGGGCATCCTGGATTTAGAAAACGGACAGCACACAGTACAGTGGTATAAACTTTTTATTATCAGTTCAAAATCAGTTTGTTGTTCAGAAGAAAGATTGCTAATGTATGATGGGAAATGTTTGGCCATGCTTGCTTGTTGCAGTTAAGACAAATGTAACACACACACACACACACACACACACACACACACACACACACCTTAATGGGACCCTCCTATTTTGCCCTTTAACAAGACTTCAAAGTTTTCTGCTGTAAAGAAAGCTGTAATATATAGTAAAACTAAATGTTGCGTGGGTGGCATGAATTGAAGGCAGAGGCTTGTAAATTTATCCAATGCAGTTTGGCTTTTTAAATTATTTTGTGCCTATTTATGAATAAATATTACAAATTCTAAAAAGTAAGTGTGTTTGCAAAAAAAAAAAAAGAAAATAACTACATAAAAAGGGGACAAGCATGTGATTCTAGGTTGAAGATGTTATAGGCACTTGCTACTTCAGTAATGTCTATATTATATAAATAGTATTTCAGACACTATGTAGTCTGTTAGATTTTATAAAGATTGGTAGTTATCTGAGCTTAAACATTTTTCTCAATTGTATAATAGGTGGGCACAAGTATCAGTACATTGGAAAATCCTGACAAAAGGGACACATAGTGTTTGTAACACCGCCCAACATTCCTTGTTTGTAAGTGTTGTATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826-Nr4a2:NM_001139509:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(30.3=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(34.3=79.1)
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:
CGTGGCTTTGGGGAATGGATT
R:
GGCAGCTTCCCCAACAGTTTA
Band lengths:
251-399
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: