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Nr5a2 nuclear receptor subfamily 5, group A, member 2 [ Mus musculus (house mouse) ]

Gene ID: 26424, updated on 8-Jan-2023

Summary

Official Symbol
Nr5a2provided by MGI
Official Full Name
nuclear receptor subfamily 5, group A, member 2provided by MGI
Primary source
MGI:MGI:1346834
See related
Ensembl:ENSMUSG00000026398 AllianceGenome:MGI:1346834
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Ftf; LRH-1; UF2-H3B; D1Ertd308e
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; cholesterol homeostasis; and pancreas morphogenesis. Located in nucleus. Part of RNA polymerase II transcription regulator complex. Is expressed in several structures, including alimentary system; central nervous system; ear; early conceptus; and gonad. Orthologous to human NR5A2 (nuclear receptor subfamily 5 group A member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in ovary adult (RPKM 23.7), liver adult (RPKM 4.6) and 7 other tissues See more
Orthologs
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Genomic context

See Nr5a2 in Genome Data Viewer
Location:
1 59.98 cM; 1 E4
Exon count:
11
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (136770300..136888186, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (136842562..136960448, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene hydroxymethylbilane synthase pseudogene Neighboring gene uncharacterized protein C1orf43 homolog Neighboring gene U7 small nuclear RNA, pseudogene 3 Neighboring gene predicted gene, 25609

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (6)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables lipid binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nuclear receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables phospholipid binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription coregulator binding ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within acinar cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within bile acid metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in calcineurin-mediated signaling ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within cholesterol homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in hormone-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within pancreas morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of viral genome replication ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of cell population proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in tissue development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of RNA polymerase II transcription regulator complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
nuclear receptor subfamily 5 group A member 2
Names
fetoprotein transcription factor
liver receptor homolog 1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001159769.2NP_001153241.1  nuclear receptor subfamily 5 group A member 2 isoform 2

    See identical proteins and their annotated locations for NP_001153241.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region compared to variant 1. The resulting isoform (2) contains a distinct and shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC124814
    Consensus CDS
    CCDS48382.1
    UniProtKB/TrEMBL
    Q1WLP7
    Related
    ENSMUSP00000141495.2, ENSMUST00000192929.6
    Conserved Domains (2) summary
    cd07069
    Location:259499
    NR_LBD_Lrh-1; The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,
    cd07167
    Location:46138
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers
  2. NM_030676.3NP_109601.1  nuclear receptor subfamily 5 group A member 2 isoform 1

    See identical proteins and their annotated locations for NP_109601.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC120182, AC124814, BC137845
    Consensus CDS
    CCDS15328.1
    UniProtKB/Swiss-Prot
    B9EHF9, P45448
    Related
    ENSMUSP00000027649.8, ENSMUST00000027649.14
    Conserved Domains (2) summary
    cd07069
    Location:320560
    NR_LBD_Lrh-1; The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,
    cd07167
    Location:107199
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    136770300..136888186 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529621.3XP_006529684.1  nuclear receptor subfamily 5 group A member 2 isoform X1

    UniProtKB/TrEMBL
    A0A0A6YY04
    Related
    ENSMUSP00000142219.2, ENSMUST00000192357.6
    Conserved Domains (2) summary
    cd07069
    Location:299539
    NR_LBD_Lrh-1; The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,
    cd07167
    Location:86178
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers
  2. XM_006529622.4XP_006529685.1  nuclear receptor subfamily 5 group A member 2 isoform X2

    See identical proteins and their annotated locations for XP_006529685.1

    UniProtKB/TrEMBL
    Q1WLP7
    Related
    ENSMUSP00000129071.2, ENSMUST00000168126.7
    Conserved Domains (2) summary
    cd07069
    Location:259499
    NR_LBD_Lrh-1; The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,
    cd07167
    Location:46138
    NR_DBD_Lrh-1_like; The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers