Format

Send to:

Choose Destination
    • Showing Current items.

    Nr6a1 nuclear receptor subfamily 6, group A, member 1 [ Mus musculus (house mouse) ]

    Gene ID: 14536, updated on 2-Oct-2018

    Summary

    Official Symbol
    Nr6a1provided by MGI
    Official Full Name
    nuclear receptor subfamily 6, group A, member 1provided by MGI
    Primary source
    MGI:MGI:1352459
    See related
    Ensembl:ENSMUSG00000063972 Vega:OTTMUSG00000012347
    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
    RTR; Gcnf; NCNF; 1700113M01Rik
    Expression
    Biased expression in testis adult (RPKM 28.1), placenta adult (RPKM 4.6) and 5 other tissues See more
    Orthologs

    Genomic context

    See Nr6a1 in Genome Data Viewer
    Location:
    2; 2 B
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 2 NC_000068.7 (38723369..38926466, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (38578894..38781981, complement)

    Chromosome 2 - NC_000068.7Genomic Context describing neighboring genes Neighboring gene adhesion G protein-coupled receptor D2, pseudogene Neighboring gene predicted gene, 36744 Neighboring gene nuclear receptor subfamily 5, group A, member 1 Neighboring gene ribosomal protein L15, pseudogene 4 Neighboring gene nuclear receptor subfamily 6, group A, member 1, opposite strand Neighboring gene microRNA 181a-2 Neighboring gene microRNA 181b-2 Neighboring gene olfactomedin-like 2A Neighboring gene golgi autoantigen, golgin subfamily a,2 pseudogene

    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 FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II proximal promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II proximal promoter sequence-specific DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    PubMed 
    proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    steroid hormone receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    gamete generation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transcription factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transcription factor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    nuclear receptor subfamily 6 group A member 1
    Names
    germ cell nuclear factor
    mGCNF
    retinoid receptor-related testis-specific receptor

    NCBI Reference Sequences (RefSeq)

    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_001159548.1NP_001153020.1  nuclear receptor subfamily 6 group A member 1 isoform 2

      See identical proteins and their annotated locations for NP_001153020.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AL844842, CK638822, CN532747, CN537407
      Consensus CDS
      CCDS50581.1
      UniProtKB/Swiss-Prot
      Q64249
      Related
      ENSMUSP00000126009.1, ENSMUST00000168098.7
      Conserved Domains (2) summary
      cd06953
      Location:214425
      NR_LBD_DHR4_like; The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4
      cd07169
      Location:1099
      NR_DBD_GCNF_like; DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers
    2. NM_001159549.1NP_001153021.1  nuclear receptor subfamily 6 group A member 1 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AL844842, CK638822, CN532747, CN537360, CN537407
      Conserved Domains (2) summary
      cd06953
      Location:213424
      NR_LBD_DHR4_like; The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4
      cd07169
      Location:1099
      NR_DBD_GCNF_like; DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers
    3. NM_010264.4NP_034394.1  nuclear receptor subfamily 6 group A member 1 isoform 1

      See identical proteins and their annotated locations for NP_034394.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AL844842, AL935155, CK638822, CN532747, CN538225
      Consensus CDS
      CCDS16012.1
      UniProtKB/Swiss-Prot
      Q64249
      Related
      ENSMUSP00000075624.4, ENSMUST00000076275.10
      Conserved Domains (2) summary
      cd06953
      Location:271482
      NR_LBD_DHR4_like; The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4
      cd07169
      Location:67156
      NR_DBD_GCNF_like; DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000068.7 Reference GRCm38.p4 C57BL/6J

      Range
      38723369..38926466 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011239025.2XP_011237327.1  nuclear receptor subfamily 6 group A member 1 isoform X1

      Conserved Domains (2) summary
      cd06953
      Location:270481
      NR_LBD_DHR4_like; The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4
      cd07169
      Location:67156
      NR_DBD_GCNF_like; DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers
    Support Center