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

Gene ID: 14536, updated on 17-Jan-2023

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 AllianceGenome:MGI:1352459
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
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein homodimerization activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within gamete generation and negative regulation of transcription by RNA polymerase II. Part of transcription regulator complex. Is expressed in several structures, including early conceptus; embryo ectoderm; genitourinary system; nervous system; and retina. Orthologous to human NR6A1 (nuclear receptor subfamily 6 group A member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 28.1), placenta adult (RPKM 4.6) and 5 other tissues See more
Orthologs
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Genomic context

See Nr6a1 in Genome Data Viewer
Location:
2; 2 B
Exon count:
14
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (38613381..38816473, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (38723369..38926461, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene Nr5a1 enhancer in intron 4 Neighboring gene Nr5a1 5' regulatory region Neighboring gene nuclear receptor subfamily 5, group A, member 1 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 Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of transcription regulator 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)

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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
    UniProtKB/TrEMBL
    A0A8C6G517
    Related
    ENSMUSP00000126009.2, ENSMUST00000168098.8
    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, Q687Z3
    UniProtKB/TrEMBL
    A0A8C6G4M7
    Related
    ENSMUSP00000075624.5, ENSMUST00000076275.11
    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 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_000068.8 Reference GRCm39 C57BL/6J

    Range
    38613381..38816473 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011239025.3XP_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
  2. XM_036158420.1XP_036014313.1  nuclear receptor subfamily 6 group A member 1 isoform X3

    Conserved Domains (2) summary
    cd06953
    Location:153364
    NR_LBD_DHR4_like; The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4
    cl02596
    Location:138
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
  3. XM_036158418.1XP_036014311.1  nuclear receptor subfamily 6 group A member 1 isoform X2

    Conserved Domains (2) summary
    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
    cl11397
    Location:271377
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators