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Nr1h5 nuclear receptor subfamily 1, group H, member 5 [ Mus musculus (house mouse) ]

Gene ID: 381463, updated on 24-Jan-2023

Summary

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Official Symbol
Nr1h5provided by MGI
Official Full Name
nuclear receptor subfamily 1, group H, member 5provided by MGI
Primary source
MGI:MGI:3026618
See related
Ensembl:ENSMUSG00000048938 AllianceGenome:MGI:3026618
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
Fxrb
Summary
Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Predicted to be involved in cell differentiation; negative regulation of transcription by RNA polymerase II; and positive regulation of transcription by RNA polymerase II. Orthologous to human NR1H5P (nuclear receptor subfamily 1 group H member 5, pseudogene). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in liver E14 (RPKM 3.1), liver E14.5 (RPKM 2.8) and 5 other tissues See more
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Genomic context

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See Nr1h5 in Genome Data Viewer
Location:
3; 3 F2.2
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (102846974..102871607, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (102939658..102964291, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene thyroid stimulating hormone, beta subunit Neighboring gene synaptonemal complex protein 1 Neighboring gene predicted gene, 33866 Neighboring gene predicted gene, 22826 Neighboring gene suppressor of IKBKE 1 Neighboring gene cold shock domain containing E1, RNA binding

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Identification of farnesoid X receptor beta as a novel mammalian nuclear receptor sensing lanosterol. Otte K, et al. Mol Cell Biol, 2003 Feb. PMID 12529392, Free PMC Article
  2. Large tumor suppressor homologs 1 and 2 regulate mouse liver progenitor cell proliferation and maturation through antagonism of the coactivators YAP and TAZ. Yi J, et al. Hepatology, 2016 Nov. PMID 27531557, Free PMC Article
  3. A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain. Thompson CL, et al. Neuron, 2014 Jul 16. PMID 24952961, Free PMC Article
  4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

General gene information

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Markers

Homology

Clone Names

  • MGC141184

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables nuclear receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
Process Evidence Code Pubs
involved_in bile acid signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in negative regulation of inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 

General protein information

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Preferred Names
nuclear receptor subfamily 1, group H, member 5

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_198658.2 → NP_941060.2  nuclear receptor subfamily 1, group H, member 5 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC122219
    Consensus CDS
    CCDS38568.1
    UniProtKB/TrEMBL
    E9Q5A6
    Related
    ENSMUSP00000052557.9, ENSMUST00000058899.13
    Conserved Domains (2) summary
    cd06962
    Location:119 → 202
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers
    cl11397
    Location:247 → 497
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

  2. NM_201619.2 → NP_963913.2  nuclear receptor subfamily 1, group H, member 5 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC122219
    Consensus CDS
    CCDS79988.1
    UniProtKB/TrEMBL
    A0A0G2JEJ9
    Related
    ENSMUSP00000142799.2, ENSMUST00000196983.5
    Conserved Domains (2) summary
    cd06962
    Location:119 → 202
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers
    cl11397
    Location:247 → 489
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

  3. NM_201622.2 → NP_963916.2  nuclear receptor subfamily 1, group H, member 5 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC122219
    Consensus CDS
    CCDS79989.1
    UniProtKB/TrEMBL
    A0A0G2JG67
    Related
    ENSMUSP00000143445.2, ENSMUST00000196135.2
    Conserved Domains (2) summary
    cl02596
    Location:86 → 144
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:189 → 439
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    102846974..102871607 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501623.4 → XP_006501686.1  nuclear receptor subfamily 1, group H, member 5 isoform X1

    Conserved Domains (2) summary
    cd06936
    Location:335 → 585
    NR_LBD_Fxr; The ligand binding domain of Farnesoid X receptor:a member of the nuclear receptor superfamily of ligand-activated transcription factors
    cd06962
    Location:207 → 290
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers

  2. XM_006501626.4 → XP_006501689.1  nuclear receptor subfamily 1, group H, member 5 isoform X4

    Conserved Domains (2) summary
    cl02596
    Location:22 → 80
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:125 → 375
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

  3. XM_011240153.1 → XP_011238455.1  nuclear receptor subfamily 1, group H, member 5 isoform X3

    Conserved Domains (2) summary
    cd06962
    Location:87 → 170
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers
    cl11397
    Location:215 → 465
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

  4. XM_006501624.4 → XP_006501687.1  nuclear receptor subfamily 1, group H, member 5 isoform X2

    Conserved Domains (2) summary
    cl02596
    Location:93 → 176
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:221 → 471
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

RNA

  1. XR_375534.4 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_201620.1: Suppressed sequence

    Description
    NM_201620.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.

  2. NM_201621.1: Suppressed sequence

    Description
    NM_201621.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein Strain
Heading Accession and Version

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