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nr1h4 nuclear receptor subfamily 1, group H, member 4 [ Larimichthys crocea (large yellow croaker) ]

Gene ID: 104924364, updated on 12-Mar-2024

Summary

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Gene symbol
nr1h4
Gene description
nuclear receptor subfamily 1, group H, member 4
Locus tag
EH28_11181
See related
Ensembl:ENSLCRG00005015168
Gene type
protein coding
RefSeq status
MODEL
Organism
Larimichthys crocea
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Eupercaria; Sciaenidae; Larimichthys
Orthologs
human zebrafish all
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Genomic context

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See nr1h4 in Genome Data Viewer
Location:
chromosome: XXI
Exon count:
12
Annotation release Status Assembly Chr Location
102 current L_crocea_2.0 (GCF_000972845.2) XXI NC_040031.1 (8116753..8129260, complement)
101 previous assembly L_crocea_1.0 (GCF_000972845.1) Unplaced Scaffold NW_017608046.1 (33328..45715)

Chromosome XXI - NC_040031.1Genomic Context describing neighboring genes Neighboring gene nudix (nucleoside diphosphate linked moiety X)-type motif 4a Neighboring gene ubiquitin-conjugating enzyme E2Na Neighboring gene C1q and TNF related 13 Neighboring gene solute carrier family 17 member 8 Neighboring gene uncharacterized LOC113744200 Neighboring gene piggyBac transposable element-derived protein 4-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Molecular cloning and characterization of farnesoid X receptor from large yellow croaker (Larimichthys crocea) and the effect of dietary CDCA on the expression of inflammatory genes in intestine and spleen. Du J, et al. Comp Biochem Physiol B Biochem Mol Biol, 2018 Feb. PMID 28982586
  2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. These results suggested that the supplementation of CDCA may relieve the inflammation of intestine and spleen in large yellow croaker via the activation of FXR.
    Title: Molecular cloning and characterization of farnesoid X receptor from large yellow croaker (Larimichthys crocea) and the effect of dietary CDCA on the expression of inflammatory genes in intestine and spleen.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables bile acid binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables nuclear receptor activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in bile acid signaling pathway IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in lipid metabolic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in negative regulation of inflammatory response IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
bile acid receptor
Names
Bile acid receptor

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Larimichthys crocea Annotation Release 102 details...Open this link in a new tab

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

Reference L_crocea_2.0 Primary Assembly

Genomic

  1. NC_040031.1 Reference L_crocea_2.0 Primary Assembly

    Range
    8116753..8129260 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_010737686.3 → XP_010735988.1  bile acid receptor isoform X2

    See identical proteins and their annotated locations for XP_010735988.1

    UniProtKB/TrEMBL
    A0A0F8BD43
    Related
    ENSLCRP00005039160.1, ENSLCRT00005039870.1
    Conserved Domains (2) summary
    cd06936
    Location:261 → 480
    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:134 → 217
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers

  2. XM_027272519.1 → XP_027128320.1  bile acid receptor isoform X3

  3. XM_010737685.3 → XP_010735987.1  bile acid receptor isoform X1

    See identical proteins and their annotated locations for XP_010735987.1

    Conserved Domains (2) summary
    cd06936
    Location:269 → 488
    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:134 → 225
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers

  4. XM_010737684.3 → XP_010735986.1  bile acid receptor isoform X1

    See identical proteins and their annotated locations for XP_010735986.1

    Conserved Domains (2) summary
    cd06936
    Location:269 → 488
    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:134 → 225
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers

  5. XM_027272520.1 → XP_027128321.1  bile acid receptor isoform X4

    UniProtKB/TrEMBL
    A0A6G0IYL8
    Related
    ENSLCRP00005039164.1, ENSLCRT00005039874.1
    Conserved Domains (2) summary
    cd06936
    Location:241 → 460
    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:114 → 197
    NR_DBD_FXR; DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers
Nucleotide Protein
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