U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Arid5a AT-rich interaction domain 5A [ Rattus norvegicus (Norway rat) ]

Gene ID: 316327, updated on 27-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Arid5aprovided by RGD
Official Full Name
AT-rich interaction domain 5Aprovided by RGD
Primary source
RGD:1311041
See related
EnsemblRapid:ENSRNOG00000015382 AllianceGenome:RGD:1311041
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including identical protein binding activity; nuclear receptor binding activity; and nucleic acid binding activity. Predicted to be involved in several processes, including cellular response to estrogen stimulus; positive regulation of T-helper 17 type immune response; and positive regulation of gene expression. Predicted to act upstream of or within chondrocyte differentiation; positive regulation of protein acetylation; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human ARID5A (AT-rich interaction domain 5A). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Heart (RPKM 42.7), Spleen (RPKM 32.8) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Arid5a in Genome Data Viewer
Location:
9q21
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (46030513..46058729)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (38534612..38549467)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (42871907..42886725)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100909803 Neighboring gene uncharacterized LOC102554222 Neighboring gene neuralized E3 ubiquitin protein ligase 3 Neighboring gene KAT8 regulatory NSL complex subunit 3 Neighboring gene fer-1-like family member 5 Neighboring gene lectin, mannose-binding 2-like

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Arid5a exacerbates IFN-γ-mediated septic shock by stabilizing T-bet mRNA. Zaman MM, et al. Proc Natl Acad Sci U S A, 2016 Oct 11. PMID 27671645, Free PMC Article
  2. Arid5a cooperates with Sox9 to stimulate chondrocyte-specific transcription. Amano K, et al. Mol Biol Cell, 2011 Apr 15. PMID 21346191, Free PMC Article
  3. Modulator recognition factor 1, an AT-rich interaction domain family member, is a novel corepressor for estrogen receptor alpha. Georgescu SP, et al. Mol Endocrinol, 2005 Oct. PMID 15941852
  4. DNA-binding properties of ARID family proteins. Patsialou A, et al. Nucleic Acids Res, 2005. PMID 15640446, Free PMC Article
  5. Arid5a regulates naive CD4+ T cell fate through selective stabilization of Stat3 mRNA. Masuda K, et al. J Exp Med, 2016 Apr 4. PMID 27022145, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC124686

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA stem-loop binding ISO
Inferred from Sequence Orthology
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA 3'-UTR AU-rich region binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear androgen receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear estrogen receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear retinoid X receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables nuclear thyroid hormone receptor binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription cis-regulatory region binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cellular response to estrogen stimulus ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within chondrocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of 3'-UTR-mediated mRNA stabilization ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of T-helper 1 cell cytokine production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of T-helper 17 type immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of interleukin-17 production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of interleukin-6 production ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of protein acetylation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of type II interferon production ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
AT-rich interactive domain-containing protein 5A
Names
AT rich interactive domain 5A (Mrf1 like)

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001034934.2 → NP_001030106.1  AT-rich interactive domain-containing protein 5A isoform 1

    See identical proteins and their annotated locations for NP_001030106.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    F7F3Y1, Q3KRC8

  2. NM_001399179.1 → NP_001386108.1  AT-rich interactive domain-containing protein 5A isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    A6INC7
    Conserved Domains (1) summary
    cd16884
    Location:52 → 138
    ARID_ARID5A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 5A (ARID5A) and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086027.1 Reference GRCr8

    Range
    46030513..46058729
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063267145.1 → XP_063123215.1  AT-rich interactive domain-containing protein 5A isoform X1

  2. XM_039083561.2 → XP_038939489.1  AT-rich interactive domain-containing protein 5A isoform X3

    UniProtKB/TrEMBL
    A0A8I6AIK6
    Related
    ENSRNOP00000060873.3, ENSRNOT00000067688.4
    Conserved Domains (1) summary
    cl28902
    Location:42 → 80
    ARID; ARID/BRIGHT DNA binding domain family

  3. XM_006244807.5 → XP_006244869.1  AT-rich interactive domain-containing protein 5A isoform X2

    UniProtKB/TrEMBL
    A0A0G2K0Q5, A0A8I6AIK6
    Related
    ENSRNOP00000071542.2, ENSRNOT00000089673.3
    Conserved Domains (1) summary
    smart00501
    Location:50 → 142
    BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain

  4. XM_039083563.2 → XP_038939491.1  AT-rich interactive domain-containing protein 5A isoform X4

    UniProtKB/TrEMBL
    F7F3Y1
    Conserved Domains (1) summary
    cl28902
    Location:1 → 75
    ARID; ARID/BRIGHT DNA binding domain family

  5. XM_039083564.2 → XP_038939492.1  AT-rich interactive domain-containing protein 5A isoform X4

    UniProtKB/TrEMBL
    F7F3Y1
    Conserved Domains (1) summary
    cl28902
    Location:1 → 75
    ARID; ARID/BRIGHT DNA binding domain family

  6. XM_017596440.3 → XP_017451929.1  AT-rich interactive domain-containing protein 5A isoform X5

    UniProtKB/TrEMBL
    F7F3Y1, Q3KRC8

RNA

  1. XR_010054592.1 RNA Sequence

  2. XR_010054594.1 RNA Sequence

  3. XR_010054593.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools