Arid5a AT-rich interaction domain 5A [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Arid5aprovided by MGI
Official Full Name: AT-rich interaction domain 5Aprovided by MGI
Primary source: MGI:MGI:2443039
See related: Ensembl:ENSMUSG00000037447 AllianceGenome:MGI:2443039
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: Mrf1; D430024K22Rik
Summary: Enables RNA stem-loop binding activity and chromatin binding activity. Involved in cellular response to lipopolysaccharide; positive regulation of T-helper 17 type immune response; and positive regulation of cytokine production. Acts upstream of or within chondrocyte differentiation; positive regulation of histone acetylation; and positive regulation of transcription by RNA polymerase II. Located in nucleus. Part of transcription regulator complex. Is expressed in several structures, including ear; heart; hemolymphoid system; nervous system; and neural retina. Orthologous to human ARID5A (AT-rich interaction domain 5A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in spleen adult (RPKM 7.8), thymus adult (RPKM 6.9) and 21 other tissues See more
Orthologs: human all
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Genomic context

Location:: 1 B; 1 15.2 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	1	NC_000067.7 (36346814..36363117)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	1	NC_000067.6 (36307733..36324037)

Chromosome 1 - NC_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RAGE deficiency ameliorates autoimmune hepatitis involving inhibition of IL-6 production via suppressing protein Arid5a in mice.
Title: RAGE deficiency ameliorates autoimmune hepatitis involving inhibition of IL-6 production via suppressing protein Arid5a in mice.
Arid5a Mediates an IL-17-Dependent Pathway That Drives Autoimmunity but Not Antifungal Host Defense.
Title: Arid5a Mediates an IL-17-Dependent Pathway That Drives Autoimmunity but Not Antifungal Host Defense.
The novel long noncoding RNA AU021063, induced by IL-6/Arid5a signaling, exacerbates breast cancer invasion and metastasis by stabilizing Trib3 and activating the Mek/Erk pathway.
Title: The novel long noncoding RNA AU021063, induced by IL-6/Arid5a signaling, exacerbates breast cancer invasion and metastasis by stabilizing Trib3 and activating the Mek/Erk pathway.
Feedback regulation of Arid5a and Ppar-gamma2 maintains adipose tissue homeostasis.
Title: Feedback regulation of Arid5a and Ppar-γ2 maintains adipose tissue homeostasis.
Arid5a orchestrates a feed-forward amplification loop, which promoted IL-17 signaling by controlling mRNA stability and translation
Title: IL-17 integrates multiple self-reinforcing, feed-forward mechanisms through the RNA binding protein Arid5a.
Arid5a regulates the augmentation of OX40 in CD4+ T cells, and impairs destabilizing functions of Regnase-1 and Roquin-1 on OX40 alternative decay element-like stem-loop in the 3' untranslated region
Title: Arid5a stabilizes OX40 mRNA in murine CD4(+) T cells by recognizing a stem-loop structure in its 3'UTR.
High Arid5a expression is associated with inflammation.
Title: Regulation of inflammatory responses by dynamic subcellular localization of RNA-binding protein Arid5a.
Arid5a deficiency resulted in decreased levels of IFN-gamma under Th1 cell conditions, in which T-box expressed in T cells (T-bet) mRNA expression was inhibited.
Title: Arid5a exacerbates IFN-γ-mediated septic shock by stabilizing T-bet mRNA.
data showed that regulation of Arid5a by NF-kappaB and MAPK signaling is required to maintain the balance of IL-6 mRNA expression
Title: TLR4-induced NF-κB and MAPK signaling regulate the IL-6 mRNA stabilizing protein Arid5a.
this study shows that Arid5a-deficient mice were highly refractory to bleomycin-induced lung injury
Title: Arid5a-deficient mice are highly resistant to bleomycin-induced lung injury.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Variation

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Alleles

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

Targeted (1) 1 citation
Endonuclease-mediated (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Arid5a (e-PCR), detects polymorphism
- UniSTS:547184

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA stem-loop binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA stem-loop binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein 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 protein binding	IPI Inferred from Physical Interaction more info	PubMed
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
enables transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription factor binding	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	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chondrocyte differentiation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within immune system process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T-helper 1 cell cytokine production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of T-helper 17 type immune response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-17 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-6 production	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of protein acetylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of tumor necrosis factor production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of type II interferon production	IMP Inferred from Mutant Phenotype more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
part_of transcription regulator complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: AT-rich interactive domain-containing protein 5A

Names: ARID domain-containing protein 5A; AT rich interactive domain 5A (MRF1-like); AT rich interactive domain 5A (Mrf1 like); modulator recognition factor I

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)

NM_001172205.1 → NP_001165676.1 AT-rich interactive domain-containing protein 5A isoform 1

See identical proteins and their annotated locations for NP_001165676.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the predominant transcript and encodes isoform 1.

Source sequence(s)

AK029237, AK149839, BY196834

Consensus CDS

CCDS48239.1

UniProtKB/Swiss-Prot

Q3TZS4, Q3U0F0, Q3U0S2, Q3U108, Q3UDA3, Q3UDZ6, Q8BI45, Q8BYB5, Q8R2W1

Related

ENSMUSP00000110684.2, ENSMUST00000115032.8

Conserved Domains (1) summary

smart00501
Location:56 → 143

BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
NM_001172206.1 → NP_001165677.1 AT-rich interactive domain-containing protein 5A isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.

Source sequence(s)

AK029237, AK149839, BY196834

UniProtKB/Swiss-Prot

Q3U108

Related

ENSMUSP00000110683.2, ENSMUST00000115031.8

Conserved Domains (1) summary

smart00501
Location:55 → 142

BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
NM_001290726.1 → NP_001277655.1 AT-rich interactive domain-containing protein 5A isoform 5

Status: VALIDATED

Description

Transcript Variant: This variant (5) contains an alternate 5' exon and initiates translation from an alternate start codon, compared to variant 1. The encoded protein (isoform 5) has a longer and distinct N-terminus, compared to isoform 1.

Source sequence(s)

AC132456, AK029237, AK149839, AK150170, BY196834

Consensus CDS

CCDS78560.1

UniProtKB/TrEMBL

D3Z0W0

Related

ENSMUSP00000095385.3, ENSMUST00000097778.9

Conserved Domains (1) summary

cd16884
Location:85 → 167

ARID_ARID5A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 5A (ARID5A) and similar proteins
NM_001290727.1 → NP_001277656.1 AT-rich interactive domain-containing protein 5A isoform 6

Status: VALIDATED

Description

Transcript Variant: This variant (6) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded protein (isoform 6) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

AK029237, AK149839, BY196834, CX209955

Consensus CDS

CCDS69878.1

UniProtKB/Swiss-Prot

Q3U108

Related

ENSMUSP00000110681.2, ENSMUST00000115029.2
NM_145996.4 → NP_666108.2 AT-rich interactive domain-containing protein 5A isoform 3

See identical proteins and their annotated locations for NP_666108.2

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two alternate in-frame exons in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.

Source sequence(s)

AK029237, AK085015, BY196834

Consensus CDS

CCDS14876.1

UniProtKB/Swiss-Prot

Q3U108

Related

ENSMUSP00000117810.2, ENSMUST00000137906.2

Conserved Domains (1) summary

cl02633
Location:41 → 85

ARID; ARID/BRIGHT DNA binding domain

RNA

NR_033310.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AK029237, AK149839, BY196834

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000067.7 Reference GRCm39 C57BL/6J

Range

36346814..36363117

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017319751.3 → XP_017175240.1 AT-rich interactive domain-containing protein 5A isoform X1

UniProtKB/TrEMBL

D3Z0W0

Conserved Domains (1) summary

cd16884
Location:85 → 167

ARID_ARID5A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 5A (ARID5A) and similar proteins