Arid4a AT-rich interaction domain 4A [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Arid4aprovided by MGI
Official Full Name: AT-rich interaction domain 4Aprovided by MGI
Primary source: MGI:MGI:2444354
See related: Ensembl:ENSMUSG00000048118 AllianceGenome:MGI:2444354
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: Rbbp1; A630009N03; A630067N03Rik
Summary: Predicted to enable transcription cis-regulatory region binding activity. Acts upstream of or within several processes, including establishment of Sertoli cell barrier; peptidyl-lysine trimethylation; and regulation of gene expression. Predicted to be located in cytosol; nucleoplasm; and plasma membrane. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Used to study acute myeloid leukemia. Orthologous to human ARID4A (AT-rich interaction domain 4A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in bladder adult (RPKM 3.7), frontal lobe adult (RPKM 3.5) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12 C2; 12 29.39 cM

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (71061314..71146125)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (71015081..71099351)

Chromosome 12 - NC_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

ARID4A and ARID4B function as transcriptional coactivators for AR and RB and play an integral part in the AR and RB regulatory pathways involved in the regulation of Sertoli cell function and male fertility.
Title: ARID4A and ARID4B regulate male fertility, a functional link to the AR and RB pathways.
Arid4a-deficient mice initially display ineffective hematopoiesis, followed by transition to chronic myelomonocytic leukemia (CMML)-like myelodysplastic/myeloproliferative disorder, and then transformation to AML.
Title: Identification of chromatin remodeling genes Arid4a and Arid4b as leukemia suppressor genes.
The retinoblastoma binding protein 1 shows a marked genomic instability, which is coincidental with decreased DNA methylation, increased acetylation of histone H3 and decreased tri-methylation of histone H4 at lysine 20 (H4K20).
Title: Role of the RB1 family in stabilizing histone methylation at constitutive heterochromatin.
RBP1 and the mSin3 histone deacetylase complex bind to BRMS1 and repress transcription
Title: Breast cancer metastasis suppressor 1 (BRMS1) forms complexes with retinoblastoma-binding protein 1 (RBP1) and the mSin3 histone deacetylase complex and represses transcription.

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Variation

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Alleles

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

Targeted (2) 1 citation
Chemically induced (ENU) (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D12Mit200 (e-PCR), detects polymorphism
- UniSTS:126756

D12Mit200.3 (e-PCR), detects polymorphism
- UniSTS:126757

NoName (e-PCR)
- UniSTS:236859

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables double-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chromatin organization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within chromatin organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within erythrocyte development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within establishment of Sertoli cell barrier	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within genomic imprinting	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of stem cell population maintenance	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of transforming growth factor beta receptor signaling pathway	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of stem cell population maintenance	NAS Non-traceable Author Statement 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 regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within spermatogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
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	NAS Non-traceable Author Statement more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: AT-rich interactive domain-containing protein 4A

Names: ARID domain-containing protein 4A; AT rich interactive domain 4A (RBP1-like); AT rich interactive domain 4A (Rbp1 like); retinoblastoma-binding protein 1

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_001081195.1 → NP_001074664.1 AT-rich interactive domain-containing protein 4A

See identical proteins and their annotated locations for NP_001074664.1

Status: VALIDATED

Source sequence(s)

AC112794, AC132325

Consensus CDS

CCDS36471.1

UniProtKB/Swiss-Prot

B2RXT8, B2RY61, F8VPQ2, Q05CI2, Q6PE90

Related

ENSMUSP00000035512.6, ENSMUST00000046305.12

Conserved Domains (4) summary

smart00333
Location:58 → 113

TUDOR; Tudor domain

cd16882
Location:312 → 397

ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins

cd18641
Location:580 → 638

CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins

pfam08169
Location:170 → 262

RBB1NT; RBB1NT (NUC162) domain

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_000078.7 Reference GRCm39 C57BL/6J

Range

71061314..71146125

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036157396.1 → XP_036013289.1 AT-rich interactive domain-containing protein 4A isoform X1

Conserved Domains (5) summary

cd16882
Location:312 → 397

ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins

cd18641
Location:580 → 638

CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins

pfam08169
Location:170 → 262

RBB1NT; RBB1NT (NUC162) domain

cd20459
Location:4 → 61

Tudor_ARID4A_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins

cl02573
Location:62 → 118

Tudor_SF; Tudor domain superfamily
XM_036157397.1 → XP_036013290.1 AT-rich interactive domain-containing protein 4A isoform X1

Conserved Domains (5) summary

cd16882
Location:312 → 397

ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins

cd18641
Location:580 → 638

CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins

pfam08169
Location:170 → 262

RBB1NT; RBB1NT (NUC162) domain

cd20459
Location:4 → 61

Tudor_ARID4A_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins

cl02573
Location:62 → 118

Tudor_SF; Tudor domain superfamily
XM_036157398.1 → XP_036013291.1 AT-rich interactive domain-containing protein 4A isoform X2

Conserved Domains (2) summary

cd18641
Location:258 → 316

CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins

cl28902
Location:1 → 75

ARID; ARID/BRIGHT DNA binding domain family
XM_006515834.4 → XP_006515897.1 AT-rich interactive domain-containing protein 4A isoform X3

Conserved Domains (2) summary

cd18641
Location:258 → 316

CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins

cl28902
Location:1 → 75

ARID; ARID/BRIGHT DNA binding domain family
XM_036157399.1 → XP_036013292.1 AT-rich interactive domain-containing protein 4A isoform X4

Conserved Domains (1) summary

cl28914
Location:1 → 33

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains
XM_006515835.2 → XP_006515898.1 AT-rich interactive domain-containing protein 4A isoform X5

Conserved Domains (1) summary

cl28914
Location:1 → 33

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains