Arid4b AT-rich interaction domain 4B [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Arid4bprovided by MGI
Official Full Name: AT-rich interaction domain 4Bprovided by MGI
Primary source: MGI:MGI:2137512
See related: Ensembl:ENSMUSG00000039219 AllianceGenome:MGI:2137512
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: BCAA; BRCAA1; Rbp1l1; SAP180; RBBP1L1
Summary: Predicted to enable transcription cis-regulatory region binding activity. Acts upstream of or within establishment of Sertoli cell barrier; regulation of gene expression; and spermatogenesis. Predicted to be located in cytosol; mitochondrion; and nucleoplasm. Predicted to be active in nucleus. Is expressed in testis. Orthologous to human ARID4B (AT-rich interaction domain 4B). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 10.1), CNS E14 (RPKM 7.3) and 26 other tissues See more
Orthologs: human all
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Genomic context

Location:: 13 A1; 13 5.29 cM

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (14238334..14374188)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (14063609..14199603)

Chromosome 13 - NC_000079.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

Differentiation of fetal hematopoietic stem cells requires ARID4B to restrict autocrine KITLG/KIT-Src signaling.
Title: Differentiation of fetal hematopoietic stem cells requires ARID4B to restrict autocrine KITLG/KIT-Src signaling.
ARID4B is critical for mouse embryonic stem cell differentiation towards mesoderm and endoderm, linking epigenetics to pluripotency exit.
Title: ARID4B is critical for mouse embryonic stem cell differentiation towards mesoderm and endoderm, linking epigenetics to pluripotency exit.
These results identified ARID4B as a master regulator of a signaling network that governs the establishment of a niche during the critical gonocyte-to-spermatogonial stem cells (SSC) transition phase to control the fate of gonocytes and SSCs.
Title: Temporal-Spatial Establishment of Initial Niche for the Primary Spermatogonial Stem Cell Formation Is Determined by an ARID4B Regulatory Network.
The study identified ARID4B to be a key regulator of Sertoli cell function important for male germ cell development.
Title: Androgen Receptor Coactivator ARID4B Is Required for the Function of Sertoli Cells in Spermatogenesis.
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.
These studies support a causative role of ARID4B in metastatic progression of breast cancer.
Title: Allelic variation and differential expression of the mSIN3A histone deacetylase complex gene Arid4b promote mammary tumor growth and metastasis.
10 of 12 Arid4a(-/-)Arid4b(+/-) mice progressed to acute myeloid leukemia (AML) and had rapid further increases of leukocyte counts.
Title: Identification of chromatin remodeling genes Arid4a and Arid4b as leukemia suppressor genes.

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Variation

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Alleles

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

Endonuclease-mediated (4)
Targeted (5) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

322E16-R (e-PCR), detects polymorphism
- UniSTS:228460

Bcaa-pending (e-PCR), detects polymorphism
- UniSTS:228482

Clone Names

5930400I17, 6330417L24Rik, 6720480E17Rik

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription cis-regulatory region binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin organization	IGI Inferred from Genetic Interaction 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 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
part_of Sin3-type complex	NAS Non-traceable Author Statement more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	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	NAS Non-traceable Author Statement more info	PubMed

General protein information

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

Names: 180 kDa Sin3-associated polypeptide; ARID domain-containing protein 4B; AT rich interactive domain 4B (RBP1-like); breast cancer-associated antigen; histone deacetylase complex subunit SAP180; retinoblastoma binding protein 1-like 1; sin3-associated polypeptide p180

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_194262.2 → NP_919238.1 AT-rich interactive domain-containing protein 4B isoform 1

See identical proteins and their annotated locations for NP_919238.1

Status: VALIDATED

Description

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

Source sequence(s)

AK034400, AK041414, BC137783, BY720039

Consensus CDS

CCDS36599.1

UniProtKB/Swiss-Prot

A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5

Related

ENSMUSP00000106163.2, ENSMUST00000110534.8

Conserved Domains (4) summary

smart00333
Location:58 → 113

TUDOR; Tudor domain

cd16883
Location:308 → 399

ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

pfam08169
Location:168 → 263

RBB1NT; RBB1NT (NUC162) domain

cl28914
Location:573 → 630

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains
NM_198122.2 → NP_937755.1 AT-rich interactive domain-containing protein 4B isoform 2

See identical proteins and their annotated locations for NP_937755.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.

Source sequence(s)

AK034400, AK041414, BC137783, BY720039

Consensus CDS

CCDS36600.1

UniProtKB/Swiss-Prot

A2CG63

Related

ENSMUSP00000043889.9, ENSMUST00000039538.15

Conserved Domains (3) summary

smart00333
Location:58 → 113

TUDOR; Tudor domain

smart01014
Location:311 → 394

ARID; ARID/BRIGHT DNA binding domain

pfam08169
Location:169 → 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_000079.7 Reference GRCm39 C57BL/6J

Range

14238334..14374188

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006516808.4 → XP_006516871.1 AT-rich interactive domain-containing protein 4B isoform X2

Conserved Domains (4) summary

cd16883
Location:308 → 399

ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

pfam08169
Location:168 → 263

RBB1NT; RBB1NT (NUC162) domain

cd20460
Location:1 → 61

Tudor_ARID4B_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

cd20462
Location:62 → 118

Tudor_ARID4B_rpt2; second Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
XM_006516806.4 → XP_006516869.1 AT-rich interactive domain-containing protein 4B isoform X1

See identical proteins and their annotated locations for XP_006516869.1

UniProtKB/Swiss-Prot

A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5

Conserved Domains (4) summary

smart00333
Location:58 → 113

TUDOR; Tudor domain

cd16883
Location:308 → 399

ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

pfam08169
Location:168 → 263

RBB1NT; RBB1NT (NUC162) domain

cl28914
Location:573 → 630

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains
XM_036158231.1 → XP_036014124.1 AT-rich interactive domain-containing protein 4B isoform X2

Conserved Domains (4) summary

cd16883
Location:308 → 399

ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

pfam08169
Location:168 → 263

RBB1NT; RBB1NT (NUC162) domain

cd20460
Location:1 → 61

Tudor_ARID4B_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

cd20462
Location:62 → 118

Tudor_ARID4B_rpt2; second Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
XM_006516807.4 → XP_006516870.1 AT-rich interactive domain-containing protein 4B isoform X1

See identical proteins and their annotated locations for XP_006516870.1

UniProtKB/Swiss-Prot

A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5

Conserved Domains (4) summary

smart00333
Location:58 → 113

TUDOR; Tudor domain

cd16883
Location:308 → 399

ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

pfam08169
Location:168 → 263

RBB1NT; RBB1NT (NUC162) domain

cl28914
Location:573 → 630

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains
XM_030247479.2 → XP_030103339.1 AT-rich interactive domain-containing protein 4B isoform X3

Conserved Domains (2) summary

cl28902
Location:1 → 80

ARID; ARID/BRIGHT DNA binding domain family

cl28914
Location:254 → 311

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains
XM_030247480.2 → XP_030103340.1 AT-rich interactive domain-containing protein 4B isoform X4

Conserved Domains (1) summary

cl28902
Location:1 → 80

ARID; ARID/BRIGHT DNA binding domain family