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Arid1a AT rich interactive domain 1A (SWI-like) [ Mus musculus (house mouse) ]

Gene ID: 93760, updated on 8-Dec-2022

Summary

Official Symbol
Arid1aprovided by MGI
Official Full Name
AT rich interactive domain 1A (SWI-like)provided by MGI
Primary source
MGI:MGI:1935147
See related
Ensembl:ENSMUSG00000007880 AllianceGenome:MGI:1935147
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
Osa1; BAF250; BAF250a; Smarcf1; 1110030E03Rik
Summary
Enables ATP-dependent chromatin remodeler activity. Contributes to nucleosome binding activity. Acts upstream of or within several processes, including animal organ development; embryonic morphogenesis; and toxin transport. Located in chromatin. Part of SWI/SNF complex; nBAF complex; and npBAF complex. Is expressed in several structures, including alimentary system; brain; early conceptus; genitourinary system; and sensory organ. Used to study Coffin-Siris syndrome. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 2; breast cancer; carcinoma (multiple); gastrointestinal system cancer (multiple); and neuroblastoma. Orthologous to human ARID1A (AT-rich interaction domain 1A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 94.0), spleen adult (RPKM 52.9) and 28 other tissues See more
Orthologs
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Genomic context

See Arid1a in Genome Data Viewer
Location:
4; 4 D2.3
Exon count:
21
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (133406319..133484682, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (133679008..133756769, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene 13213 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class V Neighboring gene microRNA 7227 Neighboring gene predicted gene, 30019 Neighboring gene predicted gene, 29942 Neighboring gene predicted gene, 34296 Neighboring gene predicted gene, 25270

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP-dependent chromatin remodeler activity IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables nuclear receptor binding ISO
Inferred from Sequence Orthology
more info
 
contributes_to nucleosome binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to nucleosome binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in androgen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cardiac chamber development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cardiac muscle cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within chromatin organization IPI
Inferred from Physical Interaction
more info
PubMed 
acts_upstream_of_or_within chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
 
involved_in chromatin remodeling NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within embryo implantation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within forebrain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within formation of primary germ layer IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within gastrulation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in glucocorticoid receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in intracellular estrogen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within neural tube closure IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nucleosome disassembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within optic cup formation involved in camera-type eye development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within placenta blood vessel development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of T cell differentiation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of cell differentiation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of double-strand break repair NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of myoblast differentiation 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 
involved_in regulation of G0 to G1 transition NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of G1/S transition of mitotic cell cycle NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of mitotic metaphase/anaphase transition NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of nucleotide-excision repair NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within toxin transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of SWI/SNF complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of SWI/SNF complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of SWI/SNF complex ISO
Inferred from Sequence Orthology
more info
 
part_of SWI/SNF complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of SWI/SNF superfamily-type complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of bBAF complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of brahma complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in chromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromatin NAS
Non-traceable Author Statement
more info
PubMed 
part_of nBAF complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of nBAF complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of nBAF complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of npBAF complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of npBAF complex NAS
Non-traceable Author Statement
more info
PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
AT-rich interactive domain-containing protein 1A
Names
ARID domain-containing protein 1A
AT rich interactive domain 1A (Swi1 like)
BRG1-associated factor 250a
SWI-like protein
SWI/SNF complex protein p270
SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin subfamily F member 1
osa homolog 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)

  1. NM_001080819.2NP_001074288.1  AT-rich interactive domain-containing protein 1A isoform 1

    See identical proteins and their annotated locations for NP_001074288.1

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752
    Consensus CDS
    CCDS38908.1
    UniProtKB/Swiss-Prot
    A2BH40, Q925Q1
    Related
    ENSMUSP00000101517.4, ENSMUST00000105897.10
    Conserved Domains (2) summary
    smart00501
    Location:10191110
    BRIGHT; BRIGHT, ARID (A/T-rich interaction domain) domain
    pfam12031
    Location:19742229
    DUF3518; Domain of unknown function (DUF3518)
  2. NM_001363070.2NP_001349999.1  AT-rich interactive domain-containing protein 1A isoform 2

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752
    Consensus CDS
    CCDS89836.1
    Related
    ENSMUSP00000008024.7, ENSMUST00000008024.7
    Conserved Domains (4) summary
    PHA03247
    Location:7261279
    PHA03247; large tegument protein UL36; Provisional
    pfam09606
    Location:232596
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    cd16876
    Location:634726
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12031
    Location:15931848
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  3. NM_001401271.1NP_001388200.1  AT-rich interactive domain-containing protein 1A isoform 3

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752
  4. NM_001401273.1NP_001388202.1  AT-rich interactive domain-containing protein 1A isoform 4

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752
    UniProtKB/TrEMBL
    E9QAQ7
  5. NM_001401275.1NP_001388204.1  AT-rich interactive domain-containing protein 1A isoform 2

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752
  6. NM_001401276.1NP_001388205.1  AT-rich interactive domain-containing protein 1A isoform 2

    Status: VALIDATED

    Source sequence(s)
    BX537327, CR751606, CR925752

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    133406319..133484682 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006539325.5XP_006539388.1  AT-rich interactive domain-containing protein 1A isoform X1

    Conserved Domains (4) summary
    PHA03247
    Location:11111665
    PHA03247; large tegument protein UL36; Provisional
    cd16876
    Location:10191111
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12004
    Location:597886
    DUF3498; Domain of unknown function (DUF3498)
    pfam12031
    Location:19792234
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  2. XM_036164578.1XP_036020471.1  AT-rich interactive domain-containing protein 1A isoform X4

    Conserved Domains (4) summary
    PHA03247
    Location:7261279
    PHA03247; large tegument protein UL36; Provisional
    pfam09606
    Location:232596
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    cd16876
    Location:634726
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12031
    Location:15931848
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  3. XM_006539326.5XP_006539389.1  AT-rich interactive domain-containing protein 1A isoform X2

    UniProtKB/TrEMBL
    E9QAQ7
    Related
    ENSMUSP00000122354.3, ENSMUST00000145664.9
    Conserved Domains (4) summary
    PHA03247
    Location:11111664
    PHA03247; large tegument protein UL36; Provisional
    cd16876
    Location:10191111
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12004
    Location:597886
    DUF3498; Domain of unknown function (DUF3498)
    pfam12031
    Location:19782233
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  4. XM_006539327.5XP_006539390.1  AT-rich interactive domain-containing protein 1A isoform X3

    UniProtKB/Swiss-Prot
    A2BH40
    Conserved Domains (4) summary
    PHA03247
    Location:7261280
    PHA03247; large tegument protein UL36; Provisional
    cd16876
    Location:634726
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12004
    Location:212501
    DUF3498; Domain of unknown function (DUF3498)
    pfam12031
    Location:15941849
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  5. XM_036164577.1XP_036020470.1  AT-rich interactive domain-containing protein 1A isoform X4

    Conserved Domains (4) summary
    PHA03247
    Location:7261279
    PHA03247; large tegument protein UL36; Provisional
    pfam09606
    Location:232596
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    cd16876
    Location:634726
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12031
    Location:15931848
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa
  6. XM_030253943.2XP_030109803.1  AT-rich interactive domain-containing protein 1A isoform X3

    Conserved Domains (4) summary
    PHA03247
    Location:7261280
    PHA03247; large tegument protein UL36; Provisional
    cd16876
    Location:634726
    ARID_ARID1A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 1A (ARID1A) and similar proteins
    pfam12004
    Location:212501
    DUF3498; Domain of unknown function (DUF3498)
    pfam12031
    Location:15941849
    BAF250_C; SWI/SNF-like complex subunit BAF250/Osa