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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

ARID3C Gene

protein-coding   GIFtS: 37
GCID: GC09M034621

AT rich interactive domain 3C (BRIGHT-like)

(Previous name: AT rich interactive domain 3C (BRIGHT- like) )
 Explore 1 disease affiliated with
ARID3C via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for ARID3C    

Aliases
for ARID3C gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
AT Rich Interactive Domain 3C (BRIGHT-Like)1 2
ARID Domain-Containing Protein 3C2 3
AT Rich Interactive Domain 3C (BRIGHT- Like)1
AT-Rich Interactive Domain-Containing Protein 3C2

External Ids:    HGNC: 212091   Entrez Gene: 1387152   Ensembl: ENSG000002051437   UniProtKB: A6NKF23   

Export aliases for ARID3C gene to outside databases

Previous GC identifers: GC09U900405 GC09M034612 GC09M034613 GC09M034575


Summaries
for ARID3C gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for ARID3C:
This gene is a member of the ARID (AT-rich interaction domain) family of proteins. The ARID domain is a
helix-turn-helix motif-based DNA-binding domain. ARID family members have roles in embryonic patterning, cell lineage
gene regulation, cell cycle control, transcriptional regulation and possibly in chromatin structure modification.
(provided by RefSeq, Jul 2008)




Genomic Views
for ARID3C gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000009.11  NC_018920.1  NT_008413.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the ARID3C gene promoter:
         USF1   p53   AP-1   Brachyury   USF-1   Nkx2-5   Meis-1b   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: ARID3C promoter sequence
   Search SABiosciences Chromatin IP Primers for ARID3C

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat ARID3C


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 9p13.3   Ensembl cytogenetic band:  9p13.3   HGNC cytogenetic band: 9p13.2

ARID3C Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ARID3C gene location

GeneLoc information about chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09M034621:  view genomic region     (about GC identifiers)

Start:
 34,621,376 bp from pter      End:
 34,628,104 bp from pter
Size:
 6,729 bases      Orientation:
 minus strand

Proteins
for ARID3C gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: ARI3C_HUMAN, A6NKF2 (See protein sequence)
Recommended Name: AT-rich interactive domain-containing protein 3C  
Size: 412 amino acids; 44073 Da
Subcellular location: Nucleus (By similarity)

Explore the universe of human proteins at neXtProt for ARID3C: NX_A6NKF2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_A6NKF2

    • ARID3C Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001017363.1  
    ENSEMBL proteins: 
     ENSP00000368189  

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    Uscn Proteins for ARID3C

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005737cytoplasm IEA--
    GO:0045121membrane raft IDA--


    ARID3C for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for ARID3C gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    ARID3C for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR023334 REKLES_domain
     IPR001606 ARID/BRIGHT_DNA-bd

    Graphical View of Domain Structure for InterPro Entry A6NKF2

    ProtoNet protein and cluster: A6NKF2

    UniProtKB/Swiss-Prot: ARI3C_HUMAN, A6NKF2
    Similarity: Contains 1 ARID domain
    Similarity: Contains 1 REKLES domain


    Function
    for ARID3C gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003682chromatin binding IEA--
    GO:0005515protein binding ----


    ARID3C for ontologies           About GeneDecksing



    Pathways & Interactions
    for ARID3C gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for ARID3C

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent ----
    GO:0045944positive regulation of transcription from RNA polymerase II promoter IEA--


    ARID3C for ontologies           About GeneDecksing



    Drugs & Compounds
    for ARID3C gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
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    Browse Tocris compounds for ARID3C
    Search CenterWatch for drugs/clinical trials and news about ARID3C / ARI3C 

    Transcripts
    for ARID3C gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for ARID3C gene: 
    NM_001017363.1  

    Unigene Cluster for ARID3C:

    AT rich interactive domain 3C (BRIGHT-like)
    Hs.534549
    Unigene Representative Sequence: NM_001017363
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000378909(uc011lon.2)

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    Inhib. RNA
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    Clone
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    GeneLoc Exon Structure


    Expression
    for ARID3C gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    ARID3C expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GCCCTAGAGA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    ARID3C expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Pancreatic endoderm/endocrine precursor-like cells (A scalable, suspensi...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See ARID3C Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.534549
        SABiosciences Custom PCR Arrays for ARID3C
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    In Situ
    Assay Products:     
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    Orthologs
    for ARID3C gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of animals.

    Orthologs for ARID3C gene from 5/19 species (see all 19)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves ARID3C6
    ARID1A6
    		 Uncharacterized protein
    		 46(a)
    1(a)
    		 1 ↔ 1
    possible ortholog
    		 Z(7409091-7420802)
    23(11199-36186)
    lizard
    (Anolis carolinensis)    		 Reptilia ARID3C6
    		 --
    		 47(a)
    		 1 ↔ 1
    		 GL343305.1(10617-18334)
    zebrafish
    (Danio rerio)    		 Actinopterygii si:ch211-113n10.66
    		 si:ch211-113n10.6
    		 32(a)
    		 1 ↔ 1
    		 5(42941365-43065710)
    fruit fly
    (Drosophila melanogaster)    		 Insecta retn6
    		 retained
    		 14(a)
    		 1 → many
    		 2R(19520135-19542343)
    worm
    (Caenorhabditis elegans)    		 Secernentea cfi-16
    		 AT-rich interactive domain-containing protein cfi-...
    		 23(a)
    		 1 → many
    		 I(9994721-9999918)


    ENSEMBL Gene Tree for ARID3C (if available)
    TreeFam Gene Tree for ARID3C (if available) 

    Paralogs
    for ARID3C gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for ARID3C gene
    ARID1B2  ARID3A2  ARID1A2  ARID3B2  
    2 SIMAP similar genes for ARID3C using alignment to 1 protein entry:     ARI3C_HUMAN:
    ARID3A    ARID3B

    ARID3C for paralogs           About GeneDecksing



    Genomic Variants
    for ARID3C gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/106 NCBI SNPs in ARID3C are shown (see all 106)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 9 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1114546151,2
    		C,F--34622501(+) GCCAGA/GCAAGG 2 C syn13Minor allele frequency- G:0.00CSA NA 4557
    rs2000750151,2
    		--34622507(+) CAAGGG/TTTTGG 2 K N mis10--------
    rs1424750161,2
    		C,F--34622525(+) CTCTCC/TTCTAG 2 E syn12Minor allele frequency- T:0.00NA EU 5875
    rs1891411641,2
    		--34622636(+) ATCTCC/TCATCC 1 -- int10--------
    rs123379561,2
    		F,--34622684(+) GGAAGC/TGCTGA 1 -- int11Minor allele frequency- T:0.11WA 118
    rs1116130711,2
    		C,--34622718(+) ATCAAG/TGTACA 1 -- int11Minor allele frequency- T:0.01NA 120
    rs108141281,2
    		C,F,A,H,--34622773(+) ATAATC/ACAGGT 1 -- int19Minor allele frequency- A:0.17NA EA WA 608
    rs1825831301,2
    		--34622796(+) AAACTA/GTATGC 1 -- int10--------
    rs119999091,2
    		C,F,H,--34622820(+) GGGTGG/TACATG 1 -- int17Minor allele frequency- T:0.15NS NA WA 344
    rs132948961,2
    		C,F,--34622944(+) TCGAGT/ACCATC 1 -- int15Minor allele frequency- A:0.20NA 10

    HapMap Linkage Disequilibrium report for ARID3C (34621376 - 34628104 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for ARID3C
         1 CNV: 9615

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    Disorders / Diseases
    for ARID3C gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    ARID3C for disorders           About GeneDecksing

    1 disease for ARID3C:    About MalaCards
    neuronitis


    Export disorders for ARID3C gene to outside databases

    Publications
    for ARID3C gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for ARID3C gene integrated from 9 sources:
    (articles sorted by number of sources associating them with ARID3C)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization of a new ARID family transcription fa ctor (Brightlike/ARID3C) that co-activates Bright/ARID3A-mediated immunoglobulin gene transcription. (PubMed id 21955986)1 Tidwell J.A....Tucker P.W. (2011)
    2. REKLES is an ARID3-restricted multifunctional domain. (PubMed id 17400556)2 Kim D.... Tucker P.W. (2007)
    3. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (2004)
    4. ARID proteins: a diverse family of DNA binding proteins implicated in the control of cell growth, differentiation, and development. (PubMed id 11959810)1 Wilsker D....Moran E. (2002)
    5. ARID proteins come in from the desert. (PubMed id 10838570)1 Kortschak R.D....Saint R. (2000)

    External Searches for ARID3C gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing ARID3C gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 138715 HGNC: 21209 Ensembl:ENSG00000205143 euGenes: HUgn138715 ECgene: ARID3C
    H-InvDB: ARID3C

    Other Databases showing ARID3C gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing ARID3C gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for ARID3C Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for ARID3C gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for ARID3C gene:
    Search GeneIP for patents involving ARID3C

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for ARID3C gene

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    About This Section

     
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    von Willebrand factor
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