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

ARID3C Gene

protein-coding   GIFtS: 35
GCID: GC09M034621

AT Rich Interactive Domain 3C (BRIGHT-Like)

(Previous name: AT rich interactive domain 3C (BRIGHT- like))
  Search for ARID3C
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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


(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 Gene:
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)

GeneCards Summary for ARID3C Gene: 
ARID3C (AT rich interactive domain 3C (BRIGHT-like)) is a protein-coding gene. GO annotations related to this gene include chromatin binding and DNA binding. An important paralog of this gene is ARID1B.




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000009.11  NC_018920.2  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 plasmidARID3C 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

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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

Explore proteomics data for ARID3C at MOPED 

Post-translational modifications:

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

  • ARID3C Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    ARID3C Protein Expression
    REFSEQ proteins: NP_001017363.1  
    ENSEMBL proteins: 
     ENSP00000368189  

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    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--
    GO:0005737cytoplasm IEA--
    GO:0045121membrane raft IDA--

    ARID3C for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    2 InterPro protein domains:
     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


    ARID3C for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         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


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

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

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

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

    ARID3C for ontologies           About GeneDecksing



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

    Search CenterWatch for drugs/clinical trials and news about ARID3C / ARI3C

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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    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)
    miRNA
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    GeneLoc Exon Structure


    (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)      ARID3C embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GCCCTAGAGA
    ARID3C Expression
    About this image


    ARID3C expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/1 selected tissues (see all 1) fully expand
     
     Pancreas (Endocrine System)
             Pancreatic endoderm/endocrine precursor-like cells ( A scalable, suspension protocol...

    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 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 4/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Arid3c1 , 5 AT rich interactive domain 3C (BRIGHT-like)1, 5 83.82(n)1
    86.27(a)1
      4 (22.01 cM)5
    5506191  NM_001017362.21  NP_001017362.11 
     417241395 
    chicken
    (Gallus gallus)
    Aves --
    --
    1(a)
    possible ortholog
    9(2917729-2918841)
    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-...
    26(a)
    1 → many
    I(9994731-9999928)


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

    (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



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

    10/154 SNPs in ARID3C are shown (see all 154)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 9 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0430344
    ----see VAR_0430342 C G mis40--------
    VAR_0430334
    ----see VAR_0430332 R Q mis40--------
    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,F--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--------

    HapMap Linkage Disequilibrium report for ARID3C (34621376 - 34628104 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for ARID3C:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv893038CNV Loss21882294
    nsv893039CNV Loss21882294
    nsv818699CNV Gain17921354

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

    (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)

    (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)

    (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

    (According to HUGE)
    About This Section
      --

    (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

    (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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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