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ARID3C Gene

protein-coding   GIFtS: 36
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)
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Aliases
AT Rich Interactive Domain 3C (BRIGHT-Like)1 2
ARID Domain-Containing Protein 3C2 3
AT Rich Interactive Domain 3C (BRIGHT- Like)1
Brightlike2
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, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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. 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000009.12  NC_018920.2  NT_008413.19  
Regulatory elements:
   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 Chromatin IP Primers for ARID3C

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing 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 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: ARI3C_HUMAN, A6NKF2 (See protein sequence)
Recommended Name: AT-rich interactive domain-containing protein 3C  
Size: 412 amino acids; 44073 Da

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

Explore proteomics data for ARID3C at MOPED


See ARID3C Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001017363.1  
ENSEMBL proteins: 
 ENSP00000368189  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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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,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 3 molecular function terms:    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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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
ARI3C_HUMAN, A6NKF2: Nucleus (By similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus2
cytosol1
endoplasmic reticulum1
mitochondrion1

Gene Ontology (GO): 4 cellular component terms:    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


(SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ARID3C
Interactions:

    Search GeneGlobe Interaction Network for ARID3C

STRING Interaction Network Preview (showing 5 interactants - click image to see 22)

Selected Interacting proteins for ARID3C (ENSP000003681894) via UniProtKB, MINT, STRING, and/or I2D (see all 22)
InteractantInteraction Details
GeneCardExternal ID(s)
TADA3ENSP000003076844STRING: ENSP00000307684
ACTL6AENSP000003975524STRING: ENSP00000397552
ACTL6BENSP000001603824STRING: ENSP00000160382
MYOD1ENSP000002500034STRING: ENSP00000250003
SPI1ENSP000002271634STRING: ENSP00000227163
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Gene Ontology (GO): 2 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006351transcription, DNA-templated 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, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for 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,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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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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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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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ARID3C expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GCCCTAGAGA
ARID3C Expression
About this image

ARID3C Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

ARID3C Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.534549
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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)
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This gene was present in the common ancestor of animals.

Orthologs for ARID3C gene from Selected species (see all 13)    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 82.32(n)1
84.52(a)1
  4 (22.01 cM)5
5506191  NM_001017362.21  NP_001017362.11 
 417241395 
chicken
(Gallus gallus)
Aves ARID3C6
AT rich interactive domain 3C (BRIGHT-like)
46(a)
1 ↔ 1
Z(7784790-7796943)
lizard
(Anolis carolinensis)
Reptilia ARID3C6
AT rich interactive domain 3C (BRIGHT-like)
51(a)
1 ↔ 1
GL343305.1(10563-18334)
zebrafish
(Danio rerio)
Actinopterygii ARID3C6
AT rich interactive domain 3C (BRIGHT-like)
34(a)
1 ↔ 1
5(42941365-43065710) ENSDARG00000067729
fruit fly
(Drosophila melanogaster)
Insecta retn6
retained
19(a)
1 → many
2R(19520135-19542343)
worm
(Caenorhabditis elegans)
Secernentea cfi-16
Protein CFI-1 (cfi-1) mRNA, complete cds
28(a)
1 → many
I(9994731-9999928) WBGene00000476


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)
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Paralogs for ARID3C gene
ARID1B2  ARID1A2  ARID3A2  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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for ARID3C (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
----------
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--------
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
     Database of Genomic Variants (DGV) 3 variations for ARID3C:    About this table    
Variant IDTypeSubtypePubMed ID
nsv893038CNV Loss21882294
nsv893039CNV Loss21882294
nsv818699CNV Gain17921354

Site Specific Mutation Identification with PCR Assays
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(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.)
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  --

(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)
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PubMed articles for ARID3C gene integrated from 10 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 factor (Brightlike/ARID3C) that co-activates Bright/ARID3A-mediated immunoglobulin gene transcription. (PubMed id 21955986)1 Tidwell J.A....Tucker P.W. (Mol. Immunol. 2011)
  2. REKLES is an ARID3-restricted multifunctional domain. (PubMed id 17400556)2 Kim D.... Tucker P.W. (J. Biol. Chem. 2007)
  3. Nomenclature of the ARID family of DNA-binding proteins. (PubMed id 15922553)1 Wilsker D....Moran E. (Genomics 2005)
  4. DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)2 Humphray S.J.... Dunham I. (Nature 2004)
  5. 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. (amp 2002)
  6. ARID proteins come in from the desert. (PubMed id 10838570)1 Kortschak R.D....Saint R. (Trends Biochem. Sci. 2000)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 138715 HGNC: 21209 Ensembl:ENSG00000205143 euGenes: HUgn138715 ECgene: ARID3C
H-InvDB: ARID3C

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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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.)
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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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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