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

CHRAC1 Gene

protein-coding   GIFtS: 54
GCID: GC08P141521

Chromatin Accessibility Complex 1

  See related diseases
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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Chromatin Accessibility Complex 11 2     DNA Polymerase Epsilon Subunit P152 3
Histone-Fold Protein CHRAC151 2     CHARC12 5
Chromatin Accessibility Complex 15 KDa Protein2 3     CHARC152 5
CHRAC-12 3     YCL12 5
CHRAC-152 3     Chromatin Accessibility Complex Protein 12
CHRAC152 3     HuCHRAC153

External Ids:    HGNC: 135441   Entrez Gene: 541082   Ensembl: ENSG000001044727   OMIM: 6072685   UniProtKB: Q9NRG03   
ORGUL members:         
NONCODE14:n411692 n406466      

Export aliases for CHRAC1 gene to outside databases

Previous GC identifers: GC08P140484 GC08P141708 GC08P141205 GC08P141492 GC08P141590 GC08P136832


(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 CHRAC1 Gene:
CHRAC1 is a histone-fold protein that interacts with other histone-fold proteins to bind DNA in a
sequence-independent manner. These histone-fold protein dimers combine within larger enzymatic complexes for DNA
transcription, replication, and packaging.(supplied by OMIM, Apr 2004)

GeneCards Summary for CHRAC1 Gene: 
CHRAC1 (chromatin accessibility complex 1) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with CHRAC1 include uterine fibroid, and myoma. GO annotations related to this gene include sequence-specific DNA binding and DNA-directed DNA polymerase activity.

UniProtKB/Swiss-Prot: CHRC1_HUMAN, Q9NRG0
Function: Forms a complex with DNA polymerase epsilon subunit POLE3 and binds naked DNA, which is then
incorporated into chromatin, aided by the nucleosome remodeling activity of ISWI/SNF2H and ACF1




(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_000008.10  NC_018919.2  NT_008046.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CHRAC1 gene promoter:
         GCNF-1   GCNF   GCNF-2   C/EBPalpha   Evi-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCHRAC1 promoter sequence
   Search SABiosciences Chromatin IP Primers for CHRAC1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CHRAC1


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

Entrez Gene cytogenetic band: 8q24.3   Ensembl cytogenetic band:  8q24.3   HGNC cytogenetic band: 8q24.3

CHRAC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CHRAC1 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P141521:  view genomic region     (about GC identifiers)

Start:
141,521,397 bp from pter      End:
141,527,252 bp from pter
Size:
5,856 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for CHRAC1

(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: CHRC1_HUMAN, Q9NRG0 (See protein sequence)
Recommended Name: Chromatin accessibility complex protein 1  
Size: 131 amino acids; 14711 Da
Subunit: Interacts with POLE3. Together with POLE3, ACF1 and ISWI/SNF2H proteins, it forms the ISWI
chromatin-remodeling complex, CHRAC
Subcellular location: Nucleus (Potential)

Explore the universe of human proteins at neXtProt for CHRAC1: NX_Q9NRG0

Explore proteomics data for CHRAC1 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9NRG0

  • CHRAC1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    CHRAC1 Protein Expression
    REFSEQ proteins: NP_059140.1  
    ENSEMBL proteins: 
     ENSP00000220913   ENSP00000428697   ENSP00000430484   ENSP00000430003  

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    Cloud-Clone Corp. Proteins for CHRAC1 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0008622epsilon DNA polymerase complex NAS10880450
    GO:0008623CHRAC NAS10880450

    CHRAC1 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:
     IPR009072 Histone-fold
     IPR003958 CBFA_NFYB_domain

    Graphical View of Domain Structure for InterPro Entry Q9NRG0

    ProtoNet protein and cluster: Q9NRG0

    1 Blocks protein domain: IPB003958 Transcription factor CBF/NF-Y/archaeal histone


    CHRAC1 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

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CHRC1_HUMAN, Q9NRG0
    Function: Forms a complex with DNA polymerase epsilon subunit POLE3 and binds naked DNA, which is then
    incorporated into chromatin, aided by the nucleosome remodeling activity of ISWI/SNF2H and ACF1

         Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding NAS10880450
    GO:0003887DNA-directed DNA polymerase activity NAS10880450
    GO:0005515protein binding ----
    GO:0043565sequence-specific DNA binding IEA--
    GO:0046982protein heterodimerization activity IEA--
         
    CHRAC1 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for CHRAC1:
     Decreased viability of wild-ty  G0/1 arrest  Increased G1 DNA content 

    Animal Models:
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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 CHRAC1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 23)

    5/24 Interacting proteins for CHRAC1 (Q9NRG03 ENSP000002209134) via UniProtKB, MINT, STRING, and/or I2D (see all 24)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MDM2Q009873, ENSP000004172814I2D: score=1 STRING: ENSP00000417281
    SMARCA5O602643, ENSP000002831314I2D: score=1 STRING: ENSP00000283131
    POLE3Q9NRF93, ENSP000003632844I2D: score=3 STRING: ENSP00000363284
    BAZ1AQ9NRL23, ENSP000003534584I2D: score=1 STRING: ENSP00000353458
    XRCC5P130103I2D: score=1 
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006338chromatin remodeling NAS10880450

    CHRAC1 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
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CHRAC1 (CHRC1)

    Search CenterWatch for drugs/clinical trials and news about CHRAC1 / CHRC1

    (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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CHRAC1 gene: 
    NM_017444.5  

    Unigene Cluster for CHRAC1:

    Chromatin accessibility complex 1
    Hs.279704  [show with all ESTs]
    Unigene Representative Sequence: NM_017444
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000220913(uc003yvl.3 uc010mem.2 uc022bbv.1) ENST00000519533
    ENST00000518971 ENST00000519618 ENST00000523569
    miRNA
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    hsa-miR-411* hsa-miR-3671 hsa-miR-582-5p hsa-miR-607 hsa-miR-379* hsa-miR-626
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    Additional mRNA sequence: 

    AF226076.1 AK023537.1 AK308709.1 AK311595.1 BC015891.1 NR_023360.2 NR_040712.1 

    4 DOTS entries:

    DT.75174540  DT.121475081  DT.91762297  DT.95275780 

    24/121 AceView cDNA sequences (see all 121):

    BX417908 AU136132 BM719279 BX459025 CR590458 AI476554 AA350347 AW337141 
    BQ441794 BX340936 BM550990 BP353821 BU618474 AF226076 AA383884 CA438405 
    CR605303 AI718191 AI832578 CF132290 AW082498 BI011169 BX394092 AK023537 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for CHRAC1    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b · 4c · 4d
    SP1:              -     -     -           -                           
    SP2:                          -           -                           
    SP3:              -     -     -     -     -                           
    SP4:                          -                                       
    SP5:                                      -                           


    ECgene alternative splicing isoforms for CHRAC1

    (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

    CHRAC1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GTTTTGTAAC
    CHRAC1 Expression
    About this image


    See CHRAC1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CHRAC1

    SOURCE GeneReport for Unigene cluster: Hs.279704

    UniProtKB/Swiss-Prot: CHRC1_HUMAN, Q9NRG0
    Tissue specificity: Expressed in all tissues tested, including, heart, brain, placenta, lung, liver, skeletal
    muscle, kidney and pancreas

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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 CHRAC1 gene from 6/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Chrac11 , 5 chromatin accessibility complex 11, 5 85.56(n)1
    83.46(a)1
      15 (33.92 cM)5
    936961  NM_053068.31  NP_444298.11 
     730903925 
    chicken
    (Gallus gallus)
    Aves CHRAC11 chromatin accessibility complex 1 75.28(n)
    75.63(a)
      100858071  XM_003640869.1  XP_003640917.1 
    lizard
    (Anolis carolinensis)
    Reptilia CHRAC16
    Uncharacterized protein
    64(a)
    1 ↔ 1
    4(15669999-15672625)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.17652 Transcribed sequence with weak similarity to protein more 76.44(n)    137725714 
    zebrafish
    (Danio rerio)
    Actinopterygii chrac11 chromatin accessibility complex 1 60.12(n)
    62.62(a)
      503606  NM_001013293.1  NP_001013311.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Chrac-166
    Chrac-16
    31(a)
    1 ↔ 1
    X(11911307-11911989)


    ENSEMBL Gene Tree for CHRAC1 (if available)
    TreeFam Gene Tree for CHRAC1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CHRAC1 gene
    2 SIMAP similar genes for CHRAC1 using alignment to 4 protein entries:     CHRC1_HUMAN (see all proteins):
    POLE4    NFYC

    CHRAC1 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for CHRAC1
    PGOHUM00000245747 PGOHUM00000249390


    (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

    10/205 SNPs in CHRAC1 are shown (see all 205)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1859959621,2
    --136831640(+) ATGTGC/TTCCCT 1 -- us2k10--------
    rs105286071,2
    C--136832053(+) gtgtc-/A/AAA 
    AAAAAAAA
    aaaaa
    3 -- us2k11NA 2
    rs96574651,2
    C--141519440(+) ctgtaT/Cgagtg 2 -- us2k12Minor allele frequency- C:0.04CSA WA 120
    rs715202921,2
    C--141519555(+) TGTAT-/TT/TTT
            
    TTTTT
    3 -- us2k1 cds11NA 2
    rs1831528181,2
    --141519603(+) GCCCAC/GGCTGC 2 -- us2k10--------
    rs1498937321,2
    --141519630(+) GATCCC/GGGATC 2 -- us2k10--------
    rs119848851,2
    C,F,A,H--141519686(+) cctccT/Cgagta 2 -- us2k12Minor allele frequency- C:0.00NA WA 4
    rs1133076301,2
    C,F--141519718(+) CACCAC/TGCCCA 2 -- us2k11Minor allele frequency- T:0.50CSA 2
    rs1432033131,2
    --141519719(+) ACCACA/GCCCAG 2 -- us2k10--------
    rs1405896391,2
    C--141519871(+) GTATT-/CTTA  
            
    CTTAT
    2 -- us2k10--------

    HapMap Linkage Disequilibrium report for CHRAC1 (141521397 - 141527252 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for CHRAC1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2737756CNV Deletion23290073
    nsv509283CNV Insertion20534489
    nsv465951CNV Loss19166990
    nsv891531CNV Loss21882294

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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
    OMIM gene information: 607268    OMIM disorders: --

    2 diseases for CHRAC1:    About MalaCards
    uterine fibroid    myoma

    1 disease from the University of Copenhagen DISEASES database for CHRAC1:
    Myoma

    CHRAC1 for disorders           About GeneDecksing

    Genetic Association Database (GAD): CHRAC1
    Human Genome Epidemiology (HuGE) Navigator: CHRAC1 (1 document)

    Export disorders for CHRAC1 gene to outside databases

    (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 CHRAC1 gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with CHRAC1)
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    1. HuCHRAC, a human ISWI chromatin remodelling complex contains hACF1 and two novel histone-fold proteins. (PubMed id 10880450)1, 2, 3 Poot R.A....Varga-Weisz P.D. (2000)
    2. Cloning and characterization of the histone-fold proteins YBL1 and YCL1. (PubMed id 11000277)1, 3, 9 Bolognese F....Mantovani R. (2000)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. The histone-fold protein complex CHRAC-15/17 enhances nucleosome sliding and assembly mediated by ACF. (PubMed id 14759371)1, 9 Kukimoto I....Varga-Weisz P.D. (2004)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    7. Human CCAAT/enhancer-binding protein b interacts with chromatin remodeling complexes of the imitation switch subfamily. (PubMed id 22242598)1 Steinberg X.P....Gutierrez J.L. (2012)
    8. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    10. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 54108 HGNC: 13544 AceView: CHRAC1 Ensembl:ENSG00000104472 euGenes: HUgn54108
    ECgene: CHRAC1 H-InvDB: CHRAC1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for CHRAC1 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 CHRAC1 gene:
    Search GeneIP for patents involving CHRAC1

    GeneCards and IP:
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