Human Gene CHRAC1 (uc003yvl.3)
  Description: Homo sapiens chromatin accessibility complex 1 (CHRAC1), transcript variant 1, mRNA.
RefSeq Summary (NM_017444): 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].
Transcript (Including UTRs)
   Position: hg19 chr8:141,521,397-141,527,252 Size: 5,856 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr8:141,521,599-141,525,346 Size: 3,748 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:141,521,397-141,527,252)mRNA (may differ from genome)Protein (131 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CHRC1_HUMAN
DESCRIPTION: RecName: Full=Chromatin accessibility complex protein 1; Short=CHRAC-1; AltName: Full=Chromatin accessibility complex 15 kDa protein; Short=CHRAC-15; Short=HuCHRAC15; AltName: Full=DNA polymerase epsilon subunit p15;
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.
SUBUNIT: Interacts with POLE3. Together with POLE3, ACF1 and ISWI/SNF2H proteins, it forms the ISWI chromatin-remodeling complex, CHRAC.
SUBCELLULAR LOCATION: Nucleus (Potential).
TISSUE SPECIFICITY: Expressed in all tissues tested, including, heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CHRAC1
CDC HuGE Published Literature: CHRAC1
Positive Disease Associations: Lipids , Triglycerides
Related Studies:
  1. Lipids
    , , . [PubMed 0]
  2. Triglycerides
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.68 RPKM in Artery - Tibial
Total median expression: 354.33 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -103.00202-0.510 Picture PostScript Text
3' UTR -482.791906-0.253 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003958 - CBFA_NFYB_domain
IPR009072 - Histone-fold

Pfam Domains:
PF00808 - Histone-like transcription factor (CBF/NF-Y) and archaeal histone

SCOP Domains:
47113 - Histone-fold

ModBase Predicted Comparative 3D Structure on Q9NRG0
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  EnsemblFlyBase  
  Protein SequenceProtein Sequence  
  AlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0016779 nucleotidyltransferase activity
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0006338 chromatin remodeling
GO:0071897 DNA biosynthetic process

Cellular Component:
GO:0005634 nucleus
GO:0008622 epsilon DNA polymerase complex
GO:0008623 CHRAC


-  Descriptions from all associated GenBank mRNAs
  AK023537 - Homo sapiens cDNA FLJ13475 fis, clone PLACE1003605.
AK308709 - Homo sapiens cDNA, FLJ98750.
BC015891 - Homo sapiens chromatin accessibility complex 1, mRNA (cDNA clone MGC:16846 IMAGE:3908717), complete cds.
AB463498 - Synthetic construct DNA, clone: pF1KB3422, Homo sapiens CHRAC1 gene for chromatin accessibility complex 1, without stop codon, in Flexi system.
DQ895620 - Synthetic construct Homo sapiens clone IMAGE:100010080; FLH186066.01L; RZPDo839A0861D chromatin accessibility complex 1 (CHRAC1) gene, encodes complete protein.
EU176214 - Synthetic construct Homo sapiens clone IMAGE:100006617; FLH264076.01X; RZPDo839A11257D chromatin accessibility complex 1 (CHRAC1) gene, encodes complete protein.
KJ894011 - Synthetic construct Homo sapiens clone ccsbBroadEn_03405 CHRAC1 gene, encodes complete protein.
AF226076 - Homo sapiens CHRAC15 (CHRAC15) mRNA, complete cds.
AK311595 - Homo sapiens cDNA, FLJ18637.
JD496296 - Sequence 477320 from Patent EP1572962.
JD298051 - Sequence 279075 from Patent EP1572962.
JD066007 - Sequence 47031 from Patent EP1572962.
JD107098 - Sequence 88122 from Patent EP1572962.
JD458167 - Sequence 439191 from Patent EP1572962.
JD243985 - Sequence 225009 from Patent EP1572962.
JD509726 - Sequence 490750 from Patent EP1572962.
JD201966 - Sequence 182990 from Patent EP1572962.
JD195531 - Sequence 176555 from Patent EP1572962.
JD043024 - Sequence 24048 from Patent EP1572962.
JD333674 - Sequence 314698 from Patent EP1572962.
JD101503 - Sequence 82527 from Patent EP1572962.
JD324593 - Sequence 305617 from Patent EP1572962.
JD147943 - Sequence 128967 from Patent EP1572962.
JD109632 - Sequence 90656 from Patent EP1572962.
JD234206 - Sequence 215230 from Patent EP1572962.
JD293443 - Sequence 274467 from Patent EP1572962.
JD457522 - Sequence 438546 from Patent EP1572962.
JD268352 - Sequence 249376 from Patent EP1572962.
JD552360 - Sequence 533384 from Patent EP1572962.
JD507323 - Sequence 488347 from Patent EP1572962.
JD441731 - Sequence 422755 from Patent EP1572962.
JD329803 - Sequence 310827 from Patent EP1572962.
JD329804 - Sequence 310828 from Patent EP1572962.
JD108207 - Sequence 89231 from Patent EP1572962.
JD245729 - Sequence 226753 from Patent EP1572962.
JD360626 - Sequence 341650 from Patent EP1572962.
JD410522 - Sequence 391546 from Patent EP1572962.
JD513893 - Sequence 494917 from Patent EP1572962.
JD460119 - Sequence 441143 from Patent EP1572962.
JD414732 - Sequence 395756 from Patent EP1572962.
JD120508 - Sequence 101532 from Patent EP1572962.
JD379593 - Sequence 360617 from Patent EP1572962.
JD379594 - Sequence 360618 from Patent EP1572962.
JD311577 - Sequence 292601 from Patent EP1572962.
JD113279 - Sequence 94303 from Patent EP1572962.
JD428098 - Sequence 409122 from Patent EP1572962.
JD185084 - Sequence 166108 from Patent EP1572962.
JD381712 - Sequence 362736 from Patent EP1572962.
JD512046 - Sequence 493070 from Patent EP1572962.
JD555137 - Sequence 536161 from Patent EP1572962.
JD119418 - Sequence 100442 from Patent EP1572962.
JD348046 - Sequence 329070 from Patent EP1572962.
JD228856 - Sequence 209880 from Patent EP1572962.
JD068311 - Sequence 49335 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CHRAC15, CHRC1_HUMAN, NM_017444, NP_059140, Q9NRG0
UCSC ID: uc003yvl.3
RefSeq Accession: NM_017444
Protein: Q9NRG0 (aka CHRC1_HUMAN or CHR1_HUMAN)
CCDS: CCDS6379.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_017444.5
exon count: 3CDS single in 3' UTR: no RNA size: 2504
ORF size: 396CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 891.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.