Human Gene ZNF568 (uc010efi.2)
  Description: Homo sapiens zinc finger protein 568 (ZNF568), transcript variant 6, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:37,464,115-37,488,834 Size: 24,720 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr19:37,482,712-37,488,501 Size: 5,790 Coding Exon Count: 2 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:37,464,115-37,488,834)mRNA (may differ from genome)Protein (439 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsH-INVHGNC
LynxMGIPubMedUniProtKB

-  Comments and Description Text from UniProtKB
  ID: E7ER33_HUMAN
DESCRIPTION: SubName: Full=Zinc finger protein 568;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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): ZNF568
CDC HuGE Published Literature: ZNF568
Positive Disease Associations: Breath Tests , Cholesterol, HDL
Related Studies:
  1. Breath Tests
    , , . [PubMed 0]
  2. Cholesterol, HDL
    Sekar Kathiresan et al. BMC medical genetics 2007, A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study., BMC medical genetics. [PubMed 17903299]
    Using a 100K genome-wide scan, we have generated a set of putative associations for common sequence variants and lipid phenotypes. Validation of selected hypotheses in additional samples did not identify any new loci underlying variability in blood lipids. Lack of replication may be due to inadequate statistical power to detect modest quantitative trait locus effects (i.e., <1% of trait variance explained) or reduced genomic coverage of the 100K array. GWAS in FHS using a denser genome-wide genotyping platform and a better-powered replication strategy may identify novel loci underlying blood lipids.
  3. Cholesterol, HDL
    Sekar Kathiresan et al. BMC medical genetics 2007, A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study., BMC medical genetics. [PubMed 17903299]
    Using a 100K genome-wide scan, we have generated a set of putative associations for common sequence variants and lipid phenotypes. Validation of selected hypotheses in additional samples did not identify any new loci underlying variability in blood lipids. Lack of replication may be due to inadequate statistical power to detect modest quantitative trait locus effects (i.e., <1% of trait variance explained) or reduced genomic coverage of the 100K array. GWAS in FHS using a denser genome-wide genotyping platform and a better-powered replication strategy may identify novel loci underlying blood lipids.
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-  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: 2.06 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 53.17 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 -295.16688-0.429 Picture PostScript Text
3' UTR -82.60333-0.248 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
IPR001909 - Krueppel-associated_box
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on E7ER33
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC108696 - Homo sapiens cDNA clone IMAGE:3873246.
AK299626 - Homo sapiens cDNA FLJ57578 complete cds, moderately similar to Mus musculus zinc finger protein 568 (Zfp568), mRNA.
AK092139 - Homo sapiens cDNA FLJ34820 fis, clone NT2NE2008260, weakly similar to Homo sapiens zinc finger protein dp mRNA.
AX747376 - Sequence 901 from Patent EP1308459.
AL832834 - Homo sapiens mRNA; cDNA DKFZp667O0524 (from clone DKFZp667O0524).
BC016334 - Homo sapiens zinc finger protein 568, mRNA (cDNA clone IMAGE:4052822), partial cds.
BC041927 - Homo sapiens zinc finger protein 568, mRNA (cDNA clone IMAGE:5300350).
JD246154 - Sequence 227178 from Patent EP1572962.
JD314886 - Sequence 295910 from Patent EP1572962.
JD314887 - Sequence 295911 from Patent EP1572962.
JD032199 - Sequence 13223 from Patent EP1572962.
JD314886 - Sequence 295910 from Patent EP1572962.
JD314887 - Sequence 295911 from Patent EP1572962.
JD496348 - Sequence 477372 from Patent EP1572962.
JD402155 - Sequence 383179 from Patent EP1572962.
JD289321 - Sequence 270345 from Patent EP1572962.
JD172400 - Sequence 153424 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AX747376, E7ER33, E7ER33_HUMAN
UCSC ID: uc010efi.2
RefSeq Accession: NM_001204839
Protein: E7ER33

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AX747376.1
exon count: 5CDS single in 3' UTR: no RNA size: 1835
ORF size: 1320CDS single in intron: no Alignment % ID: 99.02
txCdsPredict score: 1640.00frame shift in genome: no % Coverage: 76.78
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.