Human Gene ZNF580 (uc002qlo.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 580 (ZNF580), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:56,152,392-56,154,836 Size: 2,445 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr19:56,153,875-56,154,393 Size: 519 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:56,152,392-56,154,836)mRNA (may differ from genome)Protein (172 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZN580_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 580; AltName: Full=LDL-induced EC protein;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Contains 3 C2H2-type zinc fingers.
SEQUENCE CAUTION: Sequence=CAB94389.1; Type=Erroneous initiation;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZNF580
CDC HuGE Published Literature: ZNF580
Positive Disease Associations: Coronary Disease
Related Studies:
  1. Coronary Disease
    , , . [PubMed 0]

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 49.79 RPKM in Pituitary
Total median expression: 1111.05 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -87.80170-0.516 Picture PostScript Text
3' UTR -147.10443-0.332 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
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type

SCOP Domains:
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on Q9UK33
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     
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0001938 positive regulation of endothelial cell proliferation
GO:0002690 positive regulation of leukocyte chemotaxis
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006935 chemotaxis
GO:0006954 inflammatory response
GO:0010595 positive regulation of endothelial cell migration
GO:0010628 positive regulation of gene expression
GO:0032757 positive regulation of interleukin-8 production
GO:0070301 cellular response to hydrogen peroxide

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK123294 - Homo sapiens cDNA FLJ41300 fis, clone BRAMY2041378.
AL359054 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 2005358.
AK314888 - Homo sapiens cDNA, FLJ95790, Homo sapiens zinc finger protein 580 (ZNF580), mRNA.
AF184939 - Homo sapiens LDL induced EC protein mRNA, complete cds.
BC017698 - Homo sapiens zinc finger protein 580, mRNA (cDNA clone MGC:21095 IMAGE:4431902), complete cds.
CU676020 - Synthetic construct Homo sapiens gateway clone IMAGE:100017961 5' read ZNF580 mRNA.
HQ447203 - Synthetic construct Homo sapiens clone IMAGE:100070500; CCSB001067_02 zinc finger protein 580 (ZNF580) gene, encodes complete protein.
KJ904744 - Synthetic construct Homo sapiens clone ccsbBroadEn_14138 ZNF580 gene, encodes complete protein.
JD101276 - Sequence 82300 from Patent EP1572962.
JD097273 - Sequence 78297 from Patent EP1572962.
JD324268 - Sequence 305292 from Patent EP1572962.
JD413584 - Sequence 394608 from Patent EP1572962.
JD366856 - Sequence 347880 from Patent EP1572962.
JD239885 - Sequence 220909 from Patent EP1572962.
JD256303 - Sequence 237327 from Patent EP1572962.
JD162555 - Sequence 143579 from Patent EP1572962.
JD532506 - Sequence 513530 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RC05, NM_207115, NP_996998, Q9NPP7, Q9UK33, ZN580_HUMAN
UCSC ID: uc002qlo.3
RefSeq Accession: NM_207115
Protein: Q9UK33 (aka ZN580_HUMAN)
CCDS: CCDS12931.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_207115.1
exon count: 2CDS single in 3' UTR: no RNA size: 1152
ORF size: 519CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1138.00frame shift in genome: no % Coverage: 98.26
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.