Human Gene ZNF84 (uc009zyz.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 84 (ZNF84), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:133,613,980-133,639,885 Size: 25,906 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr12:133,618,054-133,635,518 Size: 17,465 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:133,613,980-133,639,885)mRNA (may differ from genome)Protein (738 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
HGNCHPRDLynxMGIneXtProtOMIM
PubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZNF84_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 84; AltName: Full=Zinc finger protein HPF2;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 19 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.

-  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: 13.09 RPKM in Pituitary
Total median expression: 284.19 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 -142.80351-0.407 Picture PostScript Text
3' UTR -1137.334367-0.260 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
PF01352 - KRAB box
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
109640 - KRAB domain (Kruppel-associated box, Pfam 01352)
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on P51523
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 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:0008270 zinc ion binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  M27878 - Human DNA binding protein (HPF2) mRNA, complete cds.
BC062552 - Homo sapiens zinc finger protein 84, mRNA (cDNA clone MGC:71238 IMAGE:6536224), complete cds.
AK314232 - Homo sapiens cDNA, FLJ94973, highly similar to Homo sapiens zinc finger protein 84 (HPF2) (ZNF84), mRNA.
BC036656 - Homo sapiens zinc finger protein 84, mRNA (cDNA clone MGC:33120 IMAGE:4828620), complete cds.
X60156 - Homo sapiens mRNA for zinc finger 7 (ZF7 gene).
JD549008 - Sequence 530032 from Patent EP1572962.
JD531372 - Sequence 512396 from Patent EP1572962.
JD555821 - Sequence 536845 from Patent EP1572962.
JD255387 - Sequence 236411 from Patent EP1572962.
JD539159 - Sequence 520183 from Patent EP1572962.
BC048350 - Homo sapiens zinc finger protein 84, mRNA (cDNA clone MGC:54253 IMAGE:5555056), complete cds.
JD257395 - Sequence 238419 from Patent EP1572962.
KJ905337 - Synthetic construct Homo sapiens clone ccsbBroadEn_14880 ZNF84 gene, encodes complete protein.
JD314879 - Sequence 295903 from Patent EP1572962.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314816 - Sequence 295840 from Patent EP1572962.
JD314817 - Sequence 295841 from Patent EP1572962.
JD557893 - Sequence 538917 from Patent EP1572962.
JD328650 - Sequence 309674 from Patent EP1572962.
JD327041 - Sequence 308065 from Patent EP1572962.
JD316472 - Sequence 297496 from Patent EP1572962.
AK055603 - Homo sapiens cDNA FLJ31041 fis, clone HSYRA2000232.
AK054847 - Homo sapiens cDNA FLJ30285 fis, clone BRACE2002843.
JD446396 - Sequence 427420 from Patent EP1572962.
JD474046 - Sequence 455070 from Patent EP1572962.
JD058298 - Sequence 39322 from Patent EP1572962.
JD220280 - Sequence 201304 from Patent EP1572962.
JD537342 - Sequence 518366 from Patent EP1572962.
JD455087 - Sequence 436111 from Patent EP1572962.
JD194739 - Sequence 175763 from Patent EP1572962.
JD099944 - Sequence 80968 from Patent EP1572962.
JD135932 - Sequence 116956 from Patent EP1572962.
JD135934 - Sequence 116958 from Patent EP1572962.
JD135935 - Sequence 116959 from Patent EP1572962.
JD238494 - Sequence 219518 from Patent EP1572962.
JD238495 - Sequence 219519 from Patent EP1572962.
JD430412 - Sequence 411436 from Patent EP1572962.
JD529602 - Sequence 510626 from Patent EP1572962.
JD529601 - Sequence 510625 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RAK5, D3DXJ1, NM_001127372, NP_003419, P51523, Q3ZCV9, Q5D057, Q86XU8, Q9NNX7, Q9UC17, Q9UC18, ZNF84_HUMAN
UCSC ID: uc009zyz.3
RefSeq Accession: NM_001127372
Protein: P51523 (aka ZNF84_HUMAN or ZN84_HUMAN)
CCDS: CCDS31940.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001127372.1
exon count: 5CDS single in 3' UTR: no RNA size: 6939
ORF size: 2217CDS single in intron: no Alignment % ID: 99.97
txCdsPredict score: 4631.00frame shift in genome: no % Coverage: 99.94
has start codon: yes stop codon in genome: no # of Alignments: 2
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.