Human Gene ZNF484 (uc004asu.2) Description and Page Index
  Description: Homo sapiens zinc finger protein 484 (ZNF484), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:95,607,313-95,640,320 Size: 33,008 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr9:95,608,510-95,637,311 Size: 28,802 Coding Exon Count: 4 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:95,607,313-95,640,320)mRNA (may differ from genome)Protein (852 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
PubMedReactomeStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZN484_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 484;
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
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 3.24 RPKM in Brain - Cerebellum
Total median expression: 68.72 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 -68.00179-0.380 Picture PostScript Text
3' UTR -287.061197-0.240 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
PF13912 - C2H2-type zinc finger

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

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2EMF
- NMR MuPIT

2EMG
- NMR MuPIT

2EMH
- NMR MuPIT
To conserve bandwidth, only the images from the first 3 structures are shown.
2EMI - NMR MuPIT 2EOV - NMR MuPIT 2EP1 - NMR MuPIT
2EP2 - NMR MuPIT 2EP3 - NMR MuPIT 2EQW - NMR MuPIT
2YTJ - NMR MuPIT 2YTO - NMR MuPIT 2YTP - NMR MuPIT
2YTS - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q5JVG2
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     
      
      
      

-  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:0003700 transcription factor activity, sequence-specific DNA 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
  AK309617 - Homo sapiens cDNA, FLJ99658.
AK292997 - Homo sapiens cDNA FLJ77477 complete cds, highly similar to Homo sapiens zinc finger protein 484 (ZNF484), transcript variant 2, mRNA.
AK299274 - Homo sapiens cDNA FLJ56482 complete cds, highly similar to Zinc finger protein 484.
AL833202 - Homo sapiens mRNA; cDNA DKFZp667F196 (from clone DKFZp667F196).
AK091203 - Homo sapiens cDNA FLJ33884 fis, clone CTONG2007293, highly similar to Zinc finger protein 484.
AX746846 - Sequence 371 from Patent EP1308459.
AK000772 - Homo sapiens cDNA FLJ20765 fis, clone COL08282, highly similar to ZN41_HUMAN ZINC FINGER PROTEIN 41.
BC112394 - Homo sapiens zinc finger protein 484, mRNA (cDNA clone MGC:133033 IMAGE:40008083), complete cds.
BC112396 - Homo sapiens zinc finger protein 484, transcript variant 1, mRNA (cDNA clone MGC:133034 IMAGE:40008084), complete cds.
JD226007 - Sequence 207031 from Patent EP1572962.
KJ894902 - Synthetic construct Homo sapiens clone ccsbBroadEn_04296 ZNF484 gene, encodes complete protein.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314879 - Sequence 295903 from Patent EP1572962.
JD314870 - Sequence 295894 from Patent EP1572962.
JD314817 - Sequence 295841 from Patent EP1572962.
JD314816 - Sequence 295840 from Patent EP1572962.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314879 - Sequence 295903 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314879 - Sequence 295903 from Patent EP1572962.
JD314875 - Sequence 295899 from Patent EP1572962.
JD328035 - Sequence 309059 from Patent EP1572962.
JD186939 - Sequence 167963 from Patent EP1572962.
JD544925 - Sequence 525949 from Patent EP1572962.
JD208455 - Sequence 189479 from Patent EP1572962.
JD490975 - Sequence 471999 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q5JVG2 (Reactome details) participates in the following event(s):

R-HSA-975040 KRAB-ZNF / KAP Interaction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B1AL89, NM_031486, NP_001248389, Q5JVG2, uc004asu.1, ZN484_HUMAN
UCSC ID: uc004asu.2
RefSeq Accession: NM_031486
Protein: Q5JVG2 (aka ZN484_HUMAN)
CCDS: CCDS35066.1, CCDS35067.1, CCDS59136.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_031486.2
exon count: 5CDS single in 3' UTR: no RNA size: 3935
ORF size: 2559CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5280.50frame 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.