Human Gene DPF1 (uc010xtw.1) Description and Page Index
  Description: Homo sapiens D4, zinc and double PHD fingers family 1 (DPF1), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:38,708,031-38,720,317 Size: 12,287 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr19:38,708,424-38,720,230 Size: 11,807 Coding Exon Count: 6 

Page IndexSequence and LinksGenetic AssociationsCTDGene 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 (chr19:38,708,031-38,720,317)mRNA (may differ from genome)Protein (203 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedStanford SOURCEUniProtKBWikipedia

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DPF1
CDC HuGE Published Literature: DPF1
Positive Disease Associations: Prostatic Neoplasms
Related Studies:
  1. Prostatic Neoplasms
    Julius Gudmundsson et al. Nature genetics 2009, Genome-wide association and replication studies identify four variants associated with prostate cancer susceptibility., Nature genetics. [PubMed 19767754]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 15.52 RPKM in Brain - Cortex
Total median expression: 105.69 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 -52.4087-0.602 Picture PostScript Text
3' UTR -201.30393-0.512 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
IPR025750 - Requiem/DPF_N_dom

Pfam Domains:
PF14051 - N-terminal domain of DPF2/REQ.

ModBase Predicted Comparative 3D Structure on B4DMQ8
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008270 zinc ion binding

Cellular Component:
GO:0071565 nBAF complex


-  Descriptions from all associated GenBank mRNAs
  AK094632 - Homo sapiens cDNA FLJ37313 fis, clone BRAMY2016938, highly similar to ZINC-FINGER PROTEIN NEURO-D4.
U43843 - Human h-neuro-d4 protein mRNA, complete cds.
BC021191 - Homo sapiens D4, zinc and double PHD fingers family 1, mRNA (cDNA clone IMAGE:3162448), partial cds.
AK127198 - Homo sapiens cDNA FLJ45263 fis, clone BRHIP2023735, moderately similar to Zinc-finger protein neuro-d4.
BC125152 - Homo sapiens D4, zinc and double PHD fingers family 1, mRNA (cDNA clone IMAGE:40120598), complete cds.
BC125153 - Homo sapiens D4, zinc and double PHD fingers family 1, mRNA (cDNA clone MGC:150429 IMAGE:40120602), complete cds.
GQ358728 - Homo sapiens D4 zinc and double PHD fingers family 1 variant 4 (DPF1) mRNA, complete cds.
AB463560 - Synthetic construct DNA, clone: pF1KB7695, Homo sapiens DPF1 gene for D4, zinc and double PHD fingers family 1, without stop codon, in Flexi system.
AK308563 - Homo sapiens cDNA, FLJ98604.
AK297581 - Homo sapiens cDNA FLJ55156 complete cds, highly similar to Zinc-finger protein neuro-d4.
KJ901865 - Synthetic construct Homo sapiens clone ccsbBroadEn_11259 DPF1 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: AK297581, B4DMQ8, B4DMQ8_HUMAN, NM_004647, NP_004638
UCSC ID: uc010xtw.1
RefSeq Accession: NM_004647
Protein: B4DMQ8

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK297581.1
exon count: 6CDS single in 3' UTR: no RNA size: 1084
ORF size: 612CDS single in intron: no Alignment % ID: 99.91
txCdsPredict score: 1392.00frame shift in genome: no % Coverage: 97.97
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 69# 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.