Human Gene ZNF425 (uc003wfj.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 425 (ZNF425), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr7:148,799,878-148,823,438 Size: 23,561 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr7:148,800,704-148,823,305 Size: 22,602 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 (chr7:148,799,878-148,823,438)mRNA (may differ from genome)Protein (752 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
PubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Zinc finger protein 425;
FUNCTION: Acts as a transcriptional repressor.
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Predominantly expressed in the nucleus.
DEVELOPMENTAL STAGE: Expressed in 30 days old embryos. Almost undetectable in 60 days old embryos and in adults.
DOMAIN: The C2H2 domain is necessary for the transcriptional repression.
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: 2.32 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 59.39 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 -67.10133-0.505 Picture PostScript Text
3' UTR -259.51826-0.314 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
PF12874 - Zinc-finger of C2H2 type
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 Q6IV72
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:0005515 protein 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
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005737 cytoplasm

-  Descriptions from all associated GenBank mRNAs
  AY621067 - Homo sapiens zinc finger protein 425 (ZNF425) mRNA, complete cds.
AK056498 - Homo sapiens cDNA FLJ31936 fis, clone NT2RP7006490, highly similar to Zinc finger protein 425.
JD090760 - Sequence 71784 from Patent EP1572962.
JD080690 - Sequence 61714 from Patent EP1572962.
JD250326 - Sequence 231350 from Patent EP1572962.
JD313238 - Sequence 294262 from Patent EP1572962.
JD442758 - Sequence 423782 from Patent EP1572962.
JD442757 - Sequence 423781 from Patent EP1572962.
JD180350 - Sequence 161374 from Patent EP1572962.
JD442838 - Sequence 423862 from Patent EP1572962.
JD378475 - Sequence 359499 from Patent EP1572962.
JD187894 - Sequence 168918 from Patent EP1572962.
JD074374 - Sequence 55398 from Patent EP1572962.
JD241732 - Sequence 222756 from Patent EP1572962.
JD564311 - Sequence 545335 from Patent EP1572962.
JD062945 - Sequence 43969 from Patent EP1572962.
JD102863 - Sequence 83887 from Patent EP1572962.
JD442836 - Sequence 423860 from Patent EP1572962.
JD558708 - Sequence 539732 from Patent EP1572962.
JD523786 - Sequence 504810 from Patent EP1572962.
JD247802 - Sequence 228826 from Patent EP1572962.
JD201406 - Sequence 182430 from Patent EP1572962.
JD384673 - Sequence 365697 from Patent EP1572962.
JD471916 - Sequence 452940 from Patent EP1572962.
JD506707 - Sequence 487731 from Patent EP1572962.
JD518964 - Sequence 499988 from Patent EP1572962.
JD416376 - Sequence 397400 from Patent EP1572962.
JD464416 - Sequence 445440 from Patent EP1572962.
JD478846 - Sequence 459870 from Patent EP1572962.
JD098866 - Sequence 79890 from Patent EP1572962.
JD543454 - Sequence 524478 from Patent EP1572962.
JD543456 - Sequence 524480 from Patent EP1572962.
JD543458 - Sequence 524482 from Patent EP1572962.
JD497865 - Sequence 478889 from Patent EP1572962.
JD376116 - Sequence 357140 from Patent EP1572962.
JD497866 - Sequence 478890 from Patent EP1572962.
JD376115 - Sequence 357139 from Patent EP1572962.
JD451216 - Sequence 432240 from Patent EP1572962.
JD453718 - Sequence 434742 from Patent EP1572962.
JD179222 - Sequence 160246 from Patent EP1572962.
JD197707 - Sequence 178731 from Patent EP1572962.
JD214004 - Sequence 195028 from Patent EP1572962.
BC125189 - Homo sapiens zinc finger protein 425, mRNA (cDNA clone MGC:150568 IMAGE:40122655), complete cds.
JD107074 - Sequence 88098 from Patent EP1572962.
DQ572935 - Homo sapiens piRNA piR-41047, complete sequence.
AK125575 - Homo sapiens cDNA FLJ43587 fis, clone SKNMC2009450.
JD484106 - Sequence 465130 from Patent EP1572962.

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

Protein Q6IV72 (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: B3KPM1, NM_001001661, NP_001001661, Q08AG3, Q6IV72, ZN425_HUMAN
UCSC ID: uc003wfj.3
RefSeq Accession: NM_001001661
Protein: Q6IV72 (aka ZN425_HUMAN)
CCDS: CCDS34773.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_001001661.2
exon count: 4CDS single in 3' UTR: no RNA size: 3244
ORF size: 2259CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4441.00frame shift in genome: no % Coverage: 99.20
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.