Human Gene ZNF85 (ENST00000328178.13_7) from GENCODE V47lift37
  Description: zinc finger protein 85, transcript variant 1 (from RefSeq NM_003429.5)
Gencode Transcript: ENST00000328178.13_7
Gencode Gene: ENSG00000105750.15_15
Transcript (Including UTRs)
   Position: hg19 chr19:21,106,057-21,133,503 Size: 27,447 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr19:21,106,207-21,133,108 Size: 26,902 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:21,106,057-21,133,503)mRNA (may differ from genome)Protein (595 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZNF85_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 85; AltName: Full=Zinc finger protein HPF4; AltName: Full=Zinc finger protein HTF1;
FUNCTION: May be a transcriptional repressor.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Widely expressed, including in testis.
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 16 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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: 7.75 RPKM in Testis
Total median expression: 43.16 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -53.10150-0.354 Picture PostScript Text
3' UTR -61.60395-0.156 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:
109640 - KRAB domain (Kruppel-associated box)
55347 - Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
57667 - beta-beta-alpha zinc fingers
57716 - Glucocorticoid receptor-like (DNA-binding domain)
82919 - Zn-finger domain of Sec23/24
57783 - Zinc beta-ribbon
57802 - Rubredoxin-like
57889 - Cysteine-rich domain
57903 - FYVE/PHD zinc finger
161219 - CHY zinc finger-like

ModBase Predicted Comparative 3D Structure on Q03923
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:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003714 transcription corepressor activity
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:1903507 negative regulation of nucleic acid-templated transcription

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC068066 - Homo sapiens zinc finger protein 85, mRNA (cDNA clone IMAGE:5014772), complete cds.
U35376 - Human repressor transcriptional factor (ZNF85) mRNA, complete cds.
M61866 - Human Krueppel-related DNA-binding protein (PF4) mRNA, 5' end.
BC008688 - Homo sapiens zinc finger protein 85, mRNA (cDNA clone IMAGE:3873712), complete cds.
AB587449 - Synthetic construct DNA, clone: pF1KB7812, Homo sapiens ZNF85 gene for zinc finger protein 85, without stop codon, in Flexi system.
M61868 - Human Krueppel-related DNA-binding protein (TF1) mRNA, partial cds.
KJ900833 - Synthetic construct Homo sapiens clone ccsbBroadEn_10227 ZNF85 gene, encodes complete protein.
AK308258 - Homo sapiens cDNA, FLJ98206.
BC036394 - Homo sapiens cDNA clone IMAGE:5259399, containing frame-shift errors.
BC047646 - Homo sapiens zinc finger protein 85, mRNA (cDNA clone MGC:51131 IMAGE:4828290), complete cds.
KJ901838 - Synthetic construct Homo sapiens clone ccsbBroadEn_11232 ZNF85 gene, encodes complete protein.
D70831 - Homo sapiens mRNA for Zinc-finger protein, partial cds.
JD330513 - Sequence 311537 from Patent EP1572962.
JD330514 - Sequence 311538 from Patent EP1572962.
JD330515 - Sequence 311539 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD330513 - Sequence 311537 from Patent EP1572962.
JD330514 - Sequence 311538 from Patent EP1572962.
JD330515 - Sequence 311539 from Patent EP1572962.
JD330516 - Sequence 311540 from Patent EP1572962.
JD066994 - Sequence 48018 from Patent EP1572962.
JD330508 - Sequence 311532 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
LF350906 - JP 2014500723-A/158409: Polycomb-Associated Non-Coding RNAs.
JD314882 - Sequence 295906 from Patent EP1572962.
JD090520 - Sequence 71544 from Patent EP1572962.
JD090519 - Sequence 71543 from Patent EP1572962.
JD282700 - Sequence 263724 from Patent EP1572962.
JD330513 - Sequence 311537 from Patent EP1572962.
JD330514 - Sequence 311538 from Patent EP1572962.
JD330515 - Sequence 311539 from Patent EP1572962.
JD330516 - Sequence 311540 from Patent EP1572962.
JD066994 - Sequence 48018 from Patent EP1572962.
JD330503 - Sequence 311527 from Patent EP1572962.
JD330504 - Sequence 311528 from Patent EP1572962.
JD442012 - Sequence 423036 from Patent EP1572962.
JD314875 - Sequence 295899 from Patent EP1572962.
JD327925 - Sequence 308949 from Patent EP1572962.
JD509447 - Sequence 490471 from Patent EP1572962.
JD285141 - Sequence 266165 from Patent EP1572962.
JD315493 - Sequence 296517 from Patent EP1572962.
MA586483 - JP 2018138019-A/158409: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B9ZVP4, ENST00000328178.1, ENST00000328178.10, ENST00000328178.11, ENST00000328178.12, ENST00000328178.2, ENST00000328178.3, ENST00000328178.4, ENST00000328178.5, ENST00000328178.6, ENST00000328178.7, ENST00000328178.8, ENST00000328178.9, NM_003429, Q03923, Q6NVI0, uc317sld.1, uc317sld.2, ZNF85_HUMAN
UCSC ID: ENST00000328178.13_7
RefSeq Accession: NM_003429.5
Protein: Q03923 (aka ZNF85_HUMAN or ZN85_HUMAN)

-  Gene Model Information
  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.