Human Gene ZNF606 (ENST00000341164.9) from GENCODE V44
  Description: Homo sapiens zinc finger protein 606 (ZNF606), transcript variant 1, mRNA. (from RefSeq NM_025027)
RefSeq Summary (NM_025027): This gene encodes a zinc finger protein containing a Kruppel-associated box (KRAB) domain at its N-terminus, followed by contiguous C2H2 zinc finger motifs. The encoded protein is a nuclear protein that can act as a transcriptional repressor of growth factor-mediated signaling pathways in a reporter gene assay. This protein has been shown to interact with the SRY-box 9 gene product, and suppresses its transcriptional activity by inhibiting its DNA binding activity. Reduced expression of this gene promotes chondrocyte differentiation. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Dec 2016].
Gencode Transcript: ENST00000341164.9
Gencode Gene: ENSG00000166704.13
Transcript (Including UTRs)
   Position: hg38 chr19:57,977,076-58,003,349 Size: 26,274 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg38 chr19:57,978,301-58,001,319 Size: 23,019 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr19:57,977,076-58,003,349)mRNA (may differ from genome)Protein (792 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
PubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Zinc finger protein 606; AltName: Full=Zinc finger protein 328;
FUNCTION: May act as a transcriptional repressor.
TISSUE SPECIFICITY: Widely expressed in adult and fetal tissues.
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 16 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.
SEQUENCE CAUTION: Sequence=BAB47481.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.85 RPKM in Thyroid
Total median expression: 108.59 RPKM

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

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -271.90621-0.438 Picture PostScript Text
3' UTR -283.201225-0.231 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:
PF01352 - KRAB box
PF00096 - Zinc finger, C2H2 type

ModBase Predicted Comparative 3D Structure on Q8WXB4
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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence    

-  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
  BC022533 - Homo sapiens cDNA clone IMAGE:4814509, containing frame-shift errors.
BC036570 - Homo sapiens cDNA clone IMAGE:4817074, containing frame-shift errors.
AK024322 - Homo sapiens cDNA FLJ14260 fis, clone PLACE1001118, weakly similar to ZINC FINGER PROTEIN 135.
BC037209 - Homo sapiens zinc finger protein 606, mRNA (cDNA clone MGC:41936 IMAGE:4837545), complete cds.
AB058755 - Homo sapiens KIAA1852 mRNA for KIAA1852 protein.
AF455357 - Homo sapiens zinc finger protein 328 (ZNF328) mRNA, complete cds.
JD509761 - Sequence 490785 from Patent EP1572962.
JD280945 - Sequence 261969 from Patent EP1572962.
JD348016 - Sequence 329040 from Patent EP1572962.
JD077167 - Sequence 58191 from Patent EP1572962.
JD281861 - Sequence 262885 from Patent EP1572962.
JD551313 - Sequence 532337 from Patent EP1572962.
JD511030 - Sequence 492054 from Patent EP1572962.
JD345160 - Sequence 326184 from Patent EP1572962.
JD202776 - Sequence 183800 from Patent EP1572962.
JD048479 - Sequence 29503 from Patent EP1572962.
JD039457 - Sequence 20481 from Patent EP1572962.
JD528404 - Sequence 509428 from Patent EP1572962.
AK294037 - Homo sapiens cDNA FLJ58795 complete cds, highly similar to Zinc finger protein 606.
AK293097 - Homo sapiens cDNA FLJ77402 complete cds, highly similar to Homo sapiens zinc finger protein 606 (ZNF606), mRNA.
JF432284 - Synthetic construct Homo sapiens clone IMAGE:100073461 zinc finger protein 606 (ZNF606) gene, encodes complete protein.
KJ899605 - Synthetic construct Homo sapiens clone ccsbBroadEn_08999 ZNF606 gene, encodes complete protein.
AB384307 - Synthetic construct DNA, clone: pF1KSDA1852, Homo sapiens ZNF606 gene for zinc finger protein 606, complete cds, without stop codon, in Flexi system.
JD496334 - Sequence 477358 from Patent EP1572962.
CU691462 - Synthetic construct Homo sapiens gateway clone IMAGE:100020091 5' read ZNF606 mRNA.
AK056696 - Homo sapiens cDNA FLJ32134 fis, clone PEBLM2000321.
JD019915 - Sequence 939 from Patent EP1572962.
JD027730 - Sequence 8754 from Patent EP1572962.
JD422093 - Sequence 403117 from Patent EP1572962.
JD405532 - Sequence 386556 from Patent EP1572962.
JD172751 - Sequence 153775 from Patent EP1572962.
JD477889 - Sequence 458913 from Patent EP1572962.
JD454139 - Sequence 435163 from Patent EP1572962.
JD292800 - Sequence 273824 from Patent EP1572962.
JD460498 - Sequence 441522 from Patent EP1572962.
JD460667 - Sequence 441691 from Patent EP1572962.
JD406575 - Sequence 387599 from Patent EP1572962.
JD325320 - Sequence 306344 from Patent EP1572962.
JD330437 - Sequence 311461 from Patent EP1572962.

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

Protein Q8WXB4 (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: A8KAN2, ENST00000341164.1, ENST00000341164.2, ENST00000341164.3, ENST00000341164.4, ENST00000341164.5, ENST00000341164.6, ENST00000341164.7, ENST00000341164.8, KIAA1852, NM_025027, Q8NE04, Q8WXB4, Q96JH5, uc002qqw.1, uc002qqw.2, uc002qqw.3, uc002qqw.4, uc002qqw.5, ZN606_HUMAN, ZNF328
UCSC ID: ENST00000341164.9
RefSeq Accession: NM_025027
Protein: Q8WXB4 (aka ZN606_HUMAN or Z606_HUMAN)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.