Human Gene ZNF566 (ENST00000392170.7_9) from GENCODE V47lift37
  Description: zinc finger protein 566, transcript variant 4 (from RefSeq NM_001145343.1)
Gencode Transcript: ENST00000392170.7_9
Gencode Gene: ENSG00000186017.16_14
Transcript (Including UTRs)
   Position: hg19 chr19:36,936,021-36,980,463 Size: 44,443 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr19:36,939,879-36,967,459 Size: 27,581 Coding Exon Count: 4 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:36,936,021-36,980,463)mRNA (may differ from genome)Protein (419 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZN566_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 566;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 8 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: 3.91 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 75.12 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 -51.20147-0.348 Picture PostScript Text
3' UTR -1145.943858-0.297 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
PF13465 - Zinc-finger double domain
PF13912 - C2H2-type zinc finger

SCOP Domains:
109640 - KRAB domain (Kruppel-associated box)
55550 - SH2 domain
57667 - beta-beta-alpha zinc fingers
57716 - Glucocorticoid receptor-like (DNA-binding domain)
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 Q969W8
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: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
  BX649070 - Homo sapiens mRNA; cDNA DKFZp779L0749 (from clone DKFZp779L0749).
AK027685 - Homo sapiens cDNA FLJ14779 fis, clone NT2RP4000398, moderately similar to ZINC FINGER PROTEIN 140.
AK074497 - Homo sapiens cDNA FLJ90016 fis, clone HEMBA1000671, weakly similar to ZINC FINGER PROTEIN 184.
BC104888 - Homo sapiens zinc finger protein 566, mRNA (cDNA clone MGC:132548 IMAGE:8143891), complete cds.
BC104886 - Homo sapiens zinc finger protein 566, mRNA (cDNA clone MGC:132546 IMAGE:8143889), complete cds.
BC143658 - Homo sapiens zinc finger protein 566, mRNA (cDNA clone MGC:177189 IMAGE:9052172), complete cds.
BC007064 - Homo sapiens zinc finger protein 566, mRNA (cDNA clone MGC:12515 IMAGE:3961390), complete cds.
AK316262 - Homo sapiens cDNA, FLJ79161 complete cds, highly similar to Zinc finger protein 566.
AK299393 - Homo sapiens cDNA FLJ52734 complete cds, highly similar to Zinc finger protein 566.
KJ899847 - Synthetic construct Homo sapiens clone ccsbBroadEn_09241 ZNF566-like gene, encodes complete protein.
EU446547 - Synthetic construct Homo sapiens clone IMAGE:100070121; IMAGE:100011756; FLH257474.01L zinc finger protein 566 (ZNF566) gene, encodes complete protein.
AB587541 - Synthetic construct DNA, clone: pF1KE0935, Homo sapiens ZNF566 gene for zinc finger protein 566, without stop codon, in Flexi system.
CU675527 - Synthetic construct Homo sapiens gateway clone IMAGE:100019313 5' read ZNF566 mRNA.
JD059661 - Sequence 40685 from Patent EP1572962.
JD223955 - Sequence 204979 from Patent EP1572962.
JD099943 - Sequence 80967 from Patent EP1572962.
JD376140 - Sequence 357164 from Patent EP1572962.
JD376139 - Sequence 357163 from Patent EP1572962.
JD454132 - Sequence 435156 from Patent EP1572962.
JD451219 - Sequence 432243 from Patent EP1572962.
JD164893 - Sequence 145917 from Patent EP1572962.
JD244528 - Sequence 225552 from Patent EP1572962.
JD280353 - Sequence 261377 from Patent EP1572962.
JD257435 - Sequence 238459 from Patent EP1572962.
JD183727 - Sequence 164751 from Patent EP1572962.
JD324157 - Sequence 305181 from Patent EP1572962.
JD245532 - Sequence 226556 from Patent EP1572962.
JD166629 - Sequence 147653 from Patent EP1572962.
JD424968 - Sequence 405992 from Patent EP1572962.
JD528219 - Sequence 509243 from Patent EP1572962.
JD539936 - Sequence 520960 from Patent EP1572962.
JD282581 - Sequence 263605 from Patent EP1572962.
JD314885 - Sequence 295909 from Patent EP1572962.
JD032199 - Sequence 13223 from Patent EP1572962.
JD404169 - Sequence 385193 from Patent EP1572962.

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

Protein Q969W8 (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: B7ZL95, ENST00000392170.1, ENST00000392170.2, ENST00000392170.3, ENST00000392170.4, ENST00000392170.5, ENST00000392170.6, NM_001145343, Q2M3J1, Q969W8, uc318uwt.1, uc318uwt.2, ZN566_HUMAN
UCSC ID: ENST00000392170.7_9
RefSeq Accession: NM_001145345.1
Protein: Q969W8 (aka ZN566_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.