Human Gene ZNF23 (uc002fah.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 23 (ZNF23), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:71,481,503-71,496,273 Size: 14,771 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr16:71,481,996-71,487,978 Size: 5,983 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr16:71,481,503-71,496,273)mRNA (may differ from genome)Protein (643 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedReactomeStanford SOURCETreefam

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Zinc finger protein 23; AltName: Full=Zinc finger protein 359; AltName: Full=Zinc finger protein 612; AltName: Full=Zinc finger protein KOX16;
FUNCTION: May be involved in transcriptional regulation. May have a role in embryonic development.
SUBCELLULAR LOCATION: Nucleus (Potential).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 17 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZNF23
CDC HuGE Published Literature: ZNF23
Positive Disease Associations: Stroke
Related Studies:
  1. Stroke
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 2.05 RPKM in Pituitary
Total median expression: 32.58 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 -162.50369-0.440 Picture PostScript Text
3' UTR -92.75493-0.188 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
PF16622 - zinc-finger C2H2-type

SCOP Domains:
48695 - Multiheme cytochromes
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on P17027
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:0003700 transcription factor activity, sequence-specific 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

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus

-  Descriptions from all associated GenBank mRNAs
  LF208313 - JP 2014500723-A/15816: Polycomb-Associated Non-Coding RNAs.
AL080123 - Homo sapiens mRNA; cDNA DKFZp569D2231 (from clone DKFZp569D2231); partial cds.
BX537507 - Homo sapiens mRNA; cDNA DKFZp686H20223 (from clone DKFZp686H20223).
AF507946 - Homo sapiens zinc finger protein 359 (ZNF359) mRNA, complete cds.
BC007256 - Homo sapiens zinc finger protein 23 (KOX 16), mRNA (cDNA clone MGC:15514 IMAGE:3028040), complete cds.
BC030658 - Homo sapiens cDNA clone IMAGE:4837152, **** WARNING: chimeric clone ****.
AK091039 - Homo sapiens cDNA FLJ33720 fis, clone BRAWH2009590, highly similar to Zinc finger protein 23.
AX746746 - Sequence 271 from Patent EP1308459.
BC048974 - Homo sapiens zinc finger protein 23 (KOX 16), mRNA (cDNA clone MGC:57283 IMAGE:4816965), complete cds.
AF226996 - Homo sapiens kruppel-like zinc finger factor X31 mRNA, partial cds.
AL833815 - Homo sapiens mRNA; cDNA DKFZp571N1833 (from clone DKFZp571N1833).
AK297130 - Homo sapiens cDNA FLJ50803 complete cds, highly similar to Zinc finger protein 23.
JD093347 - Sequence 74371 from Patent EP1572962.
JD474442 - Sequence 455466 from Patent EP1572962.
JD475673 - Sequence 456697 from Patent EP1572962.
JD308441 - Sequence 289465 from Patent EP1572962.
BT007400 - Homo sapiens zinc finger protein 23 (KOX 16) mRNA, complete cds.
X52347 - Human Kox16 mRNA for zinc finger protein, partial.
AY500362 - Homo sapiens zinc finger protein 36 (HZF36) mRNA, partial cds.
JD314818 - Sequence 295842 from Patent EP1572962.
AF024709 - Homo sapiens clone L3-15 zinc finger protein mRNA, partial cds.
DQ574266 - Homo sapiens piRNA piR-42378, complete sequence.
JD047452 - Sequence 28476 from Patent EP1572962.
LF374533 - JP 2014500723-A/182036: Polycomb-Associated Non-Coding RNAs.
JD136010 - Sequence 117034 from Patent EP1572962.
JD326369 - Sequence 307393 from Patent EP1572962.
JD224798 - Sequence 205822 from Patent EP1572962.
JD280493 - Sequence 261517 from Patent EP1572962.
LF374529 - JP 2014500723-A/182032: Polycomb-Associated Non-Coding RNAs.
JD071052 - Sequence 52076 from Patent EP1572962.
MA443890 - JP 2018138019-A/15816: Polycomb-Associated Non-Coding RNAs.
MA610110 - JP 2018138019-A/182036: Polycomb-Associated Non-Coding RNAs.
MA610106 - JP 2018138019-A/182032: Polycomb-Associated Non-Coding RNAs.

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

Protein P17027 (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: AX746746, KOX16, NM_145911, NP_666016, P17027, Q96IT3, Q9UG42, ZNF23_HUMAN, ZNF359, ZNF612
UCSC ID: uc002fah.3
RefSeq Accession: NM_145911
Protein: P17027 (aka ZNF23_HUMAN or ZN23_HUMAN)
CCDS: CCDS10900.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: AX746746.1
exon count: 5CDS single in 3' UTR: no RNA size: 2669
ORF size: 1932CDS single in intron: no Alignment % ID: 99.93
txCdsPredict score: 3783.00frame shift in genome: no % Coverage: 100.00
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.