Details for: ZNF804A

Gene ID: 91752

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: ZNF804A

Ensembl ID: ENSG00000170396

Description: zinc finger protein 804A

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • VIP GABAergic cortical interneuron CL4023016
    CSI 65.07
    rCSI 77.72%
    PRS 85.58
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 63.19
    rCSI 78.62%
    PRS 83.44
  • retinal bipolar neuron CL0000748
    CSI 44.35
    rCSI 83.07%
    PRS 88.51
  • sncg GABAergic cortical interneuron CL4023015
    CSI 35.99
    rCSI 57.87%
    PRS 86.45
  • glycinergic amacrine cell CL4030028
    CSI 33.86
    rCSI 88.22%
    PRS 89.62
  • cerebellar granule cell CL0001031
    CSI 31.71
    rCSI 46.61%
    PRS 90.88
  • CD14-low, CD16-positive monocyte CL0002396
    CSI 28.69
    rCSI 22.11%
    PRS 96.64
  • amacrine cell CL0000561
    CSI 26.03
    rCSI 75.45%
    PRS 88.24
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 24.91
    rCSI 43.99%
    PRS 85.04
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 23.63
    rCSI 73.92%
    PRS 88.09
  • sst GABAergic cortical interneuron CL4023017
    CSI 22.63
    rCSI 29.18%
    PRS 86.51
  • myofibroblast cell CL0000186
    CSI 20.36
    rCSI 28.2%
    PRS 92.21
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 19.53
    rCSI 47.47%
    PRS 83.63
  • neuron CL0000540
    CSI 18.91
    rCSI 50.36%
    PRS 84.57
  • L2/3 intratelencephalic projecting glutamatergic neuron CL4030059
    CSI 18.88
    rCSI 40.95%
    PRS 85.51
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 18.78
    rCSI 21.69%
    PRS 88.38
  • OFFx cell CL4033036
    CSI 18.68
    rCSI 87.88%
    PRS 85.6
  • interneuron CL0000099
    CSI 18.03
    rCSI 36.21%
    PRS 90.38
  • radial glial cell CL0000681
    CSI 17.67
    rCSI 24.55%
    PRS 93.07
  • mononuclear phagocyte CL0000113
    CSI 17.44
    rCSI 38.39%
    PRS 96.3
  • rod bipolar cell CL0000751
    CSI 17.28
    rCSI 31.04%
    PRS 90.72
  • diffuse bipolar 6 cell CL4033032
    CSI 17.1
    rCSI 89.91%
    PRS 85.98
  • inhibitory interneuron CL0000498
    CSI 15.6
    rCSI 36.02%
    PRS 87.9
  • neuroblast (sensu Vertebrata) CL0000031
    CSI 15.29
    rCSI 19.63%
    PRS 91.37
  • glioblast CL0000030
    CSI 15.04
    rCSI 23.99%
    PRS 88.64
  • cerebral cortex endothelial cell CL1001602
    CSI 14.88
    rCSI 25.74%
    PRS 91.08
  • neural cell CL0002319
    CSI 14.14
    rCSI 53.35%
    PRS 83.25
  • cerebral cortex neuron CL0010012
    CSI 13.87
    rCSI 56.52%
    PRS 88.66
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 13.76
    rCSI 23.1%
    PRS 85.74
  • GABAergic amacrine cell CL4030027
    CSI 13.45
    rCSI 46.06%
    PRS 84.53
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 13.1
    rCSI 47.14%
    PRS 83.89
  • retinal ganglion cell CL0000740
    CSI 12.89
    rCSI 28.47%
    PRS 86.91
  • intermediate monocyte CL0002393
    CSI 12.32
    rCSI 18.59%
    PRS 97.14
  • flat midget bipolar cell CL4033033
    CSI 12.31
    rCSI 88.03%
    PRS 86.15
  • astrocyte CL0000127
    CSI 11.55
    rCSI 24.61%
    PRS 76.73
  • peripheral nervous system neuron CL2000032
    CSI 11.23
    rCSI 15.3%
    PRS 89.66
  • GABAergic neuron CL0000617
    CSI 11.08
    rCSI 37.13%
    PRS 84.05
  • mesenchymal cell CL0008019
    CSI 11.04
    rCSI 28.05%
    PRS 91.23
  • diffuse bipolar 3b cell CL4033030
    CSI 10.92
    rCSI 72.5%
    PRS 88.92
  • elicited macrophage CL0000861
    CSI 10.57
    rCSI 9.7%
    PRS 97.36
  • adipocyte CL0000136
    CSI 10.42
    rCSI 13.38%
    PRS 88.22
  • podocyte CL0000653
    CSI 10.26
    rCSI 45.58%
    PRS 94.38
  • hepatic stellate cell CL0000632
    CSI 10.17
    rCSI 38.1%
    PRS 91.9
  • L5/6 near-projecting glutamatergic neuron CL4030067
    CSI 10.09
    rCSI 33.16%
    PRS 85.6
  • ON-bipolar cell CL0000749
    CSI 9.11
    rCSI 13.54%
    PRS 92.99
  • diffuse bipolar 1 cell CL4033027
    CSI 9.1
    rCSI 68.41%
    PRS 84.86
  • central nervous system neuron CL2000029
    CSI 9.09
    rCSI 66.81%
    PRS 88.94
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 8.89
    rCSI 52.37%
    PRS 85.91
  • central nervous system macrophage CL0000878
    CSI 8.87
    rCSI 29.4%
    PRS 95.52
  • H2 horizontal cell CL0004218
    CSI 8.8
    rCSI 43.75%
    PRS 90.2
  • medium spiny neuron CL1001474
    CSI 8.06
    rCSI 69.45%
    PRS 88.58
  • vascular associated smooth muscle cell CL0000359
    CSI 8.05
    rCSI 26.1%
    PRS 93.36
  • differentiation-committed oligodendrocyte precursor CL4023059
    CSI 7.83
    rCSI 14.23%
    PRS 90.05
  • alveolar macrophage CL0000583
    CSI 7.76
    rCSI 12.78%
    PRS 95.54
  • kidney interstitial alternatively activated macrophage CL1000695
    CSI 7.67
    rCSI 19.99%
    PRS 95.78
  • retina horizontal cell CL0000745
    CSI 7.52
    rCSI 11.47%
    PRS 92.07
  • diffuse bipolar 4 cell CL4033031
    CSI 7.43
    rCSI 85.09%
    PRS 83.18
  • diffuse bipolar 2 cell CL4033028
    CSI 7.42
    rCSI 57.49%
    PRS 87.81
  • glutamatergic neuron CL0000679
    CSI 7.2
    rCSI 14.79%
    PRS 85.13
  • Bergmann glial cell CL0000644
    CSI 7.1
    rCSI 9.71%
    PRS 88.8
  • small intestine goblet cell CL1000495
    CSI 7.01
    rCSI 15.35%
    PRS 95.67
  • serotonergic neuron CL0000850
    CSI 6.86
    rCSI 30.64%
    PRS 82.74
  • dopaminergic neuron CL0000700
    CSI 6.37
    rCSI 36.01%
    PRS 86.47
  • L6b glutamatergic cortical neuron CL4023038
    CSI 5.59
    rCSI 17.48%
    PRS 86.53
  • cerebellar neuron CL1001611
    CSI 5.3
    rCSI 46.63%
    PRS 84.84
  • glial cell CL0000125
    CSI 5.1
    rCSI 19.42%
    PRS 89.4
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 4.89
    rCSI 18.5%
    PRS 85.68
  • common myeloid progenitor CL0000049
    CSI 4.85
    rCSI 3.92%
    PRS 95.2
  • enteroendocrine cell of small intestine CL0009006
    CSI 4.64
    rCSI 10.22%
    PRS 95.5
  • progenitor cell CL0011026
    CSI 4.58
    rCSI 9.73%
    PRS 88.95
  • BEST4+ enteroycte CL4030026
    CSI 4.47
    rCSI 5.56%
    PRS 93.81
  • CD14-positive monocyte CL0001054
    CSI 4.35
    rCSI 5.42%
    PRS 97.94
  • tissue-resident macrophage CL0000864
    CSI 4.27
    rCSI 19.99%
    PRS 98.33
  • L4 intratelencephalic projecting glutamatergic neuron CL4030063
    CSI 4.11
    rCSI 9.83%
    PRS 86.72
  • intestinal crypt stem cell of small intestine CL0009017
    CSI 3.88
    rCSI 10.46%
    PRS 95.48
  • diffuse bipolar 3a cell CL4033029
    CSI 3.83
    rCSI 26.09%
    PRS 87.34
  • lung pericyte CL0009089
    CSI 3.28
    rCSI 8.66%
    PRS 96.9
  • indirect pathway medium spiny neuron CL4023029
    CSI 3.12
    rCSI 75.28%
    PRS 83.2
  • direct pathway medium spiny neuron CL4023026
    CSI 3.06
    rCSI 73.31%
    PRS 83.34
  • midbrain dopaminergic neuron CL2000097
    CSI 2.95
    rCSI 18.9%
    PRS 88.94
  • OFF-bipolar cell CL0000750
    CSI 2.62
    rCSI 3.59%
    PRS 92.44
  • cerebral cortex pyramidal neuron CL4023111
    CSI 2.57
    rCSI 15.83%
    PRS 93.79
  • Hofbauer cell CL3000001
    CSI 2.31
    rCSI 4.36%
    PRS 97.37
  • invaginating midget bipolar cell CL4033034
    CSI 2.26
    rCSI 13.36%
    PRS 86.85
  • mesodermal cell CL0000222
    CSI 2.14
    rCSI 2.57%
    PRS 93.8
  • ON midget ganglion cell CL4033046
    CSI 2.07
    rCSI 42.08%
    PRS 87.65
  • OFF midget ganglion cell CL4033047
    CSI 1.87
    rCSI 38.04%
    PRS 88.17
  • mesangial cell CL0000650
    CSI 1.77
    rCSI 7.21%
    PRS 97.55
  • CD1c-positive myeloid dendritic cell CL0002399
    CSI 1.73
    rCSI 2.09%
    PRS 97.36
  • ON parasol ganglion cell CL4033052
    CSI 1.44
    rCSI 20.5%
    PRS 88.47
  • neuroplacodal cell CL0000032
    CSI 1.39
    rCSI 12.86%
    PRS 90.36
  • stromal cell CL0000499
    CSI 1.31
    rCSI 3.69%
    PRS 91.66
  • starburst amacrine cell CL0004232
    CSI 1.19
    rCSI 10.04%
    PRS 82.85
  • cone retinal bipolar cell CL0000752
    CSI 1.14
    rCSI 14.83%
    PRS 90.72
  • H1 horizontal cell CL0004217
    CSI 0.94
    rCSI 3.74%
    PRS 89.77
  • paneth cell of epithelium of small intestine CL1000343
    CSI 0.86
    rCSI 2.4%
    PRS 95.85
  • enteric neuron CL0007011
    CSI 0.26
    rCSI 3.88%
    PRS 94.55

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

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Comma-separated if multiple.
Legend:
  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [ZNF804A](/details-gene/91752), or Zinc Finger Protein 804A, is a protein-coding gene located on chromosome 2q32.1. As a zinc finger protein, its primary functions are associated with molecular binding and the regulation of gene expression. Functional annotation strongly links [ZNF804A](/details-gene/91752) to neuronal biology, specifically in the positive regulation of neuron projection development and dendritic spine maintenance. This is consistent with its expression profile, which shows significant and specific enrichment across a range of neuronal subtypes, most notably in cortical GABAergic interneurons such as [VIP GABAergic cortical interneurons](/details-cell/CL4023016) and [pvalb GABAergic cortical interneurons](/details-cell/CL4023018), as well as in neurons of the retina. ## Cellular Roles and Expression Landscape The expression data for [ZNF804A](/details-gene/91752) establishes its prominent role within the central nervous system. **Overall**, the gene demonstrates the highest significance in various classes of inhibitory interneurons within the cortex, including [VIP GABAergic cortical interneuron](/details-cell/CL4023016), [pvalb GABAergic cortical interneuron](/details-cell/CL4023018), [sncg GABAergic cortical interneuron](/details-cell/CL4023015), and [sst GABAergic cortical interneuron](/details-cell/CL4023017). This suggests a fundamental role in establishing or maintaining the function of cortical inhibitory circuits. Beyond cortical interneurons, [ZNF804A](/details-gene/91752) is also a significant marker in other neuronal populations, including [retinal bipolar neurons](/details-cell/CL0000748), [glycinergic amacrine cells](/details-cell/CL4030028), and [cerebellar granule cells](/details-cell/CL0001031). Its broad expression across diverse [neurons](/details-cell/CL0000540), encompassing both inhibitory and excitatory types, points to a conserved function in neuronal cell biology. Interestingly, the gene also shows notable significance in select non-neuronal cells, such as [CD14-low, CD16-positive monocytes](/details-cell/CL0002396) and [myofibroblast cells](/details-cell/CL0000186), which may indicate a context-specific role outside the nervous system. ## Pathways and Molecular Function The molecular functions of [ZNF804A](/details-gene/91752) are consistent with its identity as a zinc finger protein and its neuronal expression pattern. It is annotated with molecular functions including [metal ion binding](/details-cell/GO:0046872) and is implicated in the [positive regulation of gene expression](/details-cell/GO:0010628). This suggests it acts as a transcription factor or a component of transcriptional regulatory complexes. Its biological roles are predominantly neuronal. Gene Ontology annotations highlight its involvement in the [positive regulation of neuron projection development](/details-cell/GO:0010976) and the [positive regulation of dendritic spine maintenance](/details-cell/GO:1902952). This aligns perfectly with its cellular component localizations, which include critical synaptic and structural compartments such as the [dendritic spine](/details-cell/GO:0043197), [growth cone](/details-cell/GO:0030426), [postsynapse](/details-cell/GO:0098794), and [presynapse](/details-cell/GO:0098793). Its presence in both the [cytoplasm](/details-cell/GO:0005737) and [nucleus](/details-cell/GO:0005634) is consistent with a protein that may shuttle between these compartments to regulate gene expression in response to synaptic or developmental cues. The initial characterization of this gene was described in several large-scale sequencing projects [Link](https://doi.org/10.1038/nature03466), [Link](https://doi.org/10.1101/gr.2596504), [Link](https://doi.org/10.1038/ng1285), [Link](https://doi.org/10.1126/science.1133427). ## Research Directions The specific and high-level expression of [ZNF804A](/details-gene/91752) in neuronal subtypes, coupled with its function in maintaining dendritic spines, positions it as a key candidate for involvement in synaptic plasticity and neuropsychiatric disorders. Based on the available data, several testable hypotheses can be proposed: 1. **Hypothesis 1:** [ZNF804A](/details-gene/91752) functions as a crucial activity-dependent transcription factor in cortical interneurons. Its expression or nuclear localization is regulated by neuronal activity to control the transcription of genes essential for synaptic homeostasis and the structural integrity of inhibitory synapses. 2. **Hypothesis 2:** The significant expression of [ZNF804A](/details-gene/91752) in [CD14-low, CD16-positive monocytes](/details-cell/CL0002396) indicates a secondary role in the immune system, where it may regulate genes involved in monocyte differentiation, inflammatory response, or migration, functions that are distinct from its role in the CNS. To test the primary hypothesis regarding its role in neuronal plasticity, a key experiment could be designed. A conditional knockout of [ZNF804A](/details-gene/91752) in specific interneuron populations (e.g., using a Pvalb-Cre mouse line) could be generated. Electrophysiological analysis of synaptic transmission and plasticity (e.g., long-term potentiation/depression) at inhibitory synapses in cortical slices from these mice, combined with super-resolution imaging to quantify dendritic spine density and morphology, would directly test the gene's role in maintaining inhibitory circuit function. From a therapeutic standpoint, [ZNF804A](/details-gene/91752) presents a complex target. As a putative transcription factor essential for neuronal maintenance, direct inhibition could have widespread neurotoxic effects. However, in neurological disorders characterized by synaptic loss or dysfunction where [ZNF804A](/details-gene/91752) function is compromised, strategies aimed at enhancing its expression or modulating the activity of its downstream targets could hold therapeutic potential.

Genular Protein ID: 1528396529

Symbol: Z804A_HUMAN

Name: Zinc finger protein 804A

UniProtKB Accession Codes:

Q7Z570 A7E253 Q6ZN26

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 6 Ensembl 1 GO 15 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 GlyGen 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 3 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 RNAct 1 RefSeq 1 SIGNOR 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 15815621

Title: Generation and annotation of the DNA sequences of human chromosomes 2 and 4.

PubMed ID: 15815621

DOI: 10.1038/nature03466

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 16959974

Title: The consensus coding sequences of human breast and colorectal cancers.

PubMed ID: 16959974

DOI: 10.1126/science.1133427

Sequence Information:

  • Length: 1209
  • Mass: 136888
  • Checksum: 467982636EF1DFC0
  • Sequence:
    • MECYYIVISS THLSNGHFRN IKGVFRGPLS KNGNKTLDYA EKENTIAKAL EDLKANFYCE 
LCDKQYYKHQ EFDNHINSYD HAHKQRLKEL KQREFARNVA SKSRKDERKQ EKALQRLHKL 
AELRKETVCA PGSGPMFKST TVTVRENCNE ISQRVVVDSV NNQQDFKYTL IHSEENTKDA 
TTVAEDPESA NNYTAKNNQV GDQAQGIHRH KIGFSFAFPK KASVKLESSA AAFSEYSDDA 
SVGKGFSRKS RFVPSACHLQ QSSPTDVLLS SEEKTNSFHP PEAMCRDKET VQTQEIKEVS 
SEKDALLLPS FCKFQLQLSS DADNCQNSVP LADQIPLESV VINEDIPVSG NSFELLGNKS 
TVLDMSNDCI SVQATTEENV KHNEASTTEV ENKNGPETLA PSNTEEVNIT IHKKTNFCKR 
QCEPFVPVLN KHRSTVLQWP SEMLVYTTTK PSISYSCNPL CFDFKSTKVN NNLDKNKPDL 
KDLCSQQKQE DICMGPLSDY KDVSTEGLTD YEIGSSKNKC SQVTPLLADD ILSSSCDSGK 
NENTGQRYKN ISCKIRETEK YNFTKSQIKQ DTLDEKYNKI RLKETHEYWF HKSRRKKKRK 
KLCQHHHMEK TKESETRCKM EAENSYTENA GKYLLEPISE KQYLAAEQLL DSHQLLDKRP 
KSESISLSDN EEMCKTWNTE YNTYDTISSK NHCKKNTILL NGQSNATMIH SGKHNLTYSR 
TYCCWKTKMS SCSQDHRSLV LQNDMKHMSQ NQAVKRGYNS VMNESERFYR KRRQHSHSYS 
SDESLNRQNH LPEEFLRPPS TSVAPCKPKK KRRRKRGRFH PGFETLELKE NTDYPVKDNS 
SLNPLDRLIS EDKKEKMKPQ EVAKIERNSE QTNQLRNKLS FHPNNLLPSE TNGETEHLEM 
ETTSGELSDV SNDPTTSVCV ASAPTKEAID NTLLEHKERS ENINLNEKQI PFQVPNIERN 
FRQSQPKSYL CHYELAEALP QGKMNETPTE WLRYNSGILN TQPPLPFKEA HVSGHTFVTA 
EQILAPLALP EQALLIPLEN HDKFKNVPCE VYQHILQPNM LANKVKFTFP PAALPPPSTP 
LQPLPLQQSL CSTSVTTIHH TVLQQHAAAA AAAAAAAAAG TFKVLQPHQQ FLSQIPALTR 
TSLPQLSVGP VGPRLCPGNQ PTFVAPPQMP IIPASVLHPS HLAFPSLPHA LFPSLLSPHP 
TVIPLQPLF