Details for: ZCCHC4

Gene ID: 29063

Symbol: ZCCHC4

Ensembl ID: ENSG00000168228

Description: zinc finger CCHC-type containing 4

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: polychromatophilic erythroblast (CL0000550)
    Fold Change: 79.0124
    Cell Significance Index: -12.2900
  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 48.2962
    Cell Significance Index: -12.2500
  • Cell Name: smooth muscle fiber of ileum (CL1000278)
    Fold Change: 27.6623
    Cell Significance Index: -13.0600
  • Cell Name: orthochromatic erythroblast (CL0000552)
    Fold Change: 10.3653
    Cell Significance Index: -12.7800
  • Cell Name: CD8-alpha-beta-positive, alpha-beta intraepithelial T cell (CL0000796)
    Fold Change: 4.5243
    Cell Significance Index: -12.1200
  • Cell Name: stromal cell of bone marrow (CL0010001)
    Fold Change: 3.2590
    Cell Significance Index: -12.8600
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 1.7697
    Cell Significance Index: 175.0700
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.8045
    Cell Significance Index: 726.4000
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.6240
    Cell Significance Index: 67.8700
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.5509
    Cell Significance Index: 33.0700
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.5378
    Cell Significance Index: 87.4700
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: 0.4498
    Cell Significance Index: 89.2600
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 0.3662
    Cell Significance Index: 73.4600
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: 0.3591
    Cell Significance Index: 103.3400
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: 0.3195
    Cell Significance Index: 17.9300
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.3029
    Cell Significance Index: 20.9500
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: 0.2822
    Cell Significance Index: 3.8500
  • Cell Name: GABAergic interneuron (CL0011005)
    Fold Change: 0.2798
    Cell Significance Index: 193.5400
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: 0.2481
    Cell Significance Index: 19.0400
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: 0.2403
    Cell Significance Index: 28.0000
  • Cell Name: leptomeningeal cell (CL0000708)
    Fold Change: 0.2187
    Cell Significance Index: 4.6800
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: 0.2054
    Cell Significance Index: 12.9500
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: 0.2034
    Cell Significance Index: 72.9600
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: 0.2015
    Cell Significance Index: 5.1800
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.1589
    Cell Significance Index: 30.2300
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.1551
    Cell Significance Index: 7.0300
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: 0.1542
    Cell Significance Index: 3.3400
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: 0.1411
    Cell Significance Index: 7.3300
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.1178
    Cell Significance Index: 21.2400
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: 0.1120
    Cell Significance Index: 2.8000
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 0.1086
    Cell Significance Index: 3.1300
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: 0.1046
    Cell Significance Index: 2.2900
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: 0.1023
    Cell Significance Index: 6.2900
  • Cell Name: decidual cell (CL2000002)
    Fold Change: 0.0745
    Cell Significance Index: 1.2000
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: 0.0508
    Cell Significance Index: 1.4200
  • Cell Name: hair follicular keratinocyte (CL2000092)
    Fold Change: 0.0487
    Cell Significance Index: 21.5500
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: 0.0477
    Cell Significance Index: 6.5500
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: 0.0409
    Cell Significance Index: 22.3600
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.0324
    Cell Significance Index: 0.6900
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: 0.0287
    Cell Significance Index: 0.7700
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: 0.0262
    Cell Significance Index: 1.2200
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.0214
    Cell Significance Index: 40.3600
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: 0.0176
    Cell Significance Index: 32.4400
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 0.0176
    Cell Significance Index: 2.2500
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: 0.0131
    Cell Significance Index: 20.1700
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: 0.0078
    Cell Significance Index: 10.5400
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 0.0069
    Cell Significance Index: 0.8500
  • Cell Name: tonsil germinal center B cell (CL2000006)
    Fold Change: 0.0053
    Cell Significance Index: 0.6200
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: 0.0049
    Cell Significance Index: 3.1200
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.0046
    Cell Significance Index: 0.1600
  • Cell Name: preadipocyte (CL0002334)
    Fold Change: 0.0026
    Cell Significance Index: 0.0500
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: 0.0015
    Cell Significance Index: 0.6800
  • Cell Name: transit amplifying cell of small intestine (CL0009012)
    Fold Change: 0.0010
    Cell Significance Index: 0.0200
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.0056
    Cell Significance Index: -0.1500
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0133
    Cell Significance Index: -9.7800
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0155
    Cell Significance Index: -11.7600
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0159
    Cell Significance Index: -11.8100
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0221
    Cell Significance Index: -12.4400
  • Cell Name: pancreatic PP cell (CL0002275)
    Fold Change: -0.0250
    Cell Significance Index: -15.6300
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0271
    Cell Significance Index: -1.8300
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0351
    Cell Significance Index: -5.9900
  • Cell Name: cerebellar granule cell (CL0001031)
    Fold Change: -0.0455
    Cell Significance Index: -0.7800
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0490
    Cell Significance Index: -5.0100
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0501
    Cell Significance Index: -7.2800
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0608
    Cell Significance Index: -6.9600
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0672
    Cell Significance Index: -14.1600
  • Cell Name: sebum secreting cell (CL0000317)
    Fold Change: -0.0697
    Cell Significance Index: -4.9300
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: -0.0806
    Cell Significance Index: -5.2000
  • Cell Name: lactocyte (CL0002325)
    Fold Change: -0.0814
    Cell Significance Index: -10.5100
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: -0.0863
    Cell Significance Index: -1.4500
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: -0.0918
    Cell Significance Index: -2.5000
  • Cell Name: myeloid lineage restricted progenitor cell (CL0000839)
    Fold Change: -0.0955
    Cell Significance Index: -1.3400
  • Cell Name: cortical interneuron (CL0008031)
    Fold Change: -0.0984
    Cell Significance Index: -2.3600
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.1004
    Cell Significance Index: -4.4400
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.1032
    Cell Significance Index: -10.7500
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.1062
    Cell Significance Index: -4.9900
  • Cell Name: umbrella cell of urothelium (CL4030056)
    Fold Change: -0.1064
    Cell Significance Index: -0.9800
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: -0.1077
    Cell Significance Index: -4.0800
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: -0.1231
    Cell Significance Index: -7.5500
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: -0.1332
    Cell Significance Index: -9.9300
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.1373
    Cell Significance Index: -4.7700
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.1418
    Cell Significance Index: -7.1700
  • Cell Name: cardiac muscle cell (CL0000746)
    Fold Change: -0.1444
    Cell Significance Index: -2.1300
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.1456
    Cell Significance Index: -11.5300
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: -0.1602
    Cell Significance Index: -8.4100
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: -0.1816
    Cell Significance Index: -2.6000
  • Cell Name: retinal rod cell (CL0000604)
    Fold Change: -0.1887
    Cell Significance Index: -2.2500
  • Cell Name: medium spiny neuron (CL1001474)
    Fold Change: -0.2238
    Cell Significance Index: -3.0200
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.2290
    Cell Significance Index: -4.8600
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: -0.2402
    Cell Significance Index: -7.6500
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: -0.2440
    Cell Significance Index: -7.9900
  • Cell Name: BEST4+ enteroycte (CL4030026)
    Fold Change: -0.2469
    Cell Significance Index: -3.7200
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: -0.2540
    Cell Significance Index: -6.8000
  • Cell Name: CD4-positive, alpha-beta memory T cell, CD45RO-positive (CL0001204)
    Fold Change: -0.2547
    Cell Significance Index: -7.4800
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: -0.2632
    Cell Significance Index: -5.5100
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.2727
    Cell Significance Index: -7.1700
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.2826
    Cell Significance Index: -9.9000
  • Cell Name: OFF midget ganglion cell (CL4033047)
    Fold Change: -0.2855
    Cell Significance Index: -3.5600
  • Cell Name: pro-T cell (CL0000827)
    Fold Change: -0.2944
    Cell Significance Index: -7.5200
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: -0.3024
    Cell Significance Index: -4.3500

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.

Other Information

**Key Characteristics:** 1. **Zinc Finger Domain**: The ZCCHC4 protein contains a zinc finger domain, a conserved structural motif that enables the protein to bind to specific DNA or RNA sequences, thereby regulating gene expression. 2. **RNA Methylation Activity**: ZCCHC4 exhibits RNA (adenine-N6)-methyltransferase activity, a crucial step in the regulation of RNA stability and translation. 3. **Translation Regulation**: The protein is involved in the positive regulation of translation, suggesting its role in modulating protein synthesis and cellular metabolism. 4. **Cellular Expression**: ZCCHC4 is expressed in various cell types, including cerebral cortex GABAergic interneurons, forebrain radial glial cells, and intestinal epithelial cells. **Pathways and Functions:** The ZCCHC4 protein is involved in several cellular processes, including: 1. **RNA Methylation**: ZCCHC4 catalyzes the methylation of RNA, which regulates its stability and translation. 2. **Translation Regulation**: The protein modulates protein synthesis by regulating the translation of specific mRNAs. 3. **Zinc Ion Binding**: ZCCHC4 binds to zinc ions, which is essential for its function and stability. 4. **Nucleic Acid Binding**: The protein interacts with DNA and RNA, regulating gene expression and cellular metabolism. **Clinical Significance:** The analysis of the ZCCHC4 gene has provided insights into its potential involvement in various diseases, including: 1. **Neurological Disorders**: The expression of ZCCHC4 in GABAergic interneurons suggests its potential role in neurological disorders, such as epilepsy and Parkinson's disease. 2. **Cancer**: The protein's involvement in RNA methylation and translation regulation may contribute to cancer development and progression. 3. **Intestinal Diseases**: The expression of ZCCHC4 in intestinal epithelial cells suggests its potential role in intestinal diseases, such as inflammatory bowel disease. In conclusion, the ZCCHC4 gene is a crucial component of the human genome that plays a significant role in cellular regulation and disease pathogenesis. Further research is necessary to fully understand the functions of this gene and its potential involvement in various diseases.

Genular Protein ID: 2140987670

Symbol: ZCHC4_HUMAN

Name: N/A

UniProtKB Accession Codes:

Q9H5U6 B2RXF6 B4DRD8 B7ZW20 Q5IW78 Q96AN7

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CTD 1 ChEBI 34 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 7 Ensembl 2 ExpressionAtlas 1 GO 8 GeneCards 1 GeneTree 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 4 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PDB 1 PDBsum 1 PRO 1 PROSITE 3 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 3 Pumba 1 RNAct 1 RefSeq 1 Rhea 4 SMR 1 STRING 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 14702039

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

PubMed ID: 14702039

DOI: 10.1038/ng1285

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: 15225602

Title: Novel Sm-like proteins with long C-terminal tails and associated methyltransferases.

PubMed ID: 15225602

DOI: 10.1016/j.febslet.2004.03.126

PubMed ID: 30531910

Title: N6-methyladenosine methyltransferase ZCCHC4 mediates ribosomal RNA methylation.

PubMed ID: 30531910

DOI: 10.1038/s41589-018-0184-3

PubMed ID: 31328227

Title: The human 18S rRNA m6A methyltransferase METTL5 is stabilized by TRMT112.

PubMed ID: 31328227

DOI: 10.1093/nar/gkz619

PubMed ID: 31799605

Title: The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA.

PubMed ID: 31799605

DOI: 10.1093/nar/gkz1147

PubMed ID: 31695039

Title: Structure and regulation of ZCCHC4 in m6A-methylation of 28S rRNA.

PubMed ID: 31695039

DOI: 10.1038/s41467-019-12923-x

Sequence Information:

  • Length: 513
  • Mass: 59010
  • Checksum: D74690827DC935F4
  • Sequence:
    • MAASRNGFEA VEAEGSAGCR GSSGMEVVLP LDPAVPAPLC PHGPTLLFVK VTQGKEETRR 
FYACSACRDR KDCNFFQWED EKLSGARLAA REAHNRRCQP PLSRTQCVER YLKFIELPLT 
QRKFCQTCQQ LLLPDDWGQH SEHQVLGNVS ITQLRRPSQL LYPLENKKTN AQYLFADRSC 
QFLVDLLSAL GFRRVLCVGT PRLHELIKLT ASGDKKSNIK SLLLDIDFRY SQFYMEDSFC 
HYNMFNHHFF DGKTALEVCR AFLQEDKGEG IIMVTDPPFG GLVEPLAITF KKLIAMWKEG 
QSQDDSHKEL PIFWIFPYFF ESRICQFFPS FQMLDYQVDY DNHALYKHGK TGRKQSPVRI 
FTNIPPNKII LPTEEGYRFC SPCQRYVSLE NQHCELCNSC TSKDGRKWNH CFLCKKCVKP 
SWIHCSICNH CAVPDHSCEG PKHGCFICGE LDHKRSTCPN IATSKRANKA VRKQKQRKSN 
KMKMETTKGQ SMNHTSATRR KKRRERAHQY LGS

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.