Aliases for ZC3H18 Gene

Aliases for ZC3H18 Gene

  • Zinc Finger CCCH-Type Containing 18 2 3 5
  • NHN1 2 3 4
  • Zinc Finger CCCH Domain-Containing Protein 18 3 4
  • Nuclear Protein NHN1 3 4
  • Conserved Nuclear Protein NHN1 3
  • ZC3H18 5

External Ids for ZC3H18 Gene

Previous GeneCards Identifiers for ZC3H18 Gene

  • GC16P087167
  • GC16P088636
  • GC16P074331

Summaries for ZC3H18 Gene

GeneCards Summary for ZC3H18 Gene

ZC3H18 (Zinc Finger CCCH-Type Containing 18) is a Protein Coding gene. An important paralog of this gene is PPP1R10.

Additional gene information for ZC3H18 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZC3H18 Gene

Genomics for ZC3H18 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZC3H18 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J088569 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 600.7 +0.2 220 2.8 SP1 CREB1 ZNF629 TFE3 SIX5 LEF1 NFKBIZ POLR2A ZNF692 BACH1 ZC3H18 ZC3H18-AS1 lnc-CYBA-4 piR-37138 IL17C HSALNG0113518
GH16J089558 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 55.7 +992.3 992250 7.9 SP1 HNRNPL CREB1 GATAD2A CTCF PRDM10 ZNF629 TFE3 ZNF512 SOX13 RPL13 SNORD68 NONHSAG020350.2-001 NONHSAG020350.2-002 piR-31703 AFG3L1P ENSG00000268218 ANKRD11 ENSG00000261118 ACSF3
GH16J087777 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 43.6 -790.7 -790694 4.2 RNF2 CEBPG SP1 HNRNPL CREB1 GATAD2A CTCF ATF7 TEAD4 PRDM10 KLHDC4 ENSG00000260498 LOC102724467 ZC3H18 BANP LOC101928659 ENSG00000260121 ENSG00000226180 CTU2 ZCCHC14
GH16J089503 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 37.1 +936.7 936686 6.3 ZNF221 CREB1 GATAD2A ZBTB33 HNRNPL ATF7 PRDM10 ZNF629 TFE3 LEF1 SPG7 ENSG00000261118 NONHSAG020345.2 AFG3L1P MC1R ZC3H18 ENSG00000268218 ANKRD11 TCF25 ENSG00000259877
GH16J088809 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 35 +240.9 240896 4.4 CEBPG SP1 GATAD2A CTCF HNRNPL TEAD4 PRDM10 ZNF629 TFE3 NFKBIZ APRT lnc-GALNS-1 ENSG00000259877 ANKRD11 SNORD68 ENSG00000261118 ZC3H18 GALNS ENSG00000268218 RPL13
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZC3H18 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZC3H18

Top Transcription factor binding sites by QIAGEN in the ZC3H18 gene promoter:
  • AP-4
  • CUTL1
  • Elk-1
  • HOXA9
  • HOXA9B
  • Meis-1
  • Meis-1b
  • MIF-1
  • RelA
  • RFX1

Genomic Locations for ZC3H18 Gene

Genomic Locations for ZC3H18 Gene
chr16:88,570,381-88,631,966
(GRCh38/hg38)
Size:
61,586 bases
Orientation:
Plus strand
chr16:88,636,789-88,698,374
(GRCh37/hg19)
Size:
61,586 bases
Orientation:
Plus strand

Genomic View for ZC3H18 Gene

Genes around ZC3H18 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZC3H18 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZC3H18 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZC3H18 Gene

Proteins for ZC3H18 Gene

  • Protein details for ZC3H18 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86VM9-ZCH18_HUMAN
    Recommended name:
    Zinc finger CCCH domain-containing protein 18
    Protein Accession:
    Q86VM9
    Secondary Accessions:
    • Q96DG4
    • Q96MP7

    Protein attributes for ZC3H18 Gene

    Size:
    953 amino acids
    Molecular mass:
    106378 Da
    Quaternary structure:
    • Interacts with ZFC3H1 in a RNase-insensitive manner.
    SequenceCaution:
    • Sequence=BAB71237.1; Type=Miscellaneous discrepancy; Note=Non-canonical splice intron-exon junction.; Evidence={ECO:0000305};

neXtProt entry for ZC3H18 Gene

Post-translational modifications for ZC3H18 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZC3H18 Gene

Domains & Families for ZC3H18 Gene

Gene Families for ZC3H18 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for ZC3H18 Gene

InterPro:
Blocks:
  • Zn-finger, C-x8-C-x5-C-x3-H type
ProtoNet:

Suggested Antigen Peptide Sequences for ZC3H18 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ36075 fis, clone TESTI2019729, highly similar to Homo sapiens conserved nuclear protein NHN1 (NHN1), mRNA (B3KRL4_HUMAN)
  • Nuclear protein NHN1 (ZCH18_HUMAN)
genes like me logo Genes that share domains with ZC3H18: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for ZC3H18 Gene

Function for ZC3H18 Gene

Phenotypes From GWAS Catalog for ZC3H18 Gene

Gene Ontology (GO) - Molecular Function for ZC3H18 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 21044950
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZC3H18: view
genes like me logo Genes that share phenotypes with ZC3H18: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZC3H18

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZC3H18 Gene

Localization for ZC3H18 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZC3H18 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ZC3H18 gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZC3H18 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0016607 nuclear speck IDA --
GO:0032991 protein-containing complex IDA 23793891
genes like me logo Genes that share ontologies with ZC3H18: view

Pathways & Interactions for ZC3H18 Gene

PathCards logo

SuperPathways for ZC3H18 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZC3H18 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for ZC3H18 Gene

Drugs & Compounds for ZC3H18 Gene

No Compound Related Data Available

Transcripts for ZC3H18 Gene

mRNA/cDNA for ZC3H18 Gene

2 REFSEQ mRNAs :
13 NCBI additional mRNA sequence :
12 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZC3H18

Alternative Splicing Database (ASD) splice patterns (SP) for ZC3H18 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b · 14c ^ 15 ^ 16a · 16b ^ 17 ^
SP1: -
SP2: -
SP3: - -
SP4:
SP5:
SP6: - -
SP7: - - - -
SP8: - - - - - - - - - - - - - -
SP9:
SP10:

ExUns: 18 ^ 19a · 19b ^ 20a · 20b
SP1: -
SP2:
SP3:
SP4:
SP5: -
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for ZC3H18 Gene

GeneLoc Exon Structure for
ZC3H18

Expression for ZC3H18 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZC3H18 Gene

Protein differential expression in normal tissues from HIPED for ZC3H18 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (23.4) and Lavage (15.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for ZC3H18 Gene



Protein tissue co-expression partners for ZC3H18 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZC3H18

SOURCE GeneReport for Unigene cluster for ZC3H18 Gene:

Hs.93670

Evidence on tissue expression from TISSUES for ZC3H18 Gene

  • Nervous system(4.8)
  • Liver(4.3)
  • Blood(4.3)
  • Kidney(2.6)
  • Adrenal gland(2.3)
  • Bone marrow(2.3)
  • Gall bladder(2.3)
  • Intestine(2.3)
  • Lung(2.3)
  • Lymph node(2.3)
  • Pancreas(2.3)
  • Skin(2.3)
  • Stomach(2.3)
  • Thyroid gland(2.3)
genes like me logo Genes that share expression patterns with ZC3H18: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZC3H18 Gene

Orthologs for ZC3H18 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZC3H18 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia ZC3H18 31
  • 97 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia ZC3H18 31
  • 86 (a)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Zc3h18 30
  • 85.67 (n)
Mouse
(Mus musculus)
Mammalia Zc3h18 30 17 31
  • 85.48 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia ZC3H18 31
  • 85 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia ZC3H18 30 31
  • 84.98 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia ZC3H18 30 31
  • 81.29 (n)
OneToOne
Chicken
(Gallus gallus)
Aves ZC3H18 31
  • 75 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia ZC3H18 31
  • 71 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.14309 30
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia Str.20181 30
Zebrafish
(Danio rerio)
Actinopterygii zc3h18 31
  • 49 (a)
OneToOne
Dr.24473 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG1677 31
  • 24 (a)
OneToOne
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 32 (a)
OneToOne
Species where no ortholog for ZC3H18 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for ZC3H18 Gene

ENSEMBL:
Gene Tree for ZC3H18 (if available)
TreeFam:
Gene Tree for ZC3H18 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZC3H18: view image

Paralogs for ZC3H18 Gene

Paralogs for ZC3H18 Gene

(2) SIMAP similar genes for ZC3H18 Gene using alignment to 6 proteins:

  • ZCH18_HUMAN
  • E7ERS3_HUMAN
  • H3BP01_HUMAN
  • H3BPD0_HUMAN
  • H3BRH3_HUMAN
  • H3BRN6_HUMAN
genes like me logo Genes that share paralogs with ZC3H18: view

Variants for ZC3H18 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZC3H18 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
713960 Likely Benign: not provided 88,577,319(+) C/T MISSENSE_VARIANT
782142 Benign: not provided 88,577,225(+) C/T SYNONYMOUS_VARIANT
rs17855686 - p.Arg440His
rs34808360 - p.Ala368Thr

Additional dbSNP identifiers (rs#s) for ZC3H18 Gene

Structural Variations from Database of Genomic Variants (DGV) for ZC3H18 Gene

Variant ID Type Subtype PubMed ID
dgv5308n54 CNV loss 21841781
dgv5309n54 CNV loss 21841781
esv2678436 CNV deletion 23128226
esv28119 CNV loss 19812545
esv3553873 CNV deletion 23714750
esv3639552 CNV loss 21293372
esv3639553 CNV gain 21293372
nsv1113831 CNV deletion 24896259
nsv1926 CNV insertion 18451855
nsv523859 CNV gain 19592680
nsv573658 CNV loss 21841781
nsv573668 CNV loss 21841781
nsv573672 CNV loss 21841781
nsv833325 CNV loss 17160897
nsv952070 CNV deletion 24416366

Variation tolerance for ZC3H18 Gene

Residual Variation Intolerance Score: 7.94% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.77; 47.16% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZC3H18 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZC3H18

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZC3H18 Gene

Disorders for ZC3H18 Gene

Additional Disease Information for ZC3H18

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

No disorders were found for ZC3H18 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZC3H18 Gene

Publications for ZC3H18 Gene

  1. Identification of a Nuclear Exosome Decay Pathway for Processed Transcripts. (PMID: 27871484) Meola N … Jensen TH (Molecular cell 2016) 3 4
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41
  3. Control of pre-mRNA splicing by the general splicing factors PUF60 and U2AF(65). (PMID: 17579712) Hastings ML … Krainer AR (PloS one 2007) 2 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  5. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. (PMID: 32353859) Gordon DE … Krogan NJ (Nature 2020) 3

Products for ZC3H18 Gene

Sources for ZC3H18 Gene