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ZNF354C zinc finger protein 354C [ Homo sapiens (human) ]

Gene ID: 30832, updated on 11-Apr-2024

Summary

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Official Symbol
ZNF354Cprovided by HGNC
Official Full Name
zinc finger protein 354Cprovided by HGNC
Primary source
HGNC:HGNC:16736
See related
Ensembl:ENSG00000177932 MIM:619511; AllianceGenome:HGNC:16736
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
KID3
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary (RPKM 3.8), thyroid (RPKM 3.7) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See ZNF354C in Genome Data Viewer
Location:
5q35.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (179060373..179083977)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (179613560..179637167)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (178487374..178510978)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene F-box and WD repeat domain containing 2 pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:178450433-178450934 Neighboring gene zinc finger protein 879 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:178487693-178488228 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178594089-178594590 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178608229-178608956 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178611336-178611936 Neighboring gene uncharacterized LOC124900195 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178619033-178619724 Neighboring gene Sharpr-MPRA regulatory region 9172 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178636495-178636995 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178644493-178645348 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178660748-178661408 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178661409-178662067 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:178691371-178692266 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:178692267-178693160 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178728767-178729266 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178747039-178747538 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178759497-178760033 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178762827-178763626 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178763627-178764426 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178764427-178765226 Neighboring gene uncharacterized LOC105377759

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. ZNF354C is a transcriptional repressor that inhibits endothelial angiogenic sprouting. Oo JA, et al. Sci Rep, 2020 Nov 5. PMID 33154469, Free PMC Article
  2. Genome-Wide Association Study Identifies ZNF354C Variants Associated with Depression from Interferon-Based Therapy for Chronic Hepatitis C. Matsunami K, et al. PLoS One, 2016. PMID 27723809, Free PMC Article
  3. Cloning and characterization of a novel human zinc finger gene, hKid3, from a C2H2-ZNF enriched human embryonic cDNA library. Gao L, et al. Biochem Biophys Res Commun, 2004 Dec 24. PMID 15555547
  4. Characterisation, chromosomal localisation and expression of the mouse Kid3 gene. Watson RP, et al. Biochim Biophys Acta, 2000 Jan 31. PMID 10786630
  5. ZNF354C Mediated by DNMT1 Ameliorates Lung Ischemia-Reperfusion Oxidative Stress Injury by Reducing TFPI Promoter Methylation to Upregulate TFPI. Shi Q, et al. Oxid Med Cell Longev, 2022. PMID 35915612, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ZNF354C is a transcriptional repressor that inhibits endothelial angiogenic sprouting.
    Title: ZNF354C is a transcriptional repressor that inhibits endothelial angiogenic sprouting.
  2. The SNP rs1863918 in strong linkage disequilibrium with SNPs located around the Zinc finger 354C (ZNF354C) gene on chromosome 5 showed a significant association when the results of GWAS and replication were combined (odds ratio = 2.55, P = 7.89x10-8 in the allele frequency model), suggesting that the rs1863918 T allele was associated with IFN-induced depression.
    Title: Genome-Wide Association Study Identifies ZNF354C Variants Associated with Depression from Interferon-Based Therapy for Chronic Hepatitis C.
  3. cloning and characterization; results indicate that hKid3 may function as a transcription repressor with regulated expression pattern during human development of brain and kidney
    Title: Cloning and characterization of a novel human zinc finger gene, hKid3, from a C2H2-ZNF enriched human embryonic cDNA library.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in angiogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of sprouting angiogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
zinc finger protein 354C
Names
KRAB-zinc finger protein synten
kidney, ischemia, and developmentally-regulated protein 3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_014594.3 → NP_055409.1  zinc finger protein 354C

    See identical proteins and their annotated locations for NP_055409.1

    Status: VALIDATED

    Source sequence(s)
    AC104117, AF525463, AK124385, BC063312, CN482682, DA393183, DA527405, DA548517
    Consensus CDS
    CCDS4443.1
    UniProtKB/Swiss-Prot
    Q6P4P9, Q86Y25, Q8NFX1
    Related
    ENSP00000324064.6, ENST00000315475.7
    Conserved Domains (5) summary
    smart00349
    Location:12 → 72
    KRAB; krueppel associated box
    COG5048
    Location:242 → 541
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:218 → 238
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:12 → 51
    KRAB; KRAB box
    pfam13465
    Location:454 → 479
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    179060373..179083977
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017009409.2 → XP_016864898.1  zinc finger protein 354C isoform X1

    UniProtKB/Swiss-Prot
    Q6P4P9, Q86Y25, Q8NFX1
    Conserved Domains (5) summary
    smart00349
    Location:12 → 72
    KRAB; krueppel associated box
    COG5048
    Location:242 → 541
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:218 → 238
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:12 → 51
    KRAB; KRAB box
    pfam13465
    Location:454 → 479
    zf-H2C2_2; Zinc-finger double domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    179613560..179637167
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054352479.1 → XP_054208454.1  zinc finger protein 354C isoform X1

    UniProtKB/Swiss-Prot
    Q6P4P9, Q86Y25, Q8NFX1
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86Y25.1 GenPept UniProtKB/Swiss-Prot:Q86Y25

Gene LinkOut

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