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

    Gene ID: 30832, updated on 2-Nov-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
    Enables DNA-binding transcription repressor activity, RNA polymerase II-specific. Involved in negative regulation of sprouting angiogenesis. Located in cytoplasm; nuclear membrane; and nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    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_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (179060373..179083977)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (179613560..179637167)
    RS_2024_09 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 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. 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
    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. ZNF354C is a transcriptional repressor that inhibits endothelial angiogenic sprouting. Oo JA, et al. Sci Rep, 2020 Nov 5. PMID 33154469, Free PMC Article
    4. Characterisation, chromosomal localisation and expression of the mouse Kid3 gene. Watson RP, et al. Biochim Biophys Acta, 2000 Jan 31. PMID 10786630
    5. Gain of LINC00624 Enhances Liver Cancer Progression by Disrupting the Histone Deacetylase 6/Tripartite Motif Containing 28/Zinc Finger Protein 354C Corepressor Complex. Li Z, et al. Hepatology, 2021 May. PMID 32869873

    See all (17) 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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    NEW Try the new Transcript table

    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_2024_08

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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