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    ZNF396 zinc finger protein 396 [ Homo sapiens (human) ]

    Gene ID: 252884, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ZNF396provided by HGNC
    Official Full Name
    zinc finger protein 396provided by HGNC
    Primary source
    HGNC:HGNC:18824
    See related
    Ensembl:ENSG00000186496 MIM:609600; AllianceGenome:HGNC:18824
    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
    ZSCAN14
    Summary
    Enables protein heterodimerization activity; protein homodimerization activity; and sequence-specific double-stranded DNA binding activity. Involved in negative regulation of DNA-templated transcription. Located in cytoplasm and nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in thyroid (RPKM 1.8), testis (RPKM 1.3) and 24 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF396 in Genome Data Viewer
    Location:
    18q12.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (35366694..35377337, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (35558034..35568691, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (32946658..32957301, complement)

    Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13222 Neighboring gene zinc finger protein 271, pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr18:32904859-32905554 Neighboring gene zinc finger protein 24 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13223 Neighboring gene uncharacterized LOC124904283 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9396 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr18:32934967-32935487 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr18:32936140-32936672 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9399 Neighboring gene Sharpr-MPRA regulatory region 14792 Neighboring gene ribosomal protein L7a pseudogene 67 Neighboring gene uncharacterized LOC105372063

    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. Expression of ZNF396 in basal cell carcinoma. Bai J, et al. Arch Dermatol Res, 2014 May. PMID 24445935
    2. Identification and characterization of two novel human SCAN domain-containing zinc finger genes ZNF396 and ZNF397. Wu Y, et al. Gene, 2003 May 22. PMID 12801647
    3. A functionally defined high-density NRF2 interactome reveals new conditional regulators of ARE transactivation. Poh J, et al. Redox Biol, 2020 Oct. PMID 32911434, Free PMC Article
    4. Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects. Deng X, et al. PLoS One, 2013. PMID 24324551, Free PMC Article
    5. Impact of cytosine methylation on DNA binding specificities of human transcription factors. Yin Y, et al. Science, 2017 May 5. PMID 28473536, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    EBI GWAS Catalog

    Description
    Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ31213

    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 factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
    		  
    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 
    enables protein heterodimerization activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin ISA
    Inferred from Sequence Alignment
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 396
    Names
    zinc finger and SCAN domain-containing protein 14

    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_001322286.2 → NP_001309215.1  zinc finger protein 396 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC007998, AF533251
      Consensus CDS
      CCDS82247.1
      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95
      Related
      ENSP00000466500.1, ENST00000589332.7
      Conserved Domains (6) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      COG5048
      Location:239 → 306
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:253 → 273
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:252 → 273
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:48 → 136
      SCAN; SCAN domain
      pfam13465
      Location:294 → 318
      zf-H2C2_2; Zinc-finger double domain

    2. NM_001322290.2 → NP_001309219.1  zinc finger protein 396 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC007998
      Consensus CDS
      CCDS82247.1
      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95
      Conserved Domains (6) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      COG5048
      Location:239 → 306
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:253 → 273
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:252 → 273
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:48 → 136
      SCAN; SCAN domain
      pfam13465
      Location:294 → 318
      zf-H2C2_2; Zinc-finger double domain

    3. NM_001322291.2 → NP_001309220.1  zinc finger protein 396 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC007998, AF492004, BM713411
      Consensus CDS
      CCDS82246.1
      UniProtKB/Swiss-Prot
      Q96N95
      Related
      ENSP00000467275.1, ENST00000586687.5
      Conserved Domains (2) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      pfam02023
      Location:48 → 136
      SCAN; SCAN domain

    4. NM_145756.3 → NP_665699.1  zinc finger protein 396 isoform 2

      See identical proteins and their annotated locations for NP_665699.1

      Status: VALIDATED

      Source sequence(s)
      AC007998, AK055775
      Consensus CDS
      CCDS11913.1
      UniProtKB/Swiss-Prot
      Q96N95
      Related
      ENSP00000302310.1, ENST00000306346.5
      Conserved Domains (3) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      COG5048
      Location:239 → 302
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:253 → 273
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_000018.10 Reference GRCh38.p14 Primary Assembly

      Range
      35366694..35377337 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017025689.2 → XP_016881178.1  zinc finger protein 396 isoform X2

      Conserved Domains (1) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region

    2. XM_006722432.4 → XP_006722495.1  zinc finger protein 396 isoform X1

      See identical proteins and their annotated locations for XP_006722495.1

      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95
      Conserved Domains (6) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      COG5048
      Location:239 → 306
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:253 → 273
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:252 → 273
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:48 → 136
      SCAN; SCAN domain
      pfam13465
      Location:294 → 318
      zf-H2C2_2; Zinc-finger double domain

    3. XM_024451138.2 → XP_024306906.1  zinc finger protein 396 isoform X2

      Conserved Domains (1) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region

    4. XM_017025687.2 → XP_016881176.1  zinc finger protein 396 isoform X1

      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95
      Conserved Domains (6) summary
      smart00431
      Location:48 → 157
      SCAN; leucine rich region
      COG5048
      Location:239 → 306
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:253 → 273
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:252 → 273
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:48 → 136
      SCAN; SCAN domain
      pfam13465
      Location:294 → 318
      zf-H2C2_2; Zinc-finger double domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060942.1 Alternate T2T-CHM13v2.0

      Range
      35558034..35568691 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054318474.1 → XP_054174449.1  zinc finger protein 396 isoform X2

    2. XM_054318472.1 → XP_054174447.1  zinc finger protein 396 isoform X1

      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95

    3. XM_054318475.1 → XP_054174450.1  zinc finger protein 396 isoform X2

    4. XM_054318473.1 → XP_054174448.1  zinc finger protein 396 isoform X1

      UniProtKB/Swiss-Prot
      A1L3V0, Q8NF98, Q8TD80, Q96N95
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96N95.2 GenPept UniProtKB/Swiss-Prot:Q96N95

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