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    ZNF140 zinc finger protein 140 [ Homo sapiens (human) ]

    Gene ID: 7699, updated on 5-Mar-2024

    Summary

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    Official Symbol
    ZNF140provided by HGNC
    Official Full Name
    zinc finger protein 140provided by HGNC
    Primary source
    HGNC:HGNC:12925
    See related
    Ensembl:ENSG00000196387 MIM:604082; AllianceGenome:HGNC:12925
    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
    pHZ-39
    Summary
    Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thyroid (RPKM 3.0), testis (RPKM 2.6) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF140 in Genome Data Viewer
    Location:
    12q24.33
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (133080425..133107428)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (133133853..133164744)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (133657509..133684014)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7397 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5134 Neighboring gene ZNF84 divergent transcript Neighboring gene PTP4A1 pseudogene 2 Neighboring gene zinc finger protein 84 Neighboring gene MPRA-validated peak2056 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7398 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7399 Neighboring gene zinc finger protein 891 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_26217 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5135 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5136 Neighboring gene ribosomal protein L23a pseudogene 67 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7400 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_26228 Neighboring gene zinc finger protein 10 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr12:133731795-133732994

    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. Characterization of the human Fc gamma RIIB gene promoter: human zinc-finger proteins (ZNF140 and ZNF91) that bind to different regions function as transcription repressors. Nishimura T, et al. Int Immunol, 2001 Aug. PMID 11470777
    2. KAP-1, a novel corepressor for the highly conserved KRAB repression domain. Friedman JR, et al. Genes Dev, 1996 Aug 15. PMID 8769649
    3. Repression of transcriptional activity by heterologous KRAB domains present in zinc finger proteins. Vissing H, et al. FEBS Lett, 1995 Aug 7. PMID 7649249
    4. Isolation and fine mapping of 16 novel human zinc finger-encoding cDNAs identify putative candidate genes for developmental and malignant disorders. Tommerup N, et al. Genomics, 1995 May 20. PMID 7557990
    5. SR protein kinases promote splicing of nonconsensus introns. Lipp JJ, et al. Nat Struct Mol Biol, 2015 Aug. PMID 26167880

    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

    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 IDA
    Inferred from Direct Assay
    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 
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    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 transcription by RNA polymerase II 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
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 140

    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_001300776.2 → NP_001287705.1  zinc finger protein 140 isoform 2

      See identical proteins and their annotated locations for NP_001287705.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1. Variants 2 and 4 encode the same protein (isoform 2).
      Source sequence(s)
      AK303240, BC022291
      Consensus CDS
      CCDS73550.1
      UniProtKB/Swiss-Prot
      P52738
      Related
      ENSP00000445411.1, ENST00000544426.5
      Conserved Domains (3) summary
      COG5048
      Location:56 → 349
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:88 → 108
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:129 → 153
      zf-H2C2_2; Zinc-finger double domain

    2. NM_001300777.2 → NP_001287706.1  zinc finger protein 140 isoform 3

      See identical proteins and their annotated locations for NP_001287706.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (3) has a shorter N-terminus, compared to isoform 1.Transcript Variant:
      Source sequence(s)
      AK122741, AK296572, BC022291
      UniProtKB/TrEMBL
      B4DKI0
      Conserved Domains (3) summary
      COG5048
      Location:31 → 324
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:63 → 83
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:104 → 128
      zf-H2C2_2; Zinc-finger double domain

    3. NM_001300778.2 → NP_001287707.1  zinc finger protein 140 isoform 2

      See identical proteins and their annotated locations for NP_001287707.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1. Variants 2 and 4 encode the same protein (isoform 2).
      Source sequence(s)
      AK122741, BC022291
      Consensus CDS
      CCDS73550.1
      UniProtKB/Swiss-Prot
      P52738
      Conserved Domains (3) summary
      COG5048
      Location:56 → 349
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:88 → 108
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:129 → 153
      zf-H2C2_2; Zinc-finger double domain

    4. NM_003440.4 → NP_003431.2  zinc finger protein 140 isoform 1

      See identical proteins and their annotated locations for NP_003431.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AK122741, BC022291
      Consensus CDS
      CCDS9282.1
      UniProtKB/Swiss-Prot
      D3DXJ3, P52738, Q05CP6, Q8IV75
      Related
      ENSP00000347755.2, ENST00000355557.7
      Conserved Domains (3) summary
      smart00349
      Location:6 → 65
      KRAB; krueppel associated box
      COG5048
      Location:159 → 452
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:191 → 211
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      133080425..133107428
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011534834.4 → XP_011533136.1  zinc finger protein 140 isoform X1

      See identical proteins and their annotated locations for XP_011533136.1

      Conserved Domains (5) summary
      smart00349
      Location:6 → 66
      KRAB; krueppel associated box
      COG5048
      Location:160 → 453
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:192 → 212
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:6 → 45
      KRAB; KRAB box
      pfam13465
      Location:233 → 257
      zf-H2C2_2; Zinc-finger double domain

    2. XM_011534835.4 → XP_011533137.1  zinc finger protein 140 isoform X2

      See identical proteins and their annotated locations for XP_011533137.1

      UniProtKB/Swiss-Prot
      D3DXJ3, P52738, Q05CP6, Q8IV75
      Conserved Domains (3) summary
      smart00349
      Location:6 → 65
      KRAB; krueppel associated box
      COG5048
      Location:159 → 452
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:191 → 211
      ZF_C2H2; C2H2 Zn finger [structural motif]

    3. XM_011534833.3 → XP_011533135.1  zinc finger protein 140 isoform X1

      See identical proteins and their annotated locations for XP_011533135.1

      Conserved Domains (5) summary
      smart00349
      Location:6 → 66
      KRAB; krueppel associated box
      COG5048
      Location:160 → 453
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:192 → 212
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:6 → 45
      KRAB; KRAB box
      pfam13465
      Location:233 → 257
      zf-H2C2_2; Zinc-finger double domain

    4. XM_011534837.3 → XP_011533139.1  zinc finger protein 140 isoform X3

      See identical proteins and their annotated locations for XP_011533139.1

      Conserved Domains (3) summary
      COG5048
      Location:126 → 419
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:158 → 178
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:199 → 223
      zf-H2C2_2; Zinc-finger double domain

    5. XM_047429512.1 → XP_047285468.1  zinc finger protein 140 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      133133853..133164744
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054373144.1 → XP_054229119.1  zinc finger protein 140 isoform X1

    2. XM_054373146.1 → XP_054229121.1  zinc finger protein 140 isoform X2

      UniProtKB/Swiss-Prot
      D3DXJ3, P52738, Q05CP6, Q8IV75

    3. XM_054373145.1 → XP_054229120.1  zinc finger protein 140 isoform X1

    4. XM_054373147.1 → XP_054229122.1  zinc finger protein 140 isoform X2

      UniProtKB/Swiss-Prot
      D3DXJ3, P52738, Q05CP6, Q8IV75

    5. XM_054373148.1 → XP_054229123.1  zinc finger protein 140 isoform X3

    6. XM_054373149.1 → XP_054229124.1  zinc finger protein 140 isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P52738.2 GenPept UniProtKB/Swiss-Prot:P52738

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