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    ZXDC ZXD family zinc finger C [ Homo sapiens (human) ]

    Gene ID: 79364, updated on 27-Nov-2024

    Summary

    Official Symbol
    ZXDCprovided by HGNC
    Official Full Name
    ZXD family zinc finger Cprovided by HGNC
    Primary source
    HGNC:HGNC:28160
    See related
    Ensembl:ENSG00000070476 MIM:615746; AllianceGenome:HGNC:28160
    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
    ZXDL
    Summary
    Enables C2H2 zinc finger domain binding activity; LRR domain binding activity; and transcription coactivator activity. Involved in positive regulation of DNA-templated transcription. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in bone marrow (RPKM 13.7), spleen (RPKM 5.6) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See ZXDC in Genome Data Viewer
    Location:
    3q21.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (126437601..126475891, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (129170156..129208446, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (126156444..126194734, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126116648-126117157 Neighboring gene CFAP100 divergent transcript Neighboring gene cilia and flagella associated protein 100 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126127425-126127925 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:126136999-126137896 Neighboring gene uncharacterized LOC124906280 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126160086-126160721 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126167171-126168110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126186579-126187556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126193081-126193606 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14677 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14678 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:126204897-126205832 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:126207907-126209106 Neighboring gene urocanate hydratase 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126216345-126217222 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126229039-126229961 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:126239356-126239555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126242322-126242822 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126242823-126243323 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126243384-126243884 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126243885-126244385 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:126248434-126249422 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20439 Neighboring gene carbohydrate sulfotransferase 13 Neighboring gene chromosome 3 open reading frame 22 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:126258788-126258962

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ13861, FLJ36477, FLJ37830, MGC11349, DKFZp547N024

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables C2H2 zinc finger domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables LRR domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription coactivator activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables transcription coregulator activity 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

    Preferred Names
    zinc finger protein ZXDC
    Names
    SERH2790
    ZXD-like zinc finger protein

    NCBI Reference Sequences (RefSeq)

    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_001040653.4NP_001035743.1  zinc finger protein ZXDC isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons and its 3' terminal exon extends past a splice site that is used in variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC024558, AF131763, BC110644, BM686637, CB268797, DQ079590, FJ980275
      Consensus CDS
      CCDS43146.1
      UniProtKB/Swiss-Prot
      Q2QGD7
      Related
      ENSP00000337694.5, ENST00000336332.5
      Conserved Domains (3) summary
      COG5048
      Location:284443
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:333352
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam17017
      Location:208353
      zf-C2H2_aberr; Aberrant zinc-finger
    2. NM_025112.5NP_079388.3  zinc finger protein ZXDC isoform 1

      See identical proteins and their annotated locations for NP_079388.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC024558, DQ079590
      Consensus CDS
      CCDS43145.1
      UniProtKB/Swiss-Prot
      C5J0H9, Q2QGD7, Q6DKI8, Q7L3L1, Q8NAU2
      Related
      ENSP00000374359.3, ENST00000389709.8
      Conserved Domains (5) summary
      COG5048
      Location:284443
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:333352
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:208232
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:375401
      zf-H2C2_2; Zinc-finger double domain
      pfam17017
      Location:208353
      zf-C2H2_aberr; Aberrant zinc-finger

    RNA

    1. NR_104249.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal exon and uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC024558, AL390142, BC063713, DQ079590, FJ980275

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      126437601..126475891 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011513119.3XP_011511421.1  zinc finger protein ZXDC isoform X1

      Conserved Domains (5) summary
      sd00017
      Location:333352
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:208232
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:375401
      zf-H2C2_2; Zinc-finger double domain
      pfam15909
      Location:330408
      zf-C2H2_8; C2H2-type zinc ribbon
      pfam17017
      Location:208353
      zf-C2H2_aberr; Aberrant zinc-finger
    2. XM_006713741.3XP_006713804.1  zinc finger protein ZXDC isoform X2

      Conserved Domains (5) summary
      COG5048
      Location:284443
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:333352
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:208232
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:375401
      zf-H2C2_2; Zinc-finger double domain
      pfam17017
      Location:208353
      zf-C2H2_aberr; Aberrant zinc-finger
    3. XM_005247757.4XP_005247814.1  zinc finger protein ZXDC isoform X3

      Conserved Domains (4) summary
      COG5048
      Location:284443
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:333352
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:375401
      zf-H2C2_2; Zinc-finger double domain
      pfam17017
      Location:208353
      zf-C2H2_aberr; Aberrant zinc-finger
    4. XM_047448901.1XP_047304857.1  zinc finger protein ZXDC isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      129170156..129208446 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054347837.1XP_054203812.1  zinc finger protein ZXDC isoform X1

    2. XM_054347838.1XP_054203813.1  zinc finger protein ZXDC isoform X2

    3. XM_054347839.1XP_054203814.1  zinc finger protein ZXDC isoform X3

    4. XM_054347840.1XP_054203815.1  zinc finger protein ZXDC isoform X4