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    ZFP64 ZFP64 zinc finger protein [ Homo sapiens (human) ]

    Gene ID: 55734, updated on 9-Dec-2024

    Summary

    Official Symbol
    ZFP64provided by HGNC
    Official Full Name
    ZFP64 zinc finger proteinprovided by HGNC
    Primary source
    HGNC:HGNC:15940
    See related
    Ensembl:ENSG00000020256 MIM:618111; AllianceGenome:HGNC:15940
    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
    ZNF338
    Summary
    Predicted to enable DNA binding activity and metal ion binding activity. Involved in mesenchymal cell differentiation. Located in cytoplasm and megasporocyte nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 2.7), ovary (RPKM 2.2) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See ZFP64 in Genome Data Viewer
    Location:
    20q13.2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (52084011..52191779, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (53855448..53963220, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (50700550..50808318, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr20:50523831-50524007 Neighboring gene RNA, U6 small nuclear 347, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50573503-50574010 Neighboring gene RNA, U7 small nuclear 6 pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50576428-50577262 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50577263-50578095 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50585067-50585568 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50585569-50586068 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:50664393-50664912 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:50664913-50665430 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:50665431-50665949 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:50665950-50666467 Neighboring gene uncharacterized LOC105372664 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:50721212-50722180 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:50722181-50723147 Neighboring gene endoplasmic reticulum lumenal protein 29 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13043 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18117 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr20:50803075-50803576 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:50807173-50808029 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18118 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:50820158-50820351 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr20:50825698-50826328 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:50826513-50827047 Neighboring gene uncharacterized LOC105372666 Neighboring gene uncharacterized LOC107985427 Neighboring gene uncharacterized LOC105372667

    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?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
    EBI GWAS Catalog
    Genome-wide genotyping in amyotrophic lateral sclerosis and neurologically normal controls: first stage analysis and public release of data.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC940

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    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 mesenchymal cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive 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 megasporocyte nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    zinc finger protein 64
    Names
    zinc finger protein 338
    zinc finger protein 64 homolog

    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_001319146.2NP_001306075.1  zinc finger protein 64 isoform e

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) represents the use of a downstream promoter and therefore differs in the 5' UTR and 5' coding region compared to variant 4. These differences cause translation initiation at an alternate start codon and result in an isoform (e) with a shorter and distinct N-terminus compared to isoform d.
      Source sequence(s)
      AK022690, BC021087, DA731353
      Consensus CDS
      CCDS82630.1
      UniProtKB/Swiss-Prot
      Q9NTW7
      Related
      ENSP00000360578.4, ENST00000371523.8
      Conserved Domains (3) summary
      COG5048
      Location:95226
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:113133
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:278298
      ZF_C2H2; C2H2 Zn finger [structural motif]
    2. NM_018197.3NP_060667.2  zinc finger protein 64 isoform a

      See identical proteins and their annotated locations for NP_060667.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks several exons and includes an alternate 3' terminal exon resulting in a novel 3' coding region and 3' UTR compared to variant 4. The encoded isoform (a) has a longer and distinct C-terminus compared to isoform d.
      Source sequence(s)
      AK001744, BC041622
      Consensus CDS
      CCDS13440.1
      UniProtKB/Swiss-Prot
      Q9NPA5
      Related
      ENSP00000216923.4, ENST00000216923.5
      Conserved Domains (4) summary
      COG5048
      Location:151450
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:177197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:161186
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:425450
      zf-C2H2_6; C2H2-type zinc finger
    3. NM_022088.5NP_071371.3  zinc finger protein 64 isoform b

      See identical proteins and their annotated locations for NP_071371.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, lacks several exons and includes an alternate 3' terminal exon resulting in a novel 3' coding region and 3' UTR compared to variant 4. The encoded isoform (b) is shorter and has a distinct C-terminus compared to isoform d.
      Source sequence(s)
      AK001744, BC012759
      Consensus CDS
      CCDS13441.1
      UniProtKB/Swiss-Prot
      Q9NPA5
      Related
      ENSP00000344615.4, ENST00000346617.8
      Conserved Domains (4) summary
      COG5048
      Location:97396
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:123143
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:107132
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:371396
      zf-C2H2_6; C2H2-type zinc finger
    4. NM_199426.2NP_955458.1  zinc finger protein 64 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region, lacks several exons, and includes an alternate 3' terminal exon resulting in a novel 3' coding region and 3' UTR compared to variant 4. The encoded isoform (c) is longer and has a distinct C-terminus compared to isoform d.
      Source sequence(s)
      AK001744, BC012759, BC031524, BC041622
      Consensus CDS
      CCDS13442.1
      UniProtKB/Swiss-Prot
      Q9NPA5
      Related
      ENSP00000360570.4, ENST00000371515.8
      Conserved Domains (4) summary
      COG5048
      Location:149448
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:175195
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:159184
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:423448
      zf-C2H2_6; C2H2-type zinc finger
    5. NM_199427.3NP_955459.2  zinc finger protein 64 isoform d

      See identical proteins and their annotated locations for NP_955459.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) encodes isoform d.
      Source sequence(s)
      AL109984, BC012759, BC021087
      Consensus CDS
      CCDS13439.1
      UniProtKB/Swiss-Prot
      A2A2N4, Q53H69, Q53XQ1, Q5JWM0, Q5JWM1, Q8WU98, Q9H9P1, Q9NPA5, Q9NTS7, Q9NTW7, Q9NVH4
      Related
      ENSP00000355179.2, ENST00000361387.6
      Conserved Domains (3) summary
      COG5048
      Location:172603
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:177197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:497517
      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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      52084011..52191779 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047440285.1XP_047296241.1  zinc finger protein 64 isoform X4

    2. XM_017027945.3XP_016883434.1  zinc finger protein 64 isoform X1

    3. XM_017027947.3XP_016883436.1  zinc finger protein 64 isoform X3

      Conserved Domains (3) summary
      COG5048
      Location:118549
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:123143
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:262287
      zf-H2C2_2; Zinc-finger double domain
    4. XM_006723822.3XP_006723885.1  zinc finger protein 64 isoform X6

      Conserved Domains (3) summary
      COG5048
      Location:117248
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:135155
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:119144
      zf-H2C2_2; Zinc-finger double domain
    5. XM_017027946.3XP_016883435.1  zinc finger protein 64 isoform X2

    6. XM_047440286.1XP_047296242.1  zinc finger protein 64 isoform X5

      UniProtKB/TrEMBL
      B3KQX0
    7. XM_005260449.2XP_005260506.1  zinc finger protein 64 isoform X5

      See identical proteins and their annotated locations for XP_005260506.1

      UniProtKB/TrEMBL
      B3KQX0
      Conserved Domains (4) summary
      COG5048
      Location:26292
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:1939
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:328
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:267292
      zf-C2H2_6; C2H2-type zinc finger
    8. XM_017027948.3XP_016883437.1  zinc finger protein 64 isoform X5

      UniProtKB/TrEMBL
      B3KQX0
      Conserved Domains (4) summary
      COG5048
      Location:26292
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:1939
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:328
      zf-H2C2_2; Zinc-finger double domain
      pfam13912
      Location:267292
      zf-C2H2_6; C2H2-type zinc finger

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      53855448..53963220 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323673.1XP_054179648.1  zinc finger protein 64 isoform X4

    2. XM_054323670.1XP_054179645.1  zinc finger protein 64 isoform X1

    3. XM_054323672.1XP_054179647.1  zinc finger protein 64 isoform X3

    4. XM_054323677.1XP_054179652.1  zinc finger protein 64 isoform X6

    5. XM_054323671.1XP_054179646.1  zinc finger protein 64 isoform X2

    6. XM_054323676.1XP_054179651.1  zinc finger protein 64 isoform X5

      UniProtKB/TrEMBL
      B3KQX0
    7. XM_054323675.1XP_054179650.1  zinc finger protein 64 isoform X5

      UniProtKB/TrEMBL
      B3KQX0
    8. XM_054323674.1XP_054179649.1  zinc finger protein 64 isoform X5

      UniProtKB/TrEMBL
      B3KQX0