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    ZNF562 zinc finger protein 562 [ Homo sapiens (human) ]

    Gene ID: 54811, updated on 9-Dec-2024

    Summary

    Official Symbol
    ZNF562provided by HGNC
    Official Full Name
    zinc finger protein 562provided by HGNC
    Primary source
    HGNC:HGNC:25950
    See related
    Ensembl:ENSG00000171466 AllianceGenome:HGNC:25950
    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
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in esophagus (RPKM 4.1), urinary bladder (RPKM 3.4) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See ZNF562 in Genome Data Viewer
    Location:
    19p13.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (9641807..9675100, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (9768019..9801288, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (9752483..9785776, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 561 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:9731087-9731669 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13932 Neighboring gene ZNF561 antisense RNA 1 (head to head) Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:9784745-9785944 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:9785983-9786982 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:9791103-9791685 Neighboring gene ribosomal protein S4X pseudogene 22 Neighboring gene zinc finger protein 812, pseudogene

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ20079, MGC126160

    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 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
     
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    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_001130031.2NP_001123503.1  zinc finger protein 562 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer protein (isoform a). Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC008759, AI753280, BP221824, DC405554
      Consensus CDS
      CCDS45956.1
      UniProtKB/Swiss-Prot
      Q32MN2, Q6V9R5, Q9NXS5
      Related
      ENSP00000410734.1, ENST00000453372.7
      Conserved Domains (4) summary
      COG5048
      Location:258420
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:318338
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:181198
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:4081
      KRAB; KRAB box
    2. NM_001130032.2NP_001123504.1  zinc finger protein 562 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different splice site in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC008759, AI753280, BP221824, DC403290
      Consensus CDS
      CCDS45956.1
      UniProtKB/Swiss-Prot
      Q32MN2, Q6V9R5, Q9NXS5
      Conserved Domains (4) summary
      COG5048
      Location:258420
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:318338
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:181198
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:4081
      KRAB; KRAB box
    3. NM_001300885.2NP_001287814.1  zinc finger protein 562 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. It encodes isoform c, which is shorter by an amino acid, compared to isoform a.
      Source sequence(s)
      AC008759, AI753280, AK297446, AK304370, BC109062
      Consensus CDS
      CCDS74280.1
      UniProtKB/TrEMBL
      K7EIE6
      Related
      ENSP00000464716.1, ENST00000590155.5
      Conserved Domains (7) summary
      smart00349
      Location:4185
      KRAB; krueppel associated box
      COG5048
      Location:257419
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:317337
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:180197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:287309
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:4180
      KRAB; KRAB box
      pfam13465
      Location:358382
      zf-H2C2_2; Zinc-finger double domain
    4. NM_017656.4NP_060126.2  zinc finger protein 562 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks alternate segments in the 5' coding region, compared to variant 1. The resulting protein (isoform b) has a shorter N-terminus when it is compared to isoform a.
      Source sequence(s)
      AC008759, AI753280, AK000086, BP221824
      Consensus CDS
      CCDS12217.1
      UniProtKB/Swiss-Prot
      Q6V9R5
      Related
      ENSP00000293648.3, ENST00000293648.8
      Conserved Domains (3) summary
      COG5048
      Location:186348
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:246266
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:287311
      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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      9641807..9675100 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047438996.1XP_047294952.1  zinc finger protein 562 isoform X3

    2. XM_047438995.1XP_047294951.1  zinc finger protein 562 isoform X2

    3. XM_017026898.3XP_016882387.1  zinc finger protein 562 isoform X1

      UniProtKB/TrEMBL
      K7EIE6
      Conserved Domains (7) summary
      smart00349
      Location:4185
      KRAB; krueppel associated box
      COG5048
      Location:257419
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:317337
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:180197
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:287309
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:4180
      KRAB; KRAB box
      pfam13465
      Location:358382
      zf-H2C2_2; Zinc-finger double domain
    4. XM_047438994.1XP_047294950.1  zinc finger protein 562 isoform X1

      UniProtKB/TrEMBL
      K7EIE6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      9768019..9801288 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321307.1XP_054177282.1  zinc finger protein 562 isoform X3

    2. XM_054321306.1XP_054177281.1  zinc finger protein 562 isoform X2

    3. XM_054321304.1XP_054177279.1  zinc finger protein 562 isoform X1

      UniProtKB/TrEMBL
      K7EIE6
    4. XM_054321305.1XP_054177280.1  zinc finger protein 562 isoform X1

      UniProtKB/TrEMBL
      K7EIE6