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    ZNF563 zinc finger protein 563 [ Homo sapiens (human) ]

    Gene ID: 147837, updated on 10-Dec-2024

    Summary

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    Official Symbol
    ZNF563provided by HGNC
    Official Full Name
    zinc finger protein 563provided by HGNC
    Primary source
    HGNC:HGNC:30498
    See related
    Ensembl:ENSG00000188868 AllianceGenome:HGNC:30498
    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 transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in testis (RPKM 5.0), prostate (RPKM 2.0) and 22 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF563 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 (12317477..12347390, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (12445840..12475737, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (12428291..12444447, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 44 Neighboring gene ribosomal protein L28 pseudogene 5 Neighboring gene MPRA-validated peak3363 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10146 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14048 Neighboring gene ribosomal protein S2 pseudogene 53 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14049 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14050 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14051 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:12444503-12445368 Neighboring gene zinc finger protein 442 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14052 Neighboring gene ribosomal protein S29 pseudogene 23 Neighboring gene NANOG hESC enhancer GRCh37_chr19:12501177-12501678 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14053 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10149 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14054 Neighboring gene zinc finger protein 799

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Dependence of Human Colorectal Cells Lacking the FBW7 Tumor Suppressor on the Spindle Assembly Checkpoint. Bailey ML, et al. Genetics, 2015 Nov. PMID 26354767, Free PMC Article
    2. Acetylation-Mimic Mutation of TRIM28-Lys304 to Gln Attenuates the Interaction with KRAB-Zinc-Finger Proteins and Affects Gene Expression in Leukemic K562 Cells. Chang YJ, et al. Int J Mol Sci, 2023 Jun 6. PMID 37372979, Free PMC Article
    3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Lamesch P, et al. Genomics, 2007 Mar. PMID 17207965, Free PMC Article
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
    5. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article

    See all (11) 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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ34797

    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 transcription 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 
    Process Evidence Code Pubs
    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 563

    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_001363608.1 → NP_001350537.1  zinc finger protein 563 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC012618, BC022523
      Consensus CDS
      CCDS86706.1
      UniProtKB/TrEMBL
      A0A0C4DGQ9
      Related
      ENSP00000469879.1, ENST00000595977.5
      Conserved Domains (3) summary
      sd00017
      Location:143 → 163
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:169 → 188
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:4 → 40
      KRAB; KRAB box

    2. NM_145276.3 → NP_660319.1  zinc finger protein 563 isoform 1

      See identical proteins and their annotated locations for NP_660319.1

      Status: VALIDATED

      Source sequence(s)
      AC012618, BC022523
      Consensus CDS
      CCDS12270.1
      UniProtKB/Swiss-Prot
      B2R9E7, Q8NAT7, Q8TA94
      Related
      ENSP00000293725.5, ENST00000293725.10
      Conserved Domains (3) summary
      COG5048
      Location:194 → 472
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:227 → 247
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:4 → 40
      KRAB; KRAB box

    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
      12317477..12347390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011527700.3 → XP_011526002.1  zinc finger protein 563 isoform X2

      See identical proteins and their annotated locations for XP_011526002.1

      Conserved Domains (3) summary
      COG5048
      Location:157 → 435
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:190 → 210
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:175 → 197
      zf-H2C2_2; Zinc-finger double domain

    2. XM_005259750.5 → XP_005259807.1  zinc finger protein 563 isoform X4

      Conserved Domains (5) summary
      smart00349
      Location:4 → 40
      KRAB; krueppel associated box
      COG5048
      Location:47 → 238
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:81 → 101
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:4 → 40
      KRAB; KRAB box
      pfam13465
      Location:96 → 117
      zf-H2C2_2; Zinc-finger double domain

    3. XM_011527699.3 → XP_011526001.1  zinc finger protein 563 isoform X2

      See identical proteins and their annotated locations for XP_011526001.1

      Conserved Domains (3) summary
      COG5048
      Location:157 → 435
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:190 → 210
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:175 → 197
      zf-H2C2_2; Zinc-finger double domain

    4. XM_011527698.3 → XP_011526000.1  zinc finger protein 563 isoform X1

      Conserved Domains (3) summary
      COG5048
      Location:162 → 440
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:195 → 215
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:180 → 202
      zf-H2C2_2; Zinc-finger double domain

    5. XM_006722651.4 → XP_006722714.1  zinc finger protein 563 isoform X3

      Conserved Domains (5) summary
      smart00349
      Location:4 → 40
      KRAB; krueppel associated box
      COG5048
      Location:138 → 416
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:171 → 191
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:4 → 40
      KRAB; KRAB box
      pfam13465
      Location:156 → 178
      zf-H2C2_2; Zinc-finger double domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      12445840..12475737 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054319883.1 → XP_054175858.1  zinc finger protein 563 isoform X2

    2. XM_054319886.1 → XP_054175861.1  zinc finger protein 563 isoform X4

    3. XM_054319885.1 → XP_054175860.1  zinc finger protein 563 isoform X3

    4. XM_054319884.1 → XP_054175859.1  zinc finger protein 563 isoform X2

    5. XM_054319882.1 → XP_054175857.1  zinc finger protein 563 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8TA94.1 GenPept UniProtKB/Swiss-Prot:Q8TA94

    Gene LinkOut

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