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

Gene ID: 147837, updated on 5-Mar-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, Apr 2022]
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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Location:
19p13.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (12317477..12347390, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (12445840..12475737, complement)
105.20220307 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: 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. 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. 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
  3. 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
  4. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (10) 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

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_2023_10

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

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