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ZNF565 zinc finger protein 565 [ Homo sapiens (human) ]

Gene ID: 147929, updated on 5-Mar-2024

Summary

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Official Symbol
ZNF565provided by HGNC
Official Full Name
zinc finger protein 565provided by HGNC
Primary source
HGNC:HGNC:26726
See related
Ensembl:ENSG00000196357 MIM:614275; AllianceGenome:HGNC:26726
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 transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 2.4), brain (RPKM 1.4) and 25 other tissues See more
Orthologs
all
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Genomic context

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Location:
19q13.12
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (36182060..36245928, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (38727556..38794343, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36672962..36736830, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14518 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14519 Neighboring gene calpain small subunit 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36646245-36646976 Neighboring gene cytochrome c oxidase subunit 7A1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36678024-36678563 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36678564-36679102 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36683570-36684070 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36684071-36684571 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14521 Neighboring gene uncharacterized LOC107985304 Neighboring gene zinc finger protein 146 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36724474-36724976 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36724977-36725478 Neighboring gene MPRA-validated peak3458 silencer Neighboring gene MPRA-validated peak3459 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36735657-36736645 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:36736677-36736900 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:36737634-36738622 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36748697-36749315 Neighboring gene uncharacterized LOC124904707 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36759575-36760152 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36762631-36763222 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36770206-36770810 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36775291-36775913 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36786728-36787343 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36787344-36787958 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36790483-36791084 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36791085-36791685 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36793635-36794244 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36796811-36797424 Neighboring gene uncharacterized LOC100134317

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. The human cytoplasmic dynein interactome reveals novel activators of motility. Redwine WB, et al. Elife, 2017 Jul 18. PMID 28718761, Free PMC Article
  2. Cullin 3 Exon 9 Deletion in Familial Hyperkalemic Hypertension Impairs Cullin3-Ring-E3 Ligase (CRL3) Dynamic Regulation and Cycling. Kouranti I, et al. Int J Mol Sci, 2022 May 5. PMID 35563538, 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. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (7) 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

  • FLJ36991

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 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 565

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_001042474.2 → NP_001035939.1  zinc finger protein 565 isoform 1

    See identical proteins and their annotated locations for NP_001035939.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AC008848, DA766324
    Consensus CDS
    CCDS12491.1
    UniProtKB/Swiss-Prot
    Q8N9K5
    Related
    ENSP00000376013.1, ENST00000392173.6
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. NM_001366188.1 → NP_001353117.1  zinc finger protein 565 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AC008848, AC012617
    Consensus CDS
    CCDS12491.1
    Related
    ENSP00000347234.5, ENST00000355114.9
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

  3. NM_001366189.1 → NP_001353118.1  zinc finger protein 565 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AC008848, AC012617
    Consensus CDS
    CCDS12491.1
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

  4. NM_001366190.1 → NP_001353119.1  zinc finger protein 565 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and lacks a portion of the 5' coding region compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AC008848, AC012617
    Conserved Domains (2) summary
    COG5048
    Location:103 → 433
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:244 → 264
    ZF_C2H2; C2H2 Zn finger [structural motif]

  5. NM_152477.5 → NP_689690.3  zinc finger protein 565 isoform 1

    See identical proteins and their annotated locations for NP_689690.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-4 encode the same isoform (1).
    Source sequence(s)
    AC008848, CB960081, DA473136
    Consensus CDS
    CCDS12491.1
    UniProtKB/Swiss-Prot
    Q8N9K5
    Related
    ENSP00000306869.5, ENST00000304116.10
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

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
    36182060..36245928 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017026343.2 → XP_016881832.1  zinc finger protein 565 isoform X2

    Conserved Domains (2) summary
    COG5048
    Location:103 → 433
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:244 → 264
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. XM_011526512.3 → XP_011524814.1  zinc finger protein 565 isoform X1

    See identical proteins and their annotated locations for XP_011524814.1

    UniProtKB/Swiss-Prot
    Q8N9K5
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

  3. XM_011526514.3 → XP_011524816.1  zinc finger protein 565 isoform X1

    See identical proteins and their annotated locations for XP_011524816.1

    UniProtKB/Swiss-Prot
    Q8N9K5
    Conserved Domains (3) summary
    smart00349
    Location:6 → 66
    KRAB; krueppel associated box
    COG5048
    Location:193 → 498
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:309 → 329
    ZF_C2H2; C2H2 Zn finger [structural motif]

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    38727556..38794343 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054319919.1 → XP_054175894.1  zinc finger protein 565 isoform X2

  2. XM_054319917.1 → XP_054175892.1  zinc finger protein 565 isoform X1

  3. XM_054319918.1 → XP_054175893.1  zinc finger protein 565 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8N9K5.2 GenPept UniProtKB/Swiss-Prot:Q8N9K5

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