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

Gene ID: 54811, updated on 6-Sep-2022

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 transcription, DNA-templated. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in esophagus (RPKM 4.1), urinary bladder (RPKM 3.4) and 25 other tissues See more
Orthologs
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Genomic context

See ZNF562 in Genome Data Viewer
Location:
19p13.2
Exon count:
7
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (9641807..9675100, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (9768019..9801288, complement)
105.20220307 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 ZNF561 antisense RNA 1 (head to head) 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

Homology

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
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
PubMed 
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)

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

    See identical proteins and their annotated locations for NP_001123503.1

    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
    Q6V9R5, Q9NXS5
    UniProtKB/TrEMBL
    A0A024R7A3
    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

    See identical proteins and their annotated locations for NP_001123504.1

    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
    Q6V9R5, Q9NXS5
    UniProtKB/TrEMBL
    A0A024R7A3
    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/Swiss-Prot
    Q6V9R5
    UniProtKB/TrEMBL
    B4DMG0, B4E2P7, 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

    See identical proteins and their annotated locations for NP_060126.2

    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: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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)