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ZSCAN23 zinc finger and SCAN domain containing 23 [ Homo sapiens (human) ]

Gene ID: 222696, updated on 7-Apr-2024

Summary

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Official Symbol
ZSCAN23provided by HGNC
Official Full Name
zinc finger and SCAN domain containing 23provided by HGNC
Primary source
HGNC:HGNC:21193
See related
Ensembl:ENSG00000187987 AllianceGenome:HGNC:21193
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
Also known as
ZNF390; ZNF453; dJ29K1.3; dJ29K1.3.1
Summary
Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
all
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Genomic context

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Location:
6p22.1
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28421400..28443491, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (28290130..28314932, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (28400432..28411268, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene zinc finger protein 968, pseudogene Neighboring gene RNA, U2 small nuclear 45, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:28384184-28384684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:28384685-28385185 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:28390954-28392153 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:28411067-28411577 Neighboring gene COX11 pseudogene 1 Neighboring gene olfactory receptor family 2 subfamily E member 1 pseudogene

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. Preliminary RNA-Seq Analysis of Long Non-Coding RNAs Expressed in Human Term Placenta. Majewska M, et al. Int J Mol Sci, 2018 Jun 27. PMID 29954144, Free PMC Article
  2. A conserved acetylation switch enables pharmacological control of tubby-like protein stability. Kerek EM, et al. J Biol Chem, 2021 Jan-Jun. PMID 33187986, Free PMC Article
  3. A human skeletal muscle interactome centered on proteins involved in muscular dystrophies: LGMD interactome. Blandin G, et al. Skelet Muscle, 2013 Feb 15. PMID 23414517, Free PMC Article
  4. Impact of cytosine methylation on DNA binding specificities of human transcription factors. Yin Y, et al. Science, 2017 May 5. PMID 28473536, Free PMC Article
  5. The DNA sequence and analysis of human chromosome 6. Mungall AJ, et al. Nature, 2003 Oct 23. PMID 14574404

See all (14) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Epigenetic silencing ZSCAN23 promotes pancreatic cancer growth by activating Wnt signaling.
    Title: Epigenetic silencing ZSCAN23 promotes pancreatic cancer growth by activating Wnt signaling.
Submit: New GeneRIF Correction

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

  • FLJ99276, MGC126606, MGC126608

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
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
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
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger and SCAN domain-containing protein 23
Names
zinc finger protein 390
zinc finger protein 453

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_001012455.2 → NP_001012458.1  zinc finger and SCAN domain-containing protein 23

    See identical proteins and their annotated locations for NP_001012458.1

    Status: VALIDATED

    Source sequence(s)
    AL833347, BX283350, Z98745
    Consensus CDS
    CCDS47393.1
    UniProtKB/Swiss-Prot
    Q3MJ62, Q96KV9
    Related
    ENSP00000289788.4, ENST00000289788.5
    Conserved Domains (6) summary
    smart00431
    Location:44 → 156
    SCAN; leucine rich region
    COG5048
    Location:215 → 384
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:251 → 271
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:249 → 271
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:45 → 132
    SCAN; SCAN domain
    pfam13465
    Location:264 → 288
    zf-H2C2_2; Zinc-finger double domain

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    28421400..28443491 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047418384.1 → XP_047274340.1  zinc finger and SCAN domain-containing protein 23 isoform X1

    UniProtKB/Swiss-Prot
    Q3MJ62, Q96KV9

RNA

  1. XR_007059226.1 RNA Sequence

  2. XR_007059223.1 RNA Sequence

  3. XR_007059224.1 RNA Sequence

  4. XR_007059225.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    28290130..28314932 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054354667.1 → XP_054210642.1  zinc finger and SCAN domain-containing protein 23 isoform X1

    UniProtKB/Swiss-Prot
    Q3MJ62, Q96KV9

RNA

  1. XR_008487284.1 RNA Sequence

  2. XR_008487281.1 RNA Sequence

  3. XR_008487282.1 RNA Sequence

  4. XR_008487283.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3MJ62.1 GenPept UniProtKB/Swiss-Prot:Q3MJ62

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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