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ZSCAN21 zinc finger and SCAN domain containing 21 [ Homo sapiens (human) ]

Gene ID: 7589, updated on 2-Nov-2024

Summary

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Official Symbol
ZSCAN21provided by HGNC
Official Full Name
zinc finger and SCAN domain containing 21provided by HGNC
Primary source
HGNC:HGNC:13104
See related
Ensembl:ENSG00000166529 MIM:601261; AllianceGenome:HGNC:13104
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
ZNF38; Zipro1; NY-REN-21
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis (RPKM 4.9), endometrium (RPKM 3.1) and 25 other tissues See more
Orthologs
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Genomic context

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See ZSCAN21 in Genome Data Viewer
Location:
7q22.1
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (100049774..100065040)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101289272..101304549)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99647397..99662663)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375423 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26331 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26332 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:99601306-99601806 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99604826-99605326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99605327-99605827 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99607545-99608044 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18412 Neighboring gene zinc finger with KRAB and SCAN domains 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99634953-99635454 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99635455-99635954 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99647299-99647918 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26333 Neighboring gene Sharpr-MPRA regulatory region 7718 Neighboring gene zinc finger protein 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26334 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99679591-99680572 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:99684712-99685405 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18414 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:99686990-99688189 Neighboring gene Sharpr-MPRA regulatory region 1952 Neighboring gene COP9 signalosome subunit 6 Neighboring gene microRNA 25 Neighboring gene minichromosome maintenance complex component 7

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 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. Spectroscopic characterization of the tumor antigen NY-REN-21 and identification of heterodimer formation with SCAND1. Carneiro FR, et al. Biochem Biophys Res Commun, 2006 Apr 28. PMID 16540086
  2. Chromosomal localization of two KOX zinc finger genes on chromosome bands 7q21-q22. Rousseau-Merck MF, et al. Ann Genet, 1995. PMID 7486829
  3. The E3 Ubiquitin Ligases TRIM17 and TRIM41 Modulate α-Synuclein Expression by Regulating ZSCAN21. Lassot I, et al. Cell Rep, 2018 Nov 27. PMID 30485814
  4. Functional dissection of the alpha-synuclein promoter: transcriptional regulation by ZSCAN21 and ZNF219. Clough RL, et al. J Neurochem, 2009 Sep. PMID 19549071
  5. Twenty-seven nonoverlapping zinc finger cDNAs from human T cells map to nine different chromosomes with apparent clustering. Huebner K, et al. Am J Hum Genet, 1991 Apr. PMID 2014798, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. deregulation of the TRIM17/TRIM41/ZSCAN21 pathway may be involved in the pathogenesis of Parkinson's disease.
    Title: The E3 Ubiquitin Ligases TRIM17 and TRIM41 Modulate α-Synuclein Expression by Regulating ZSCAN21.
  2. This result indicates that NY-REN-21 can function either as a homodimer or as a heterodimer with SCAND1.
    Title: Spectroscopic characterization of the tumor antigen NY-REN-21 and identification of heterodimer formation with SCAND1.
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

  • DKFZp434L134, DKFZp686H10254

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
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 RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
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 cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in male meiosis I ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis ISS
Inferred from Sequence or Structural Similarity
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 21
Names
renal carcinoma antigen NY-REN-21
zfp-38
zinc finger protein 38 (KOX 25)
zinc finger protein 38 homolog
zinc finger protein NY-REN-21 antigen

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_001362779.2 → NP_001349708.1  zinc finger and SCAN domain-containing protein 21 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC093619, BC047309, BI764964, BM991519
    Consensus CDS
    CCDS5681.1
    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
    Conserved Domains (4) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region
    COG5048
    Location:276 → 453
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:390 → 410
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:446 → 466
    zf-C2H2; Zinc finger, C2H2 type

  2. NM_001362780.2 → NP_001349709.1  zinc finger and SCAN domain-containing protein 21 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC093619, BC047309, BI764964, BM991519
    Consensus CDS
    CCDS5681.1
    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
    Conserved Domains (4) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region
    COG5048
    Location:276 → 453
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:390 → 410
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:446 → 466
    zf-C2H2; Zinc finger, C2H2 type

  3. NM_001362781.2 → NP_001349710.1  zinc finger and SCAN domain-containing protein 21 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC093619, BC047309, BI764964, BM991519
    Consensus CDS
    CCDS87526.1
    UniProtKB/TrEMBL
    B3KQP7, G3V0F4
    Related
    ENSP00000390960.2, ENST00000456748.6
    Conserved Domains (1) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region

  4. NM_145914.3 → NP_666019.1  zinc finger and SCAN domain-containing protein 21 isoform 1

    See identical proteins and their annotated locations for NP_666019.1

    Status: VALIDATED

    Source sequence(s)
    AC093619, BC047309, BI764964, BM991519
    Consensus CDS
    CCDS5681.1
    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
    Related
    ENSP00000292450.4, ENST00000292450.9
    Conserved Domains (4) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region
    COG5048
    Location:276 → 453
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:390 → 410
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:446 → 466
    zf-C2H2; Zinc finger, C2H2 type

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    100049774..100065040
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005250568.5 → XP_005250625.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    See identical proteins and their annotated locations for XP_005250625.1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
    Conserved Domains (4) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region
    COG5048
    Location:276 → 453
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:390 → 410
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:446 → 466
    zf-C2H2; Zinc finger, C2H2 type

  2. XM_047420807.1 → XP_047276763.1  zinc finger and SCAN domain-containing protein 21 isoform X2

    UniProtKB/TrEMBL
    G3V0F4

  3. XM_047420806.1 → XP_047276762.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6

  4. XM_006716113.4 → XP_006716176.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    See identical proteins and their annotated locations for XP_006716176.1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
    Conserved Domains (4) summary
    smart00431
    Location:42 → 153
    SCAN; leucine rich region
    COG5048
    Location:276 → 453
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:390 → 410
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:446 → 466
    zf-C2H2; Zinc finger, C2H2 type

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    101289272..101304549
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358950.1 → XP_054214925.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6

  2. XM_054358951.1 → XP_054214926.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6

  3. XM_054358952.1 → XP_054214927.1  zinc finger and SCAN domain-containing protein 21 isoform X1

    UniProtKB/Swiss-Prot
    A4D2A6, D6W5T9, Q9H0B5, Q9Y5A6
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Y5A6.2 GenPept UniProtKB/Swiss-Prot:Q9Y5A6

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