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

    Gene ID: 7589, updated on 28-Oct-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, Oct 2024]
    Expression
    Ubiquitous expression in testis (RPKM 4.9), endometrium (RPKM 3.1) and 25 other tissues See more
    Orthologs
    mouse all
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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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