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    ZSCAN5C zinc finger and SCAN domain containing 5C [ Homo sapiens (human) ]

    Gene ID: 649137, updated on 17-Sep-2024

    Summary

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    Official Symbol
    ZSCAN5Cprovided by HGNC
    Official Full Name
    zinc finger and SCAN domain containing 5Cprovided by HGNC
    Primary source
    HGNC:HGNC:34294
    See related
    Ensembl:ENSG00000204532 AllianceGenome:HGNC:34294
    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
    ZNF495C; ZSCAN5CP
    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 located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See ZSCAN5C in Genome Data Viewer
    Location:
    19q13.43
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (56202273..56209461)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (59301052..59308240)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (56713642..56720830)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:56687063-56687613 Neighboring gene CRISPRi-validated cis-regulatory element chr19.6329 Neighboring gene galanin like peptide Neighboring gene zinc finger and SCAN domain containing 5B Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51953 Neighboring gene ribosomal protein L13 pseudogene 13 Neighboring gene uncharacterized LOC124904774 Neighboring gene zinc finger and SCAN domain containing 5A Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:56747404-56748603

    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. ZSCAN5B and primate-specific paralogs bind RNA polymerase III genes and extra-TFIIIC (ETC) sites to modulate mitotic progression. Sun Y, et al. Oncotarget, 2016 Nov 8. PMID 27732952, Free PMC Article
    2. The DNA sequence and biology of human chromosome 19. Grimwood J, et al. Nature, 2004 Apr 1. PMID 15057824
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    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

    General gene information

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    Homology

    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
    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 5C
    Names
    putative zinc finger and SCAN domain-containing protein 5C
    zinc finger and SCAN domain containing 5C, pseudogene
    zinc finger and SCAN domain-containing protein 5-like protein 2
    zinc finger and SCAN domain-containing protein 5C pseudogene

    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_001358413.3 → NP_001345342.1  zinc finger and SCAN domain-containing protein 5C

      Status: VALIDATED

      Source sequence(s)
      AC011506
      Consensus CDS
      CCDS86811.1
      UniProtKB/Swiss-Prot
      A6NGD5
      Related
      ENSP00000435234.1, ENST00000534327.7
      Conserved Domains (5) summary
      cd07936
      Location:40 → 124
      SCAN; SCAN oligomerization domain
      COG5048
      Location:410 → 473
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:414 → 434
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:468 → 490
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:371 → 393
      zf-H2C2_2; Zinc-finger double domain

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      56202273..56209461
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047439230.1 → XP_047295186.1  zinc finger and SCAN domain-containing protein 5C isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      59301052..59308240
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321784.1 → XP_054177759.1  zinc finger and SCAN domain-containing protein 5C isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NG_012782.2: Suppressed sequence

      Description
      NG_012782.2: This RefSeq was removed because it is now thought that this locus encodes a protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A6NGD5.1 GenPept UniProtKB/Swiss-Prot:A6NGD5

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials