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

Gene ID: 649137, updated on 5-Mar-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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Location:
19q13.43
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (56202273..56209461)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (59301052..59308240)
105.20220307 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
  • 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_2023_10

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