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    ZNF90 zinc finger protein 90 [ Homo sapiens (human) ]

    Gene ID: 7643, updated on 28-Oct-2024

    Summary

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    Official Symbol
    ZNF90provided by HGNC
    Official Full Name
    zinc finger protein 90provided by HGNC
    Primary source
    HGNC:HGNC:13165
    See related
    Ensembl:ENSG00000213988 MIM:603973; AllianceGenome:HGNC:13165
    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
    HTF9
    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 DNA-templated transcription. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in ovary (RPKM 9.1), lymph node (RPKM 5.0) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF90 in Genome Data Viewer
    Location:
    19p12
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (20078000..20121168)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (20215342..20258518)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (20188809..20231974)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372309 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:20162158-20162885 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:20162886-20163612 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:20169525-20170470 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:20170471-20171415 Neighboring gene NANOG hESC enhancer GRCh37_chr19:20178612-20179200 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr19:20179535-20180280 Neighboring gene BCL2 interacting protein 3 pseudogene 13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14377 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:20192845-20193700 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:20198007-20198606 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:20198607-20199204 Neighboring gene ribosomal protein S8 pseudogene 11 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr19:20207138-20207678 Neighboring gene BCL2 interacting protein 3 pseudogene 14 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr19:20211914-20213113 Neighboring gene uncharacterized LOC105372310 Neighboring gene uncharacterized LOC124904662 Neighboring gene ribosomal protein S16 pseudogene 10

    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. The evolutionarily conserved Krüppel-associated box domain defines a subfamily of eukaryotic multifingered proteins. Bellefroid EJ, et al. Proc Natl Acad Sci U S A, 1991 May 1. PMID 2023909, Free PMC Article
    2. Clustered organization of homologous KRAB zinc-finger genes with enhanced expression in human T lymphoid cells. Bellefroid EJ, et al. EMBO J, 1993 Apr. PMID 8467795, Free PMC Article
    3. The polyproline-motif of S6K2: eIF5A translational dependence and importance for protein-protein interactions. Meneguello L, et al. J Cell Biochem, 2019 Apr. PMID 30320934
    4. Acetylation-Mimic Mutation of TRIM28-Lys304 to Gln Attenuates the Interaction with KRAB-Zinc-Finger Proteins and Affects Gene Expression in Leukemic K562 Cells. Chang YJ, et al. Int J Mol Sci, 2023 Jun 6. PMID 37372979, Free PMC Article
    5. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    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 zinc ion binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    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 protein 90
    Names
    zinc finger protein HTF9

    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_007138.2 → NP_009069.1  zinc finger protein 90

      See identical proteins and their annotated locations for NP_009069.1

      Status: VALIDATED

      Source sequence(s)
      AC006539, AC011447, BX102781, CN386341
      Consensus CDS
      CCDS46028.1
      UniProtKB/Swiss-Prot
      B9EH87, Q03938
      Related
      ENSP00000410466.2, ENST00000418063.3
      Conserved Domains (5) summary
      smart00349
      Location:4 → 62
      KRAB; krueppel associated box
      COG5048
      Location:170 → 501
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:511 → 531
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:6 → 43
      KRAB; KRAB box
      pfam13465
      Location:356 → 380
      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
      20078000..20121168
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047439360.1 → XP_047295316.1  zinc finger protein 90 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      20215342..20258518
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321996.1 → XP_054177971.1  zinc finger protein 90 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q03938.3 GenPept UniProtKB/Swiss-Prot:Q03938

    Gene LinkOut

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

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