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

Gene ID: 7643, updated on 5-Mar-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 transcription, DNA-templated. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
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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Location:
19p12
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (20078000..20121168)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (20215342..20258518)
105.20220307 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
  • 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. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  5. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Brandenberger R, et al. Nat Biotechnol, 2004 Jun. PMID 15146197

See all (8) 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_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
    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

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