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ZNF654 zinc finger protein 654 [ Homo sapiens (human) ]

Gene ID: 55279, updated on 5-Mar-2024

Summary

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Official Symbol
ZNF654provided by HGNC
Official Full Name
zinc finger protein 654provided by HGNC
Primary source
HGNC:HGNC:25612
See related
Ensembl:ENSG00000175105 AllianceGenome:HGNC:25612
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
Summary
Predicted to enable DNA binding activity and DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 4.4), thyroid (RPKM 4.0) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
3p11.1
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (88059255..88144660)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (88135096..88220495)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (88108405..88193810)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene 5-hydroxytryptamine receptor 1F Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:87963222-87964421 Neighboring gene RNA, U6atac small nuclear 6, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14545 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14546 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:88094831-88096030 Neighboring gene uncharacterized LOC128031834 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14547 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:88108555-88109114 Neighboring gene CGG triplet repeat binding protein 1 Neighboring gene chromobox 5 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:88198041-88198618 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14548 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20117 Neighboring gene chromosome 3 open reading frame 38 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20118 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20119 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20120 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:88279578-88280777 Neighboring gene uncharacterized LOC105377202 Neighboring gene ATP binding cassette subfamily F member 2 pseudogene 1

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. Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche. Perry JR, et al. Nature, 2014 Oct 2. PMID 25231870, Free PMC Article
  2. Systematic proteomics of endogenous human cohesin reveals an interaction with diverse splicing factors and RNA-binding proteins required for mitotic progression. Kim JS, et al. J Biol Chem, 2019 May 31. PMID 31010829, Free PMC Article
  3. SUMOylation of DDX39A Alters Binding and Export of Antiviral Transcripts to Control Innate Immunity. Shi P, et al. J Immunol, 2020 Jul 1. PMID 32393512
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  5. 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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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
EBI GWAS Catalog

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

  • FLJ10997, FLJ21142

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity NAS
Non-traceable Author Statement
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription 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 654
Names
melanoma-associated 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_001350134.2 → NP_001337063.1  zinc finger protein 654 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AA767937, AC119733, AC128650
    Consensus CDS
    CCDS87110.1
    UniProtKB/Swiss-Prot
    A0A1B0GWA0, Q8IZM8, Q9H791, Q9NV14
    Related
    ENSP00000490842.1, ENST00000636215.2
    Conserved Domains (2) summary
    sd00017
    Location:789 → 809
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:547 → 566
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. NM_001350135.2 → NP_001337064.1  zinc finger protein 654 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AA767937, AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:676 → 696
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:757 → 957
    KAR9; Yeast cortical protein KAR9

  3. NM_001350136.2 → NP_001337065.1  zinc finger protein 654 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AA767937, AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:577 → 597
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:658 → 858
    KAR9; Yeast cortical protein KAR9

  4. NM_001350137.2 → NP_001337066.1  zinc finger protein 654 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AA767937, AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:515 → 535
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:596 → 796
    KAR9; Yeast cortical protein KAR9

  5. NM_001366093.1 → NP_001353022.1  zinc finger protein 654 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:577 → 597
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:658 → 858
    KAR9; Yeast cortical protein KAR9

  6. NM_001366095.1 → NP_001353024.1  zinc finger protein 654 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:577 → 597
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:658 → 858
    KAR9; Yeast cortical protein KAR9

  7. NM_001366096.1 → NP_001353025.1  zinc finger protein 654 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:577 → 597
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:658 → 858
    KAR9; Yeast cortical protein KAR9

  8. NM_001366097.1 → NP_001353026.1  zinc finger protein 654 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC119733, AC128650
    Conserved Domains (2) summary
    sd00017
    Location:515 → 535
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:596 → 796
    KAR9; Yeast cortical protein KAR9

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    88059255..88144660
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017006789.3 → XP_016862278.1  zinc finger protein 654 isoform X1

  2. XM_017006791.3 → XP_016862280.1  zinc finger protein 654 isoform X2

  3. XM_047448514.1 → XP_047304470.1  zinc finger protein 654 isoform X3

  4. XM_024453623.2 → XP_024309391.1  zinc finger protein 654 isoform X4

    Conserved Domains (4) summary
    sd00017
    Location:515 → 535
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00019
    Location:273 → 292
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam08580
    Location:596 → 796
    KAR9; Yeast cortical protein KAR9
    pfam15909
    Location:543 → 595
    zf-C2H2_8; C2H2-type zinc ribbon

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    88135096..88220495
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054347170.1 → XP_054203145.1  zinc finger protein 654 isoform X1

  2. XM_054347171.1 → XP_054203146.1  zinc finger protein 654 isoform X2

  3. XM_054347172.1 → XP_054203147.1  zinc finger protein 654 isoform X3

  4. XM_054347173.1 → XP_054203148.1  zinc finger protein 654 isoform X4

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_018293.2: Suppressed sequence

    Description
    NM_018293.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.

  2. NM_032198.1: Suppressed sequence

    Description
    NM_032198.1: This RefSeq was temporarily suppressed because the CDS was partial.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8IZM8.4 GenPept UniProtKB/Swiss-Prot:Q8IZM8

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