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

    Gene ID: 55279, updated on 10-Dec-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 metal ion binding activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 4.4), thyroid (RPKM 4.0) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See ZNF654 in Genome Data Viewer
    Location:
    3p11.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (88059255..88144660)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (88135096..88220495)
    RS_2024_09 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: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. A GO catalogue of human DNA-binding transcription factors. Lovering RC, et al. Biochim Biophys Acta Gene Regul Mech, 2021 Nov-Dec. PMID 34673265
    2. 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
    3. 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
    4. 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
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

    See all (6) 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

    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)

    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 DNA-binding transcription factor activity, RNA polymerase II-specific 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 DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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_2024_08

    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

    Gene LinkOut

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