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    ZNF439 zinc finger protein 439 [ Homo sapiens (human) ]

    Gene ID: 90594, updated on 10-Dec-2024

    Summary

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    Official Symbol
    ZNF439provided by HGNC
    Official Full Name
    zinc finger protein 439provided by HGNC
    Primary source
    HGNC:HGNC:20873
    See related
    Ensembl:ENSG00000171291 AllianceGenome:HGNC:20873
    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 transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in lymph node (RPKM 4.2), skin (RPKM 4.0) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF439 in Genome Data Viewer
    Location:
    19p13.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (11848726..11869486)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (11976933..11997694)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (11959541..11980301)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10134 Neighboring gene zinc finger protein 440 Neighboring gene vomeronasal 2 receptor 13 pseudogene Neighboring gene Sharpr-MPRA regulatory region 10901 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14036 Neighboring gene vomeronasal 2 receptor 14 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14037 Neighboring gene zinc finger protein 69 Neighboring gene zinc finger protein 440-like

    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. HiPLA: High-throughput imaging proximity ligation assay. Serebryannyy LA, et al. Methods, 2019 Mar 15. PMID 30419336, Free PMC Article
    2. Systematic identification of pathological lamin A interactors. Dittmer TA, et al. Mol Biol Cell, 2014 May. PMID 24623722, Free PMC Article
    3. Assessment of community efforts to advance network-based prediction of protein-protein interactions. Wang XW, et al. Nat Commun, 2023 Mar 22. PMID 36949045, Free PMC Article
    4. Next-generation sequencing to generate interactome datasets. Yu H, et al. Nat Methods, 2011 Jun. PMID 21516116, Free PMC Article
    5. Chr21 protein-protein interactions: enrichment in proteins involved in intellectual disability, autism, and late-onset Alzheimer's disease. Viard J, et al. Life Sci Alliance, 2022 Aug 1. PMID 35914814, Free PMC Article

    See all (14) 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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp571K0837

    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 transcription 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
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 439

    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_001348718.2 → NP_001335647.1  zinc finger protein 439 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AC008543, AC020951
      Conserved Domains (3) summary
      COG5048
      Location:321 → 492
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:392 → 412
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:26 → 67
      KRAB; KRAB box

    2. NM_001348719.2 → NP_001335648.1  zinc finger protein 439 isoform b

      Status: VALIDATED

      Source sequence(s)
      AC008543, AC020951
      Consensus CDS
      CCDS92520.1
      UniProtKB/TrEMBL
      A0A804HI69
      Related
      ENSP00000506930.1, ENST00000682736.1
      Conserved Domains (3) summary
      COG5048
      Location:318 → 489
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:389 → 409
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:23 → 64
      KRAB; KRAB box

    3. NM_001348720.2 → NP_001335649.1  zinc finger protein 439 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4), as well as variant 5, encodes isoform d.
      Source sequence(s)
      AC008543, AC020951
      Conserved Domains (3) summary
      COG5048
      Location:300 → 471
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:371 → 391
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:5 → 46
      KRAB; KRAB box

    4. NM_001348721.2 → NP_001335650.1  zinc finger protein 439 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5), as well as variant 4, encodes isoform d.
      Source sequence(s)
      AC008543, AC020951
      Conserved Domains (3) summary
      COG5048
      Location:300 → 471
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:371 → 391
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:5 → 46
      KRAB; KRAB box

    5. NM_001348722.2 → NP_001335651.1  zinc finger protein 439 isoform e

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6), as well as variant 7, encodes isoform e.
      Source sequence(s)
      AC008543, AC020951
      Conserved Domains (2) summary
      COG5048
      Location:277 → 437
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:337 → 357
      ZF_C2H2; C2H2 Zn finger [structural motif]

    6. NM_001348723.2 → NP_001335652.1  zinc finger protein 439 isoform e

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7), as well as variant 6, encodes isoform e.
      Source sequence(s)
      AC008543, AC020951
      Conserved Domains (2) summary
      COG5048
      Location:277 → 437
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:337 → 357
      ZF_C2H2; C2H2 Zn finger [structural motif]

    7. NM_001348724.2 → NP_001335653.1  zinc finger protein 439 isoform f

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8), as well as variant 9, encodes isoform f.
      Source sequence(s)
      AC008543, AC020951
      Consensus CDS
      CCDS86705.1
      UniProtKB/TrEMBL
      A0A0C4DG37
      Related
      ENSP00000395632.1, ENST00000455282.1
      Conserved Domains (2) summary
      COG5048
      Location:177 → 348
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:248 → 268
      ZF_C2H2; C2H2 Zn finger [structural motif]

    8. NM_001348725.2 → NP_001335654.1  zinc finger protein 439 isoform f

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9), as well as variant 8, encodes isoform f.
      Source sequence(s)
      AC008543, AC020951
      Consensus CDS
      CCDS86705.1
      UniProtKB/TrEMBL
      A0A0C4DG37
      Conserved Domains (2) summary
      COG5048
      Location:177 → 348
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:248 → 268
      ZF_C2H2; C2H2 Zn finger [structural motif]

    9. NM_152262.3 → NP_689475.1  zinc finger protein 439 isoform c

      See identical proteins and their annotated locations for NP_689475.1

      Status: VALIDATED

      Source sequence(s)
      AC020951
      Consensus CDS
      CCDS12268.1
      UniProtKB/Swiss-Prot
      Q8IYZ7, Q8NDP4, Q96SU1
      Related
      ENSP00000305077.2, ENST00000304030.2
      Conserved Domains (5) summary
      smart00349
      Location:19 → 61
      KRAB; krueppel associated box
      COG5048
      Location:313 → 484
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:384 → 404
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:19 → 58
      KRAB; KRAB box
      pfam13465
      Location:368 → 393
      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
      11848726..11869486
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047439651.1 → XP_047295607.1  zinc finger protein 439 isoform X1

      UniProtKB/Swiss-Prot
      Q8IYZ7, Q8NDP4, Q96SU1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      11976933..11997694
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054322556.1 → XP_054178531.1  zinc finger protein 439 isoform X1

      UniProtKB/Swiss-Prot
      Q8IYZ7, Q8NDP4, Q96SU1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8NDP4.1 GenPept UniProtKB/Swiss-Prot:Q8NDP4

    Gene LinkOut

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