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    PHF11 PHD finger protein 11 [ Homo sapiens (human) ]

    Gene ID: 51131, updated on 17-Jun-2024

    Summary

    Official Symbol
    PHF11provided by HGNC
    Official Full Name
    PHD finger protein 11provided by HGNC
    Primary source
    HGNC:HGNC:17024
    See related
    Ensembl:ENSG00000136147 MIM:607796; AllianceGenome:HGNC:17024
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    APY; BCAP; IGEL; IGER; IGHER; NYREN34; NY-REN-34
    Summary
    This gene encodes a protein containing a PHD (plant homeodomain) type zinc finger. This gene has been identified in some studies as a candidate gene for asthma. Naturally-occurring readthrough transcription may occur from the upstream SETDB2 (SET domain bifurcated 2) gene to this locus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
    Expression
    Ubiquitous expression in lymph node (RPKM 13.0), spleen (RPKM 12.7) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See PHF11 in Genome Data Viewer
    Location:
    13q14.2
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (49495953..49528976)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (48714592..48747507)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (50070089..50103128)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr13:49888093-49889292 Neighboring gene calcium binding protein 39 like Neighboring gene NANOG hESC enhancer GRCh37_chr13:49961302-49961803 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7746 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:50018017-50018789 Neighboring gene SETDB2-PHF11 readthrough Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:50018790-50019563 Neighboring gene SET domain bifurcated histone lysine methyltransferase 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:50068895-50069580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7748 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5342 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7749 Neighboring gene small nuclear ribonucleoprotein polypeptide G pseudogene 14 Neighboring gene RCC1 and BTB domain containing protein 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:50139673-50140480 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5343 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7750 Neighboring gene uncharacterized LOC105370204 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:50194124-50194624

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Hypertrophy-associated polymorphisms ascertained in a founder cohort applied to heart failure risk and mortality.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Readthrough SETDB2-PHF11

    Readthrough gene: SETDB2-PHF11, Included gene: SETDB2

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nuclear membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    PHD finger protein 11
    Names
    BRCA1 C-terminus-associated protein
    IgE responsiveness (atopic)
    renal carcinoma antigen NY-REN-34

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001040443.3NP_001035533.1  PHD finger protein 11 isoform a

      See identical proteins and their annotated locations for NP_001035533.1

      Status: REVIEWED

      Source sequence(s)
      AK026228, DA652444
      Consensus CDS
      CCDS31975.1
      UniProtKB/Swiss-Prot
      Q5W0A4, Q5W0A6, Q9UIL8, Q9Y5A2
      Related
      ENSP00000367570.3, ENST00000378319.8
      Conserved Domains (1) summary
      cd15712
      Location:45159
      ePHD_PHF11; Extended PHD finger found in PHD finger protein 11 (PHF11)
    2. NM_001040444.3NP_001035534.1  PHD finger protein 11 isoform b

      See identical proteins and their annotated locations for NP_001035534.1

      Status: REVIEWED

      Source sequence(s)
      AL139321
      Consensus CDS
      CCDS41887.1
      UniProtKB/TrEMBL
      H0Y4X7
      Related
      ENSP00000417539.1, ENST00000488958.5
      Conserved Domains (1) summary
      cl22851
      Location:6120
      PHD_SF; PHD finger superfamily
    3. NM_001419873.1NP_001406802.1  PHD finger protein 11 isoform b

      Status: REVIEWED

      Source sequence(s)
      AL139321
      UniProtKB/TrEMBL
      H0Y4X7
    4. NM_001419874.1NP_001406803.1  PHD finger protein 11 isoform b

      Status: REVIEWED

      Source sequence(s)
      AL139321
      UniProtKB/TrEMBL
      H0Y4X7
      Related
      ENSP00000350209.3, ENST00000357596.7
    5. NM_001419875.1NP_001406804.1  PHD finger protein 11 isoform b

      Status: REVIEWED

      Source sequence(s)
      AL139321
      UniProtKB/TrEMBL
      H0Y4X7
    6. NM_001419876.1NP_001406805.1  PHD finger protein 11 isoform b

      Status: REVIEWED

      Source sequence(s)
      AL139321
      UniProtKB/TrEMBL
      H0Y4X7

    RNA

    1. NR_135322.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AK026228, AK293242, BX461254
    2. NR_135323.3 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AL139321

    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_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      49495953..49528976
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      48714592..48747507
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)