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    PHF24 PHD finger protein 24 [ Homo sapiens (human) ]

    Gene ID: 23349, updated on 27-Nov-2024

    Summary

    Official Symbol
    PHF24provided by HGNC
    Official Full Name
    PHD finger protein 24provided by HGNC
    Primary source
    HGNC:HGNC:29180
    See related
    Ensembl:ENSG00000122733 MIM:619928; AllianceGenome:HGNC:29180
    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
    GINIP
    Summary
    Predicted to enable transcription corepressor activity. Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to act upstream of or within several processes, including detection of mechanical stimulus involved in sensory perception of pain; gamma-aminobutyric acid signaling pathway; and regulation of GABAergic synaptic transmission. Predicted to be active in glutamatergic synapse; nucleus; and synaptic vesicle membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in brain (RPKM 19.5) and testis (RPKM 9.9) See more
    Orthologs
    NEW
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    Genomic context

    See PHF24 in Genome Data Viewer
    Location:
    9p13.3
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (34665607..34982544)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (34684209..35001725)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (34957484..34982541)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28314 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:34654819-34655434 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:34659625-34660126 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19855 Neighboring gene uncharacterized LOC124902146 Neighboring gene uncharacterized LOC730098 Neighboring gene interleukin 11 receptor subunit alpha Neighboring gene galactose-1-phosphate uridylyltransferase Neighboring gene C-C motif chemokine ligand 27 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19856 Neighboring gene C-C motif chemokine ligand 19 Neighboring gene SPATA31 subfamily F member 1 Neighboring gene C-C motif chemokine ligand 21 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34766948-34767450 Neighboring gene SPATA31 subfamily F member 2, pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr9:34870473-34870974 Neighboring gene SPATA31 subfamily F member 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34926275-34926796 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34926797-34927317 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta pseudogene 6 Neighboring gene glutamate-ammonia ligase pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28315 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19857 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28316 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19858 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34989927-34990856 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34990857-34991786 Neighboring gene Sharpr-MPRA regulatory region 8519 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34992717-34993646 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:34994577-34995506 Neighboring gene DNAJB5 divergent transcript Neighboring gene DnaJ heat shock protein family (Hsp40) member B5

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA1045, DKFZp434I2112

    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 
    enables transcription corepressor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in synaptic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    PHD finger protein 24
    Names
    Galpha inhibitory interacting protein

    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.

    Genomic

    1. NG_052851.2 RefSeqGene

      Range
      297680..321939
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001304333.3NP_001291262.1  PHD finger protein 24 isoform 1

      See identical proteins and their annotated locations for NP_001291262.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region compared to variant 5. The encoded isoform (1) is shorter than isoform 2. Variants 1 and 2 encode the same isoform.
      Source sequence(s)
      AK294342, AL355377, BC041169
      Consensus CDS
      CCDS43796.1
      UniProtKB/Swiss-Prot
      B7Z253, Q58FE9, Q5T662, Q9UPV7
      Conserved Domains (1) summary
      pfam16744
      Location:126198
      Zf_RING; KIAA1045 RING finger
    2. NM_001347982.1NP_001334911.1  PHD finger protein 24 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) represents the longest transcript and encodes the longest isoform (2). Variants 5 and 6 both encode the same isoform (2).
      Source sequence(s)
      AL355377
    3. NM_001347983.2NP_001334912.1  PHD finger protein 24 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 5. Variants 5 and 6 encode the same isoform (2).
      Source sequence(s)
      AL355377
    4. NM_001395369.1NP_001382298.1  PHD finger protein 24 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL355377
    5. NM_001395370.1NP_001382299.1  PHD finger protein 24 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL355377
    6. NM_001395371.1NP_001382300.1  PHD finger protein 24 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL355377
    7. NM_001395372.1NP_001382301.1  PHD finger protein 24 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL355377
    8. NM_015297.3NP_056112.1  PHD finger protein 24 isoform 1

      See identical proteins and their annotated locations for NP_056112.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR, and uses an alternate in-frame splice site in the 3' coding region, compared to variant 5. The encoded isoform (1) is shorter than isoform 2. Variants 1 and 2 encode the same isoform.
      Source sequence(s)
      AB028968, AL355377, BC041169
      Consensus CDS
      CCDS43796.1
      UniProtKB/Swiss-Prot
      B7Z253, Q58FE9, Q5T662, Q9UPV7
      Related
      ENSP00000242315.3, ENST00000242315.4
      Conserved Domains (1) summary
      pfam16744
      Location:126198
      Zf_RING; KIAA1045 RING finger

    RNA

    1. NR_136307.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK294342, AL355377, BC041169
    2. NR_136308.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL355377, BC041169

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      34665607..34982544
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047423102.1XP_047279058.1  PHD finger protein 24 isoform X1

    2. XM_047423103.1XP_047279059.1  PHD finger protein 24 isoform X2

    3. XM_017014554.2XP_016870043.1  PHD finger protein 24 isoform X3

      Conserved Domains (1) summary
      pfam16744
      Location:132203
      Zf_RING; KIAA1045 RING finger
    4. XM_017014555.2XP_016870044.1  PHD finger protein 24 isoform X3

      Conserved Domains (1) summary
      pfam16744
      Location:132203
      Zf_RING; KIAA1045 RING finger
    5. XM_017014553.3XP_016870042.1  PHD finger protein 24 isoform X3

      Conserved Domains (1) summary
      pfam16744
      Location:132203
      Zf_RING; KIAA1045 RING finger
    6. XM_017014556.2XP_016870045.1  PHD finger protein 24 isoform X3

      Conserved Domains (1) summary
      pfam16744
      Location:132203
      Zf_RING; KIAA1045 RING finger

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      34684209..35001725
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054362539.1XP_054218514.1  PHD finger protein 24 isoform X1

    2. XM_054362541.1XP_054218516.1  PHD finger protein 24 isoform X2

    3. XM_054362538.1XP_054218513.1  PHD finger protein 24 isoform X5

    4. XM_054362540.1XP_054218515.1  PHD finger protein 24 isoform X6

    5. XM_054362537.1XP_054218512.1  PHD finger protein 24 isoform X4

    RNA

    1. XR_008487970.1 RNA Sequence

    2. XR_008487971.1 RNA Sequence