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PHF12 PHD finger protein 12 [ Homo sapiens (human) ]

Gene ID: 57649, updated on 2-Oct-2018

Summary

Official Symbol
PHF12provided by HGNC
Official Full Name
PHD finger protein 12provided by HGNC
Primary source
HGNC:HGNC:20816
See related
Ensembl:ENSG00000109118 Vega:OTTHUMG00000132676
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
PF1
Expression
Ubiquitous expression in bone marrow (RPKM 8.9), spleen (RPKM 8.2) and 25 other tissues See more
Orthologs

Genomic context

See PHF12 in Genome Data Viewer
Location:
17q11.2
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (28905250..28951490, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (27232264..27278622, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene flotillin 2 Neighboring gene dehydrogenase/reductase 13 Neighboring gene uncharacterized LOC101927018 Neighboring gene uncharacterized LOC105371716 Neighboring gene seizure related 6 homolog Neighboring gene NADH:ubiquinone oxidoreductase subunit S5 pseudogene 7

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 Jun 15 11:32:44 2016

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of PHD finger protein 12 (PHF12) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ34122, KIAA1523, MGC131914

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
phosphatidylinositol binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription corepressor activity IDA
Inferred from Direct Assay
more info
PubMed 
transcription corepressor binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Sin3 complex IDA
Inferred from Direct Assay
more info
PubMed 
Sin3-type complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
transcriptional repressor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
PHD finger protein 12
Names
PHD factor 1
PHD zinc finger transcription factor

NCBI Reference Sequences (RefSeq)

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_001033561.1NP_001028733.1  PHD finger protein 12 isoform 1

    See identical proteins and their annotated locations for NP_001028733.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AB040956, AL161953, AY030283
    Consensus CDS
    CCDS32598.1
    UniProtKB/Swiss-Prot
    Q96QT6
    Related
    ENSP00000329933.4, OTTHUMP00000163517, ENST00000332830.8, OTTHUMT00000255941
    Conserved Domains (4) summary
    cd00060
    Location:813868
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15533
    Location:58102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
  2. NM_001290131.1NP_001277060.1  PHD finger protein 12 isoform 3

    See identical proteins and their annotated locations for NP_001277060.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AY030283, BC110882
    Consensus CDS
    CCDS76981.1
    UniProtKB/Swiss-Prot
    Q96QT6
    Related
    ENSP00000465161.1, OTTHUMP00000262798, ENST00000577226.5, OTTHUMT00000446737
    Conserved Domains (3) summary
    cd15533
    Location:58102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
  3. NM_020889.2NP_065940.1  PHD finger protein 12 isoform 2

    See identical proteins and their annotated locations for NP_065940.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AL161953, AY030283, BC001657
    Consensus CDS
    CCDS11247.1
    UniProtKB/Swiss-Prot
    Q96QT6
    Related
    ENSP00000268756.3, OTTHUMP00000163518, ENST00000268756.7, OTTHUMT00000255942
    Conserved Domains (3) summary
    cd15533
    Location:58102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    28905250..28951490 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017024904.1XP_016880393.1  PHD finger protein 12 isoform X2

  2. XM_005258015.4XP_005258072.1  PHD finger protein 12 isoform X3

    Conserved Domains (3) summary
    cd00060
    Location:723778
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:183228
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:113151
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
  3. XM_011525078.2XP_011523380.1  PHD finger protein 12 isoform X1

    Conserved Domains (4) summary
    cd00060
    Location:791846
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:251296
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:181219
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
    cl22851
    Location:6180
    PHD_SF; PHD finger superfamily
  4. XM_005258016.3XP_005258073.1  PHD finger protein 12 isoform X4

    Conserved Domains (3) summary
    cd00060
    Location:596651
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:56101
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:124
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
  5. XM_011525082.3XP_011523384.1  PHD finger protein 12 isoform X5

    Conserved Domains (3) summary
    cd15533
    Location:58102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
  6. XM_011525083.3XP_011523385.1  PHD finger protein 12 isoform X6

    UniProtKB/TrEMBL
    C9J9G2
    Related
    ENSP00000368157.3, OTTHUMP00000261649, ENST00000378879.7
    Conserved Domains (3) summary
    cd15533
    Location:58102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain
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