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Phf8 PHD finger protein 8 [ Mus musculus (house mouse) ]

Gene ID: 320595, updated on 12-May-2024

Summary

Official Symbol
Phf8provided by MGI
Official Full Name
PHD finger protein 8provided by MGI
Primary source
MGI:MGI:2444341
See related
Ensembl:ENSMUSG00000041229 AllianceGenome:MGI:2444341
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
mKIAA1111; 9830141C09Rik
Summary
Predicted to enable several functions, including histone demethylase activity; methylated histone binding activity; and transition metal ion binding activity. Predicted to be involved in G1/S transition of mitotic cell cycle; histone lysine demethylation; and regulation of gene expression. Predicted to act upstream of or within chromatin organization. Predicted to be located in nuclear membrane; nucleolus; and nucleoplasm. Is expressed in several structures, including brain; early conceptus; olfactory epithelium; ovary; and vibrissa follicle. Used to study syndromic X-linked intellectual disability Siderius type. Human ortholog(s) of this gene implicated in syndromic X-linked intellectual disability Siderius type. Orthologous to human PHF8 (PHD finger protein 8). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in genital fat pad adult (RPKM 7.8), thymus adult (RPKM 4.9) and 28 other tissues See more
Orthologs
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Genomic context

See Phf8 in Genome Data Viewer
Location:
X F3; X 68.46 cM
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (150303621..150416855)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (151520641..151633859)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 120, member C Neighboring gene NSA2 ribosome biogenesis homolog pseudogene Neighboring gene STARR-seq mESC enhancer starr_48081 Neighboring gene ribosomal protein L39 pseudogene Neighboring gene predicted gene, 24460 Neighboring gene STARR-seq mESC enhancer starr_48082 Neighboring gene STARR-seq mESC enhancer starr_48083 Neighboring gene aldo-keto reductase family 1, member B3 pseudogene Neighboring gene STARR-seq mESC enhancer starr_48084 Neighboring gene STARR-seq mESC enhancer starr_48086 Neighboring gene predicted gene 15151

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Targeted (4)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity ISO
Inferred from Sequence Orthology
more info
 
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3K27me2/H3K27me3 demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables histone H3K36 demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables histone H3K36me/H3K36me2 demethylase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3K9 demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables histone H3K9me/H3K9me2 demethylase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H4K20 demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables histone demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables histone demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables iron ion binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables methylated histone binding ISO
Inferred from Sequence Orthology
more info
 
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
 
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
histone lysine demethylase PHF8
Names
[histone H3]-dimethyl-L-lysine(36) demethylase PHF8
[histone H3]-dimethyl-L-lysine(9) demethylase PHF8
NP_001106825.1
NP_796175.1
XP_006528938.1
XP_006528940.1
XP_006528941.1
XP_006528942.1
XP_006528943.1
XP_030107232.1
XP_030107233.1

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_001113354.1NP_001106825.1  histone lysine demethylase PHF8 isoform b

    See identical proteins and their annotated locations for NP_001106825.1

    Status: VALIDATED

    Source sequence(s)
    AK040969, AK122447
    Consensus CDS
    CCDS53223.1
    UniProtKB/Swiss-Prot
    A2ABU8, A2ABV0, A2ABV2, Q80TJ7, Q8BLX8, Q8BLY0, Q8BZ61, Q8CG26
    UniProtKB/TrEMBL
    Z4YL84
    Related
    ENSMUSP00000127653.2, ENSMUST00000168501.8
    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  2. NM_177201.5NP_796175.1  histone lysine demethylase PHF8 isoform a

    See identical proteins and their annotated locations for NP_796175.1

    Status: VALIDATED

    Source sequence(s)
    AK036609, AK040969, AK122447, AL662922
    Consensus CDS
    CCDS30470.1
    UniProtKB/TrEMBL
    A2ABV3, Z4YL84
    Related
    ENSMUSP00000108281.3, ENSMUST00000112662.9
    Conserved Domains (3) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    150303621..150416855
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030251373.2XP_030107233.1  histone lysine demethylase PHF8 isoform X2

    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  2. XM_030251372.2XP_030107232.1  histone lysine demethylase PHF8 isoform X1

    UniProtKB/Swiss-Prot
    A2ABU8, A2ABV0, A2ABV2, Q80TJ7, Q8BLX8, Q8BLY0, Q8BZ61, Q8CG26
    UniProtKB/TrEMBL
    Z4YL84
    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  3. XM_006528879.5XP_006528942.1  histone lysine demethylase PHF8 isoform X2

    See identical proteins and their annotated locations for XP_006528942.1

    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  4. XM_006528878.5XP_006528941.1  histone lysine demethylase PHF8 isoform X2

    See identical proteins and their annotated locations for XP_006528941.1

    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  5. XM_006528875.5XP_006528938.1  histone lysine demethylase PHF8 isoform X1

    See identical proteins and their annotated locations for XP_006528938.1

    UniProtKB/Swiss-Prot
    A2ABU8, A2ABV0, A2ABV2, Q80TJ7, Q8BLX8, Q8BLY0, Q8BZ61, Q8CG26
    UniProtKB/TrEMBL
    Z4YL84
    Related
    ENSMUSP00000040765.7, ENSMUST00000046950.13
    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  6. XM_006528877.5XP_006528940.1  histone lysine demethylase PHF8 isoform X1

    See identical proteins and their annotated locations for XP_006528940.1

    UniProtKB/Swiss-Prot
    A2ABU8, A2ABV0, A2ABV2, Q80TJ7, Q8BLX8, Q8BLY0, Q8BZ61, Q8CG26
    UniProtKB/TrEMBL
    Z4YL84
    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins
  7. XM_006528880.5XP_006528943.1  histone lysine demethylase PHF8 isoform X1

    See identical proteins and their annotated locations for XP_006528943.1

    UniProtKB/Swiss-Prot
    A2ABU8, A2ABV0, A2ABV2, Q80TJ7, Q8BLX8, Q8BLY0, Q8BZ61, Q8CG26
    UniProtKB/TrEMBL
    Z4YL84
    Conserved Domains (4) summary
    smart00558
    Location:199262
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15642
    Location:657
    PHD_PHF8; PHD finger found in histone lysine demethylase PHF8
    pfam17811
    Location:338441
    JHD; Jumonji helical domain
    cl21464
    Location:234334
    cupin_like; Conserved domain found in cupin and related proteins