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Phf3 PHD finger protein 3 [ Mus musculus (house mouse) ]

Gene ID: 213109, updated on 3-Apr-2024

Summary

Official Symbol
Phf3provided by MGI
Official Full Name
PHD finger protein 3provided by MGI
Primary source
MGI:MGI:2446126
See related
Ensembl:ENSMUSG00000048874 AllianceGenome:MGI:2446126
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
2310061N19Rik
Summary
Predicted to be involved in transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in central nervous system; genitourinary system; and retina. Orthologous to human PHF3 (PHD finger protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 9.6), CNS E14 (RPKM 8.9) and 28 other tissues See more
Orthologs
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Genomic context

See Phf3 in Genome Data Viewer
Location:
1 A5- B; 1 11.45 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (30841417..30912989, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (30802342..30873922, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_00508 Neighboring gene cyclin-dependent kinase 10 pseudogene Neighboring gene predicted gene 2914 Neighboring gene STARR-seq mESC enhancer starr_00509 Neighboring gene STARR-seq mESC enhancer starr_00510 Neighboring gene STARR-seq mESC enhancer starr_00512 Neighboring gene STARR-seq mESC enhancer starr_00514 Neighboring gene STARR-seq mESC enhancer starr_00515 Neighboring gene STARR-seq mESC enhancer starr_00516 Neighboring gene protein tyrosine phosphatase 4a1 Neighboring gene predicted gene, 53209

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

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA0244

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in DNA-templated transcription 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
 

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_001081080.2NP_001074549.1  PHD finger protein 3 isoform 1

    See identical proteins and their annotated locations for NP_001074549.1

    Status: VALIDATED

    Source sequence(s)
    AC124469, AC153137
    Consensus CDS
    CCDS35530.1
    UniProtKB/TrEMBL
    B2RQG2
    Related
    ENSMUSP00000139610.2, ENSMUST00000186733.7
    Conserved Domains (5) summary
    PHA03369
    Location:9831184
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:19162025
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:697747
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:9041017
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:11811327
    SPOC; SPOC domain
  2. NM_001403128.1NP_001390057.1  PHD finger protein 3 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC124469, AC153137
  3. NM_001403130.1NP_001390059.1  PHD finger protein 3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC124469, AC153137

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    30841417..30912989 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011238471.4XP_011236773.1  PHD finger protein 3 isoform X4

    Conserved Domains (5) summary
    PHA03369
    Location:8951096
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:18281937
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:609659
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:816929
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:10931239
    SPOC; SPOC domain
  2. XM_030252760.1XP_030108620.1  PHD finger protein 3 isoform X6

    Conserved Domains (5) summary
    PHA03369
    Location:778979
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:17111820
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:492542
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:699812
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:9761122
    SPOC; SPOC domain
  3. XM_036163369.1XP_036019262.1  PHD finger protein 3 isoform X5

    Conserved Domains (5) summary
    PHA03369
    Location:8821083
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:18151924
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:596646
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:803916
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:10791227
    SPOC; SPOC domain
  4. XM_011238470.4XP_011236772.1  PHD finger protein 3 isoform X2

    Conserved Domains (5) summary
    PHA03369
    Location:9361137
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:18691978
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:650700
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:857970
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:11341280
    SPOC; SPOC domain
  5. XM_006495840.5XP_006495903.1  PHD finger protein 3 isoform X7

    See identical proteins and their annotated locations for XP_006495903.1

    UniProtKB/TrEMBL
    Q80U54
    Conserved Domains (5) summary
    PHA03369
    Location:274475
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:12071316
    SF-CC1; splicing factor, CC1-like family
    pfam07500
    Location:195308
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:471619
    SPOC; SPOC domain
    cl22851
    Location:138
    PHD_SF; PHD finger superfamily
  6. XM_036163374.1XP_036019267.1  PHD finger protein 3 isoform X7

    UniProtKB/TrEMBL
    Q80U54
    Conserved Domains (5) summary
    PHA03369
    Location:274475
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:12071316
    SF-CC1; splicing factor, CC1-like family
    pfam07500
    Location:195308
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:471619
    SPOC; SPOC domain
    cl22851
    Location:138
    PHD_SF; PHD finger superfamily
  7. XM_006495839.4XP_006495902.1  PHD finger protein 3 isoform X7

    See identical proteins and their annotated locations for XP_006495902.1

    UniProtKB/TrEMBL
    Q80U54
    Conserved Domains (5) summary
    PHA03369
    Location:274475
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:12071316
    SF-CC1; splicing factor, CC1-like family
    pfam07500
    Location:195308
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:471619
    SPOC; SPOC domain
    cl22851
    Location:138
    PHD_SF; PHD finger superfamily
  8. XM_030252767.1XP_030108627.1  PHD finger protein 3 isoform X7

    UniProtKB/TrEMBL
    Q80U54
    Conserved Domains (5) summary
    PHA03369
    Location:274475
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:12071316
    SF-CC1; splicing factor, CC1-like family
    pfam07500
    Location:195308
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:471619
    SPOC; SPOC domain
    cl22851
    Location:138
    PHD_SF; PHD finger superfamily
  9. XM_030252757.2XP_030108617.1  PHD finger protein 3 isoform X2

    Conserved Domains (5) summary
    PHA03369
    Location:9361137
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:18691978
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:650700
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:857970
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:11341280
    SPOC; SPOC domain
  10. XM_030252758.2XP_030108618.1  PHD finger protein 3 isoform X3

    Conserved Domains (5) summary
    PHA03369
    Location:9291130
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:18621971
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:643693
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:850963
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:11271273
    SPOC; SPOC domain
  11. XM_030252762.2XP_030108622.1  PHD finger protein 3 isoform X7

    UniProtKB/TrEMBL
    Q80U54
    Conserved Domains (5) summary
    PHA03369
    Location:274475
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:12071316
    SF-CC1; splicing factor, CC1-like family
    pfam07500
    Location:195308
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:471619
    SPOC; SPOC domain
    cl22851
    Location:138
    PHD_SF; PHD finger superfamily
  12. XM_006495837.4XP_006495900.1  PHD finger protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006495900.1

    UniProtKB/TrEMBL
    B2RQG2
    Conserved Domains (5) summary
    PHA03369
    Location:9831184
    PHA03369; capsid maturational protease; Provisional
    TIGR01622
    Location:19162025
    SF-CC1; splicing factor, CC1-like family
    cd15638
    Location:697747
    PHD_PHF3; PHD finger found in PHD finger protein 3 (PHF3)
    pfam07500
    Location:9041017
    TFIIS_M; Transcription factor S-II (TFIIS), central domain
    pfam07744
    Location:11811327
    SPOC; SPOC domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_025871.1: Suppressed sequence

    Description
    NM_025871.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.