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Phrf1 PHD and ring finger domains 1 [ Mus musculus (house mouse) ]

Gene ID: 101471, updated on 5-Mar-2024

Summary

Official Symbol
Phrf1provided by MGI
Official Full Name
PHD and ring finger domains 1provided by MGI
Primary source
MGI:MGI:2141847
See related
Ensembl:ENSMUSG00000038611 AllianceGenome:MGI:2141847
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
Summary
Predicted to enable RNA polymerase binding activity and protein domain specific binding activity. Predicted to be involved in mRNA processing and transcription by RNA polymerase II. Is expressed in several structures, including central nervous system and retina. Orthologous to human PHRF1 (PHD and ring finger domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 11.5), CNS E11.5 (RPKM 7.5) and 28 other tissues See more
Orthologs
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Genomic context

Location:
7 F5; 7 86.53 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (140808373..140842664)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (141228477..141262751)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene lamin tail domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E1749 Neighboring gene Ras association (RalGDS/AF-6) domain family (N-terminal) member 7 Neighboring gene STARR-positive B cell enhancer ABC_E2854 Neighboring gene microRNA 210 Neighboring gene STARR-positive B cell enhancer ABC_E11376 Neighboring gene predicted gene, 51460 Neighboring gene interferon regulatory factor 7 Neighboring gene cadherin-related family member 5

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)

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA polymerase binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in mRNA processing ISO
Inferred from Sequence Orthology
more info
 
involved_in transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
PHD and RING finger domain-containing protein 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_001081118.2NP_001074587.1  PHD and RING finger domain-containing protein 1 isoform 1

    See identical proteins and their annotated locations for NP_001074587.1

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
    Consensus CDS
    CCDS52441.1
    UniProtKB/Swiss-Prot
    A6H619, Q505G1, Q6ZPN4
    Related
    ENSMUSP00000101648.3, ENSMUST00000106027.9
    Conserved Domains (5) summary
    PHA03247
    Location:11751518
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:561773
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:187232
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:107150
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
    NF033845
    Location:13108
    MSCRAMM_ClfB; MSCRAMM family adhesin clumping factor ClfB
  2. NM_001419133.1NP_001406062.1  PHD and RING finger domain-containing protein 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
  3. NM_001419134.1NP_001406063.1  PHD and RING finger domain-containing protein 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
  4. NM_001419136.1NP_001406065.1  PHD and RING finger domain-containing protein 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
  5. NM_001419137.1NP_001406066.1  PHD and RING finger domain-containing protein 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
  6. NM_001419138.1NP_001406067.1  PHD and RING finger domain-containing protein 1 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434
    Related
    ENSMUSP00000113195.2, ENSMUST00000122143.8

RNA

  1. NR_185020.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC108908, AC163434

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_000073.7 Reference GRCm39 C57BL/6J

    Range
    140808373..140842664
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006536137.5XP_006536200.1  PHD and RING finger domain-containing protein 1 isoform X1

    Conserved Domains (4) summary
    PHA03247
    Location:13061614
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:579791
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:205250
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:125168
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  2. XM_006536143.5XP_006536206.1  PHD and RING finger domain-containing protein 1 isoform X6

    Conserved Domains (4) summary
    PHA03247
    Location:11931532
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:579785
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:205250
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:125168
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  3. XM_006536139.5XP_006536202.1  PHD and RING finger domain-containing protein 1 isoform X3

    Conserved Domains (5) summary
    PHA03247
    Location:11931536
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:579791
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:205250
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:125168
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
    pfam03154
    Location:14751601
    Atrophin-1; Atrophin-1 family
  4. XM_006536144.5XP_006536207.1  PHD and RING finger domain-containing protein 1 isoform X9

    Conserved Domains (4) summary
    PHA03247
    Location:11861578
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:579791
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:205250
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:125168
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  5. XM_006536138.5XP_006536201.1  PHD and RING finger domain-containing protein 1 isoform X2

    Conserved Domains (4) summary
    PHA03247
    Location:13051613
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:578790
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:204249
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:124167
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  6. XM_006536145.5XP_006536208.1  PHD and RING finger domain-containing protein 1 isoform X10

    Conserved Domains (4) summary
    PHA03247
    Location:11851577
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:578790
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:204249
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:124167
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  7. XM_006536141.4XP_006536204.1  PHD and RING finger domain-containing protein 1 isoform X4

    See identical proteins and their annotated locations for XP_006536204.1

    Conserved Domains (4) summary
    PHA03247
    Location:12881596
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:561773
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:187232
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:107150
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  8. XM_036152509.1XP_036008402.1  PHD and RING finger domain-containing protein 1 isoform X7

    UniProtKB/Swiss-Prot
    A6H619, Q505G1, Q6ZPN4
    Conserved Domains (5) summary
    PHA03247
    Location:11751518
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:561773
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:187232
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:107150
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
    NF033845
    Location:13108
    MSCRAMM_ClfB; MSCRAMM family adhesin clumping factor ClfB
  9. XM_006536142.2XP_006536205.1  PHD and RING finger domain-containing protein 1 isoform X5

    Conserved Domains (4) summary
    PHA03247
    Location:12871595
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:560772
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:186231
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:106149
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  10. XM_030241933.1XP_030097793.1  PHD and RING finger domain-containing protein 1 isoform X5

    Conserved Domains (4) summary
    PHA03247
    Location:12871595
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:560772
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:186231
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:106149
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  11. XM_011249837.4XP_011248139.1  PHD and RING finger domain-containing protein 1 isoform X4

    See identical proteins and their annotated locations for XP_011248139.1

    Conserved Domains (4) summary
    PHA03247
    Location:12881596
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:561773
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:187232
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:107150
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
  12. XM_036152511.1XP_036008404.1  PHD and RING finger domain-containing protein 1 isoform X8

    Conserved Domains (5) summary
    PHA03247
    Location:11741517
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:560772
    PHA03307; transcriptional regulator ICP4; Provisional
    cd15536
    Location:186231
    PHD_PHRF1; PHD finger found in PHD and RING finger domain-containing protein 1 (PHRF1)
    cd16635
    Location:106149
    mRING-HC-C3HC3D_PHRF1; Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1(PHRF1) and similar proteins
    NF033845
    Location:13107
    MSCRAMM_ClfB; MSCRAMM family adhesin clumping factor ClfB
  13. XM_036152515.1XP_036008408.1  PHD and RING finger domain-containing protein 1 isoform X14

    Conserved Domains (2) summary
    PHA03247
    Location:6391031
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:32244
    PHA03307; transcriptional regulator ICP4; Provisional

RNA

  1. XR_004933983.1 RNA Sequence

  2. XR_004933984.1 RNA Sequence

  3. XR_004933985.1 RNA Sequence

  4. XR_004933987.1 RNA Sequence

  5. XR_004933986.1 RNA Sequence

  6. XR_389947.4 RNA Sequence

  7. XR_004933988.1 RNA Sequence

    Related
    ENSMUST00000155123.8
  8. XR_004933990.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_207211.1: Suppressed sequence

    Description
    NM_207211.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.