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    Uhrf1 ubiquitin-like with PHD and ring finger domains 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316129, updated on 9-Dec-2024

    Summary

    Official Symbol
    Uhrf1provided by RGD
    Official Full Name
    ubiquitin-like with PHD and ring finger domains 1provided by RGD
    Primary source
    RGD:1595855
    See related
    EnsemblRapid:ENSRNOG00000048411 AllianceGenome:RGD:1595855
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Np95; Ac2-121
    Summary
    Predicted to enable several functions, including DNA binding activity; histone H3 ubiquitin ligase activity; and zinc ion binding activity. Involved in response to peptide hormone. Predicted to be located in chromosome and nuclear lumen. Orthologous to human UHRF1 (ubiquitin like with PHD and ring finger domains 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 529.9), Spleen (RPKM 177.6) and 2 other tissues See more
    Orthologs
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    Genomic context

    See Uhrf1 in Genome Data Viewer
    Location:
    9q11
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (1220162..1241792)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (1133117..1154639)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (10738211..10758403, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene TIR domain containing adaptor molecule 1 Neighboring gene perilipin 3 Neighboring gene arrestin domain containing 5 Neighboring gene ribosomal protein S27 like 3 Neighboring gene lysine demethylase 4B Neighboring gene transfer RNA lysine (anticodon CUU) 11

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Gene Ontology Provided by RGD

    Items 1 - 25 of 28
    Function Evidence Code Pubs
    enables DNA binding  
    enables cis-regulatory region sequence-specific DNA binding  
    enables cis-regulatory region sequence-specific DNA binding  
    enables hemi-methylated DNA-binding  
    enables hemi-methylated DNA-binding  
    enables hemi-methylated DNA-binding  
    enables histone H3 ubiquitin ligase activity  
    enables histone H3 ubiquitin ligase activity  
    enables histone binding  
    enables histone binding  
    enables histone binding  
    enables identical protein binding  
    enables identical protein binding  
    enables metal ion binding  
    enables methyl-CpG binding  
    enables methyl-CpG binding  
    enables methylated histone binding  
    enables methylated histone binding  
    enables methylated histone binding  
    enables nucleic acid binding  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin-protein transferase activity  
    enables ubiquitin-protein transferase activity  
    enables zinc ion binding  
    enables zinc ion binding  
    enables zinc ion binding  
    Items 1 - 25 of 28
    Items 1 - 25 of 26
    Process Evidence Code Pubs
    involved_in DNA repair  
    involved_in chromatin organization  
    involved_in heterochromatin formation  
    involved_in heterochromatin formation  
    involved_in heterochromatin formation  
    involved_in mitotic spindle assembly  
    involved_in mitotic spindle assembly  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of gene expression via chromosomal CpG island methylation  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in positive regulation of protein metabolic process  
    involved_in positive regulation of protein metabolic process  
    involved_in protein autoubiquitination  
    involved_in protein autoubiquitination  
    involved_in protein ubiquitination  
    involved_in protein ubiquitination  
    involved_in regulation of epithelial cell proliferation  
    involved_in regulation of epithelial cell proliferation  
    involved_in response to peptide hormone PubMed 
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    involved_in ubiquitin-dependent protein catabolic process  
    Items 1 - 25 of 26
    Component Evidence Code Pubs
    located_in chromatin  
    located_in chromatin  
    located_in euchromatin  
    located_in euchromatin  
    located_in euchromatin  
    located_in heterochromatin  
    located_in heterochromatin  
    located_in heterochromatin  
    located_in nuclear matrix  
    located_in nuclear matrix  
    located_in nucleoplasm  
    located_in nucleoplasm  
    located_in nucleus  
    located_in nucleus  
    located_in replication fork  
    located_in replication fork  
    located_in replication fork  

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase UHRF1
    Names
    RING-type E3 ubiquitin transferase UHRF1
    liver regeneration-related protein LRRG126
    nuclear protein 95
    ubiquitin-like PHD and RING finger domain-containing protein 1
    ubiquitin-like, containing PHD and RING finger domains, 1
    ubiquitin-like-containing PHD and RING finger domains protein 1
    NP_001380773.1
    NP_001380774.1
    NP_001380775.1
    XP_038939390.1
    XP_063123131.1
    XP_063123132.1

    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_001393844.2NP_001380773.1  E3 ubiquitin-protein ligase UHRF1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2JT07, A0A0G2JXJ2
      Conserved Domains (5) summary
      cd15525
      Location:322368
      PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2
      cd16613
      Location:711755
      RING-HC_UHRF; RING finger, HC subclass, found in ubiquitin-like PHD and RING finger domain-containing proteins, UHRF1 and UHRF2, and similar proteins
      cd17122
      Location:174
      Ubl_UHRF1; ubiquitin-like (Ubl) domain found in ubiquitin-like PHD and RING finger domain-containing protein 1(UHRF1)
      pfam02182
      Location:422588
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:129280
      TTD; Tandem tudor domain within UHRF1
    2. NM_001393845.2NP_001380774.1  E3 ubiquitin-protein ligase UHRF1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2JT07, A0A0G2JXJ2
      Conserved Domains (5) summary
      cd15525
      Location:322368
      PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2
      cd16613
      Location:711755
      RING-HC_UHRF; RING finger, HC subclass, found in ubiquitin-like PHD and RING finger domain-containing proteins, UHRF1 and UHRF2, and similar proteins
      cd17122
      Location:174
      Ubl_UHRF1; ubiquitin-like (Ubl) domain found in ubiquitin-like PHD and RING finger domain-containing protein 1(UHRF1)
      pfam02182
      Location:422588
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:129280
      TTD; Tandem tudor domain within UHRF1
    3. NM_001393846.2NP_001380775.1  E3 ubiquitin-protein ligase UHRF1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/Swiss-Prot
      Q4FZR4, Q7TPK1
      UniProtKB/TrEMBL
      A0A0G2JT07
      Related
      ENSRNOP00000066794.1, ENSRNOT00000075265.4
      Conserved Domains (5) summary
      cd15525
      Location:314360
      PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2
      cd16613
      Location:703747
      RING-HC_UHRF; RING finger, HC subclass, found in ubiquitin-like PHD and RING finger domain-containing proteins, UHRF1 and UHRF2, and similar proteins
      cd17122
      Location:174
      Ubl_UHRF1; ubiquitin-like (Ubl) domain found in ubiquitin-like PHD and RING finger domain-containing protein 1(UHRF1)
      pfam02182
      Location:414580
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:129280
      TTD; Tandem tudor domain within UHRF1

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      1220162..1241792
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083462.2XP_038939390.1  E3 ubiquitin-protein ligase UHRF1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JT07, A0A0G2JXJ2
      Related
      ENSRNOP00000109975.1, ENSRNOT00000170673.1
      Conserved Domains (5) summary
      cd15525
      Location:322368
      PHD_UHRF1_2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein UHRF1 and UHRF2
      cd16613
      Location:711755
      RING-HC_UHRF; RING finger, HC subclass, found in ubiquitin-like PHD and RING finger domain-containing proteins, UHRF1 and UHRF2, and similar proteins
      cd17122
      Location:174
      Ubl_UHRF1; ubiquitin-like (Ubl) domain found in ubiquitin-like PHD and RING finger domain-containing protein 1(UHRF1)
      pfam02182
      Location:422588
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:129280
      TTD; Tandem tudor domain within UHRF1
    2. XM_063267061.1XP_063123131.1  E3 ubiquitin-protein ligase UHRF1 isoform X2

      UniProtKB/Swiss-Prot
      Q4FZR4, Q7TPK1
      UniProtKB/TrEMBL
      A0A0G2JT07
      Related
      ENSRNOP00000070294.2, ENSRNOT00000083848.3
    3. XM_063267062.1XP_063123132.1  E3 ubiquitin-protein ligase UHRF1 isoform X2

      UniProtKB/Swiss-Prot
      Q4FZR4, Q7TPK1
      UniProtKB/TrEMBL
      A0A0G2JT07

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