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    UHRF2 ubiquitin like with PHD and ring finger domains 2 [ Homo sapiens (human) ]

    Gene ID: 115426, updated on 2-Nov-2024

    Summary

    Official Symbol
    UHRF2provided by HGNC
    Official Full Name
    ubiquitin like with PHD and ring finger domains 2provided by HGNC
    Primary source
    HGNC:HGNC:12557
    See related
    Ensembl:ENSG00000147854 MIM:615211; AllianceGenome:HGNC:12557
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NIRF; URF2; RNF107; TDRD23
    Summary
    This gene encodes a nuclear protein which is involved in cell-cycle regulation. The encoded protein is a ubiquitin-ligase capable of ubiquinating PCNP (PEST-containing nuclear protein), and together they may play a role in tumorigenesis. The encoded protein contains an NIRF_N domain, a PHD finger, a set- and ring-associated (SRA) domain, and a RING finger domain and several of these domains have been shown to be essential for the regulation of cell proliferation. This protein may also have a role in intranuclear degradation of polyglutamine aggregates. Alternative splicing results in multiple transcript variants some of which are non-protein coding. [provided by RefSeq, Feb 2012]
    Expression
    Ubiquitous expression in bone marrow (RPKM 16.7), lymph node (RPKM 12.5) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See UHRF2 in Genome Data Viewer
    Location:
    9p24.1
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (6413199..6507054)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (6418255..6512105)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (6413199..6507054)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107987046 Neighboring gene selenoprotein T pseudogene 1 Neighboring gene TPD52 like 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19764 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19765 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28186 Neighboring gene RNA, 7SL, cytoplasmic 25, pseudogene Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:6566198-6567397 Neighboring gene glycine decarboxylase Neighboring gene Sharpr-MPRA regulatory region 10661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28187 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:6622908-6623703 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:6630771-6631613 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28191 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:6635584-6636084 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:6636085-6636585 Neighboring gene ribosomal protein L23a pseudogene 57

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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 Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC33463, DKFZp434B0920, DKFZp686G0837

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables SUMO transferase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in negative regulation of gene expression via chromosomal CpG island methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein autoubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein sumoylation TAS
    Traceable Author Statement
    more info
     
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of cell cycle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of cell cycle TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in heterochromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in pericentric heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase UHRF2
    Names
    Np95-like ring finger protein
    RING finger protein 107
    RING-type E3 ubiquitin transferase UHRF2
    np95/ICBP90-like RING finger protein
    nuclear protein 97
    nuclear zinc finger protein NP97
    ubiquitin-like PHD and RING finger domain-containing protein 2
    ubiquitin-like with PHD and ring finger domains 2, E3 ubiquitin protein ligase
    ubiquitin-like, containing PHD and RING finger domains, 2
    ubiquitin-like-containing PHD and RING finger domains protein 2
    NP_690856.1
    XP_011516006.1
    XP_011516007.1
    XP_016869742.1
    XP_047278704.1
    XP_047278705.1
    XP_054217917.1
    XP_054217918.1
    XP_054217919.1
    XP_054217920.1
    XP_054217921.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_152896.3NP_690856.1  E3 ubiquitin-protein ligase UHRF2

      See identical proteins and their annotated locations for NP_690856.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript.
      Source sequence(s)
      AB071698, AF274049, BG709183
      Consensus CDS
      CCDS6469.1
      UniProtKB/Swiss-Prot
      Q5VYR1, Q5VYR3, Q659C8, Q8TAG7, Q96PU4
      Related
      ENSP00000276893.5, ENST00000276893.10
      Conserved Domains (6) summary
      cd01797
      Location:178
      NIRF_N; amino-terminal ubiquitin-like domain of Np95 and NIRF
      smart00213
      Location:374
      UBQ; Ubiquitin homologues
      cd00162
      Location:732775
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cd15617
      Location:346392
      PHD_UHRF2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein 2 (UHRF2)
      pfam02182
      Location:446614
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:125312
      TTD; Tandem tudor domain within UHRF1

    RNA

    1. NR_046386.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has an alternate internal exon in the coding region, compared to variant 1, which results in a frameshift and early stop codon. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB071698, AF274049, BC028397
      Related
      ENST00000468435.7

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      6413199..6507054
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017014253.2XP_016869742.1  E3 ubiquitin-protein ligase UHRF2 isoform X1

    2. XM_047422748.1XP_047278704.1  E3 ubiquitin-protein ligase UHRF2 isoform X2

    3. XM_011517704.3XP_011516006.1  E3 ubiquitin-protein ligase UHRF2 isoform X3

      See identical proteins and their annotated locations for XP_011516006.1

      Conserved Domains (4) summary
      cd00162
      Location:509552
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cd15617
      Location:123169
      PHD_UHRF2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein 2 (UHRF2)
      pfam02182
      Location:223391
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:189
      TTD; Tandem tudor domain within UHRF1
    4. XM_011517705.3XP_011516007.1  E3 ubiquitin-protein ligase UHRF2 isoform X3

      See identical proteins and their annotated locations for XP_011516007.1

      Conserved Domains (4) summary
      cd00162
      Location:509552
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cd15617
      Location:123169
      PHD_UHRF2; PHD finger found in ubiquitin-like PHD and RING finger domain-containing protein 2 (UHRF2)
      pfam02182
      Location:223391
      SAD_SRA; SAD/SRA domain
      pfam12148
      Location:189
      TTD; Tandem tudor domain within UHRF1
    5. XM_047422749.1XP_047278705.1  E3 ubiquitin-protein ligase UHRF2 isoform X4

    RNA

    1. XR_428418.5 RNA Sequence

    2. XR_007061241.1 RNA Sequence

    3. XR_007061242.1 RNA Sequence

    4. XR_007061243.1 RNA Sequence

    5. XR_007061244.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      6418255..6512105
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361942.1XP_054217917.1  E3 ubiquitin-protein ligase UHRF2 isoform X1

    2. XM_054361943.1XP_054217918.1  E3 ubiquitin-protein ligase UHRF2 isoform X2

    3. XM_054361944.1XP_054217919.1  E3 ubiquitin-protein ligase UHRF2 isoform X3

    4. XM_054361945.1XP_054217920.1  E3 ubiquitin-protein ligase UHRF2 isoform X3

    5. XM_054361946.1XP_054217921.1  E3 ubiquitin-protein ligase UHRF2 isoform X4

    RNA

    1. XR_008487935.1 RNA Sequence

    2. XR_008487936.1 RNA Sequence

    3. XR_008487937.1 RNA Sequence

    4. XR_008487938.1 RNA Sequence

    5. XR_008487939.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_152306.2: Suppressed sequence

      Description
      NM_152306.2: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.