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    Shprh SNF2 histone linker PHD RING helicase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308282, updated on 9-Dec-2024

    Summary

    Official Symbol
    Shprhprovided by RGD
    Official Full Name
    SNF2 histone linker PHD RING helicaseprovided by RGD
    Primary source
    RGD:1310342
    See related
    EnsemblRapid:ENSRNOG00000014450 AllianceGenome:RGD:1310342
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable ubiquitin protein ligase activity and ubiquitin protein ligase binding activity. Predicted to be involved in DNA damage response and protein polyubiquitination. Predicted to be located in nucleus. Predicted to be part of nucleosome. Orthologous to human SHPRH (SNF2 histone linker PHD RING helicase). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 102.7), Thymus (RPKM 102.2) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Shprh in Genome Data Viewer
    Location:
    1p13
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (7349073..7422804)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (5528827..5602537)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (5240139..5313064)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene glutamate metabotropic receptor 1 Neighboring gene dynactin 3-like 1 Neighboring gene uncharacterized LOC102547024 Neighboring gene F-box protein 30

    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

    Function Evidence Code Pubs
    enables ATP binding  
    enables DNA binding  
    enables hydrolase activity  
    enables metal ion binding  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase activity  
    enables ubiquitin protein ligase binding  
    enables ubiquitin-protein transferase activity  
    Process Evidence Code Pubs
    involved_in DNA damage response  
    acts_upstream_of_or_within DNA damage response  
    involved_in nucleosome assembly  
    involved_in protein polyubiquitination  
    involved_in protein polyubiquitination  
    Component Evidence Code Pubs
    part_of nucleosome  

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase SHPRH
    Names
    SNF2 histone linker PHD RING helicase, E3 ubiquitin protein ligase
    NP_001100940.1
    XP_006227701.1
    XP_063144705.1

    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_001107470.1NP_001100940.1  E3 ubiquitin-protein ligase SHPRH

      See identical proteins and their annotated locations for NP_001100940.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473994
      UniProtKB/TrEMBL
      A0A0G2K1Q2, A6JP42, D4A9B2
      Related
      ENSRNOP00000019893.5, ENSRNOT00000019893.8
      Conserved Domains (6) summary
      COG0553
      Location:13411696
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd00162
      Location:14501500
      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 ...
      cd15547
      Location:658704
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      pfam00176
      Location:714985
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:15311640
      Helicase_C; Helicase conserved C-terminal domain
      pfam00538
      Location:433504
      Linker_histone; linker histone H1 and H5 family

    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_086019.1 Reference GRCr8

      Range
      7349073..7422804
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006227639.4XP_006227701.1  E3 ubiquitin-protein ligase SHPRH isoform X2

      UniProtKB/TrEMBL
      A0A0G2K1Q2
      Related
      ENSRNOP00000071936.3, ENSRNOT00000088292.3
      Conserved Domains (7) summary
      COG0553
      Location:13221677
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd00162
      Location:14311481
      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 ...
      cd15547
      Location:659705
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      pfam00176
      Location:715986
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:15121621
      Helicase_C; Helicase conserved C-terminal domain
      pfam00538
      Location:434505
      Linker_histone; linker histone H1 and H5 family
      pfam13424
      Location:10191103
      TPR_12; Tetratricopeptide repeat
    2. XM_063288635.1XP_063144705.1  E3 ubiquitin-protein ligase SHPRH isoform X1

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