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Shprh SNF2 histone linker PHD RING helicase [ Mus musculus (house mouse) ]

Gene ID: 268281, updated on 14-Nov-2024

Summary

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Official Symbol
Shprhprovided by MGI
Official Full Name
SNF2 histone linker PHD RING helicaseprovided by MGI
Primary source
MGI:MGI:1917581
See related
Ensembl:ENSMUSG00000090112 AllianceGenome:MGI:1917581
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
E130018M05; 2610103K11Rik; D230017O13Rik
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, Nov 2024]
Expression
Broad expression in cerebellum adult (RPKM 3.8), CNS E18 (RPKM 3.8) and 25 other tissues See more
Orthologs
human all
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Genomic context

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See Shprh in Genome Data Viewer
Location:
10 A1; 10 3.66 cM
Exon count:
31
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (11024765..11093339)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (11149272..11217595)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930567K20 gene Neighboring gene glutamate receptor, metabotropic 1 Neighboring gene predicted gene, 53612 Neighboring gene STARR-seq mESC enhancer starr_25749 Neighboring gene STARR-positive B cell enhancer ABC_E9129 Neighboring gene STARR-seq mESC enhancer starr_25751 Neighboring gene STARR-seq mESC enhancer starr_25754 Neighboring gene STARR-seq mESC enhancer starr_25755 Neighboring gene STARR-seq mESC enhancer starr_25756 Neighboring gene STARR-seq mESC enhancer starr_25757 Neighboring gene F-box protein 30 Neighboring gene predicted gene, 25979

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Axitinib blocks Wnt/β-catenin signaling and directs asymmetric cell division in cancer. Qu Y, et al. Proc Natl Acad Sci U S A, 2016 Aug 16. PMID 27482107, Free PMC Article
  2. Cloning and characterization of a novel gene, SHPRH, encoding a conserved putative protein with SNF2/helicase and PHD-finger domains from the 6q24 region. Sood R, et al. Genomics, 2003 Aug. PMID 12837266
  3. HLTF and SHPRH are not essential for PCNA polyubiquitination, survival and somatic hypermutation: existence of an alternative E3 ligase. Krijger PH, et al. DNA Repair (Amst), 2011 Apr 3. PMID 21269891, Free PMC Article
  4. SHPRH and HLTF act in a damage-specific manner to coordinate different forms of postreplication repair and prevent mutagenesis. Lin JR, et al. Mol Cell, 2011 Apr 22. PMID 21396873, Free PMC Article
  5. DNA damage-specific deubiquitination regulates Rad18 functions to suppress mutagenesis. Zeman MK, et al. J Cell Biol, 2014 Jul 21. PMID 25023518, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Targeted (1)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within DNA damage response ISO
Inferred from Sequence Orthology
more info
 PubMed 
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in nucleosome assembly IEA
Inferred from Electronic Annotation
more info
  
involved_in protein polyubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein polyubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
part_of nucleosome IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase SHPRH
Names
RING-type E3 ubiquitin transferase SHPRH
SNF2, histone-linker, PHD and RING finger domain-containing helicase
NP_001071175.1
NP_001271283.1
NP_766525.3
XP_006512803.1

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_001077707.1 → NP_001071175.1  E3 ubiquitin-protein ligase SHPRH isoform a

    See identical proteins and their annotated locations for NP_001071175.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AK082160, BB650602, BC055003, BP757728
    Consensus CDS
    CCDS35838.1
    UniProtKB/Swiss-Prot
    Q7TPQ3, Q7TQ27, Q7TQ28, Q7TQ29, Q8BKE2, Q8BUW0, Q922Q3
    Related
    ENSMUSP00000039422.7, ENSMUST00000044053.13
    Conserved Domains (7) summary
    COG0553
    Location:1314 → 1669
    HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
    cd15547
    Location:651 → 697
    PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
    cd16569
    Location:1420 → 1470
    RING-HC_SHPRH; RING finger, HC subclass, found in SNF2 histone-linker PHD finger RING finger helicase (SHPRH) and similar proteins
    cd18793
    Location:1499 → 1624
    SF2_C_SNF; C-terminal helicase domain of the SNF family helicases
    cd18070
    Location:693 → 894
    DEXQc_SHPRH; DEXQ-box helicase domain of SHPRH
    pfam00538
    Location:435 → 506
    Linker_histone; linker histone H1 and H5 family
    cl28899
    Location:299 → 419
    DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

  2. NM_001284354.1 → NP_001271283.1  E3 ubiquitin-protein ligase SHPRH isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two exons and includes an alternate 3' terminal exon, compared to variant 1. It encodes isoform c which is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK044720, AK053448, BB650602, BC055003
    Consensus CDS
    CCDS70003.1
    UniProtKB/Swiss-Prot
    Q7TPQ3
    Related
    ENSMUSP00000132870.2, ENSMUST00000159541.8
    Conserved Domains (7) summary
    COG0553
    Location:1314 → 1619
    HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
    cd00162
    Location:1423 → 1473
    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:651 → 697
    PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
    pfam00176
    Location:707 → 978
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:1504 → 1613
    Helicase_C; Helicase conserved C-terminal domain
    pfam00538
    Location:435 → 506
    Linker_histone; linker histone H1 and H5 family
    pfam13424
    Location:1011 → 1095
    TPR_12; Tetratricopeptide repeat

  3. NM_172937.3 → NP_766525.3  E3 ubiquitin-protein ligase SHPRH isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two exons and its transcription extends past a splice site that is used in variant 1, resulting in an immediate translation termination and a distinct 3' UTR compared to variant 1. It encodes isoform b which is truncated at the C-terminus, compared to isoform a.
    Source sequence(s)
    AC158601, AK044720, AK082160, BB650602, BC055003
    Consensus CDS
    CCDS35839.1
    UniProtKB/Swiss-Prot
    Q7TPQ3
    Related
    ENSMUSP00000125849.2, ENSMUST00000054814.14
    Conserved Domains (7) summary
    COG0553
    Location:1314 → 1616
    HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
    cd00162
    Location:1423 → 1473
    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:651 → 697
    PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
    pfam00176
    Location:707 → 978
    SNF2_N; SNF2 family N-terminal domain
    pfam00271
    Location:1504 → 1613
    Helicase_C; Helicase conserved C-terminal domain
    pfam00538
    Location:435 → 506
    Linker_histone; linker histone H1 and H5 family
    pfam13424
    Location:1011 → 1095
    TPR_12; Tetratricopeptide repeat

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    11024765..11093339
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006512740.5 → XP_006512803.1  E3 ubiquitin-protein ligase SHPRH isoform X1

    See identical proteins and their annotated locations for XP_006512803.1

    UniProtKB/Swiss-Prot
    Q7TPQ3, Q7TQ27, Q7TQ28, Q7TQ29, Q8BKE2, Q8BUW0, Q922Q3
    Conserved Domains (7) summary
    COG0553
    Location:1314 → 1669
    HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
    cd15547
    Location:651 → 697
    PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
    cd16569
    Location:1420 → 1470
    RING-HC_SHPRH; RING finger, HC subclass, found in SNF2 histone-linker PHD finger RING finger helicase (SHPRH) and similar proteins
    cd18793
    Location:1499 → 1624
    SF2_C_SNF; C-terminal helicase domain of the SNF family helicases
    cd18070
    Location:693 → 894
    DEXQc_SHPRH; DEXQ-box helicase domain of SHPRH
    pfam00538
    Location:435 → 506
    Linker_histone; linker histone H1 and H5 family
    cl28899
    Location:299 → 419
    DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

RNA

  1. XR_871438.4 RNA Sequence

  2. XR_380065.5 RNA Sequence

    Related
    ENSMUST00000159810.8
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7TPQ3.1 GenPept UniProtKB/Swiss-Prot:Q7TPQ3

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