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    Slf1 SMC5-SMC6 complex localization factor 1 [ Mus musculus (house mouse) ]

    Gene ID: 105377, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Slf1provided by MGI
    Official Full Name
    SMC5-SMC6 complex localization factor 1provided by MGI
    Primary source
    MGI:MGI:2145448
    See related
    Ensembl:ENSMUSG00000021597 AllianceGenome:MGI:2145448
    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
    Brctx; Brctd1; Ankrd32; 2700017A04Rik; C730024G01Rik
    Summary
    Enables ubiquitin protein ligase binding activity. Involved in DNA damage response. Located in centrosome; cytoplasm; and nuclear inclusion body. Part of nucleosome. Is expressed in cerebral cortex marginal layer; cerebral cortex subventricular zone; cerebral cortex ventricular layer; cortical plate; and medulla oblongata basal plate mantle layer. Orthologous to human SLF1 (SMC5-SMC6 complex localization factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in CNS E11.5 (RPKM 4.5), CNS E18 (RPKM 4.5) and 23 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slf1 in Genome Data Viewer
    Location:
    13 C1; 13 40.98 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (77191207..77283632, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (77043088..77135513, complement)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene multiple C2 domains, transmembrane 1 Neighboring gene STARR-seq mESC enhancer starr_35065 Neighboring gene jagunal homolog 1 pseudogene Neighboring gene VISTA enhancer mm1556 Neighboring gene chromatin modifying protein 2A pseudogene Neighboring gene RIKEN cDNA 2210408I21 gene Neighboring gene 60S ribosomal protein L17-like Neighboring gene STARR-seq mESC enhancer starr_35066 Neighboring gene VISTA enhancer mm881 Neighboring gene STARR-seq mESC enhancer starr_35067 Neighboring gene STARR-seq mESC enhancer starr_35068 Neighboring gene STARR-seq mESC enhancer starr_35069 Neighboring gene STARR-seq mESC enhancer starr_35070 Neighboring gene NSA2 ribosome biogenesis homolog pseudogene Neighboring gene ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1, pseudogene

    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
    • 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. BRCTx is a novel, highly conserved RAD18-interacting protein. Adams DJ, et al. Mol Cell Biol, 2005 Jan. PMID 15632077, Free PMC Article
    2. RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage. Liu T, et al. DNA Repair (Amst), 2012 Feb 1. PMID 22036607, Free PMC Article
    3. An atlas of combinatorial transcriptional regulation in mouse and man. Ravasi T, et al. Cell, 2010 Mar 5. PMID 20211142, Free PMC Article
    4. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
    5. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RAD18 interacts with BRCTx in a phosphorylation-dependent manner
      Title: RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage.
    2. Results describe the cloning, characterization, and targeted mutagenesis of Brctx, a novel gene with a BRCT motif [Brctx].
      Title: BRCTx is a novel, highly conserved RAD18-interacting protein.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC102362, MGC117761

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein-containing complex binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase binding 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
    		  
    involved_in DNA damage response IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA damage response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of double-strand break repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of double-strand break repair ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of maintenance of mitotic sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of maintenance of mitotic sister chromatid cohesion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of protein-containing complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein localization to site of double-strand break IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein localization to site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear inclusion body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nucleosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in site of double-strand break IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in site of double-strand break ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    SMC5-SMC6 complex localization factor protein 1
    Names
    BRCT domain containing 1
    BRCT domain-containing protein 1
    ankyrin repeat domain 32
    ankyrin repeat domain-containing protein 32
    protein BRCTx

    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_134071.3 → NP_598832.3  SMC5-SMC6 complex localization factor protein 1

      See identical proteins and their annotated locations for NP_598832.3

      Status: VALIDATED

      Source sequence(s)
      AC122418, AC161266
      Consensus CDS
      CCDS26657.2
      UniProtKB/Swiss-Prot
      Q497V2, Q5XK30, Q8BHY5, Q8BQM6, Q8R3P9, Q921Y9
      Related
      ENSMUSP00000118312.3, ENSMUST00000151524.9
      Conserved Domains (4) summary
      sd00045
      Location:803 → 834
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:807 → 894
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      77191207..77283632 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011244453.4 → XP_011242755.1  SMC5-SMC6 complex localization factor protein 1 isoform X2

      See identical proteins and their annotated locations for XP_011242755.1

      Conserved Domains (4) summary
      sd00045
      Location:812 → 843
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:816 → 903
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    2. XM_036157822.1 → XP_036013715.1  SMC5-SMC6 complex localization factor protein 1 isoform X9

      Conserved Domains (4) summary
      sd00045
      Location:707 → 738
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:711 → 798
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    3. XM_036157820.1 → XP_036013713.1  SMC5-SMC6 complex localization factor protein 1 isoform X6

      Conserved Domains (4) summary
      sd00045
      Location:755 → 786
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:759 → 846
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    4. XM_006517035.4 → XP_006517098.1  SMC5-SMC6 complex localization factor protein 1 isoform X3

      Conserved Domains (4) summary
      sd00045
      Location:809 → 840
      ANK; ANK repeat [structural motif]
      cd17750
      Location:13 → 91
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:813 → 900
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:133 → 204
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    5. XM_011244456.4 → XP_011242758.1  SMC5-SMC6 complex localization factor protein 1 isoform X7

      Conserved Domains (4) summary
      sd00045
      Location:713 → 744
      ANK; ANK repeat [structural motif]
      cd17750
      Location:13 → 91
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:717 → 804
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:133 → 204
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    6. XM_011244455.4 → XP_011242757.1  SMC5-SMC6 complex localization factor protein 1 isoform X5

      Conserved Domains (4) summary
      sd00045
      Location:761 → 792
      ANK; ANK repeat [structural motif]
      cd17750
      Location:13 → 91
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:765 → 852
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:133 → 204
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    7. XM_011244452.4 → XP_011242754.1  SMC5-SMC6 complex localization factor protein 1 isoform X1

      Conserved Domains (4) summary
      sd00045
      Location:818 → 849
      ANK; ANK repeat [structural motif]
      cd17750
      Location:13 → 91
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:822 → 909
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:133 → 204
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    8. XM_017315352.3 → XP_017170841.1  SMC5-SMC6 complex localization factor protein 1 isoform X8

      Conserved Domains (3) summary
      sd00045
      Location:709 → 740
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:713 → 800
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:24 → 95
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    9. XM_036157821.1 → XP_036013714.1  SMC5-SMC6 complex localization factor protein 1 isoform X6

      Conserved Domains (4) summary
      sd00045
      Location:755 → 786
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:759 → 846
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    10. XM_017315351.3 → XP_017170840.1  SMC5-SMC6 complex localization factor protein 1 isoform X4

      UniProtKB/Swiss-Prot
      Q497V2, Q5XK30, Q8BHY5, Q8BQM6, Q8R3P9, Q921Y9
      Conserved Domains (4) summary
      sd00045
      Location:803 → 834
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:807 → 894
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    11. XM_011244454.4 → XP_011242756.1  SMC5-SMC6 complex localization factor protein 1 isoform X2

      See identical proteins and their annotated locations for XP_011242756.1

      Conserved Domains (4) summary
      sd00045
      Location:812 → 843
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:816 → 903
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    12. XM_036157818.1 → XP_036013711.1  SMC5-SMC6 complex localization factor protein 1 isoform X2

      Conserved Domains (4) summary
      sd00045
      Location:812 → 843
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:816 → 903
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    13. XM_036157819.1 → XP_036013712.1  SMC5-SMC6 complex localization factor protein 1 isoform X4

      UniProtKB/Swiss-Prot
      Q497V2, Q5XK30, Q8BHY5, Q8BQM6, Q8R3P9, Q921Y9
      Conserved Domains (4) summary
      sd00045
      Location:803 → 834
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:807 → 894
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    14. XM_017315350.3 → XP_017170839.1  SMC5-SMC6 complex localization factor protein 1 isoform X2

      Conserved Domains (4) summary
      sd00045
      Location:812 → 843
      ANK; ANK repeat [structural motif]
      cd17750
      Location:7 → 85
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      pfam12796
      Location:816 → 903
      Ank_2; Ankyrin repeats (3 copies)
      cl00038
      Location:127 → 198
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains

    15. XM_017315353.1 → XP_017170842.1  SMC5-SMC6 complex localization factor protein 1 isoform X11

      Conserved Domains (2) summary
      sd00045
      Location:322 → 353
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:326 → 413
      Ank_2; Ankyrin repeats (3 copies)

    16. XM_011244457.4 → XP_011242759.1  SMC5-SMC6 complex localization factor protein 1 isoform X10

      Conserved Domains (2) summary
      cd17750
      Location:13 → 91
      BRCT_SLF1; BRCT domain of SMC5-SMC6 complex localization factor protein 1 (SLF1) and similar proteins
      cl00038
      Location:133 → 204
      BRCT; C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8R3P9.3 GenPept UniProtKB/Swiss-Prot:Q8R3P9

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