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    Slf2 SMC5-SMC6 complex localization factor 2 [ Mus musculus (house mouse) ]

    Gene ID: 226151, updated on 23-Jun-2021

    Summary

    Official Symbol
    Slf2provided by MGI
    Official Full Name
    SMC5-SMC6 complex localization factor 2provided by MGI
    Primary source
    MGI:MGI:1924968
    See related
    Ensembl:ENSMUSG00000036097
    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
    Fam17; Fam178a; 3632432H19
    Expression
    Ubiquitous expression in CNS E18 (RPKM 11.0), ovary adult (RPKM 9.6) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Slf2 in Genome Data Viewer
    Location:
    19; 19 C3
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (44906948..44972225)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (44918506..44983786)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (45005609..45058277)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene paired box 2 Neighboring gene RIKEN cDNA 1700039E22 gene Neighboring gene 3-phosphoglycerate dehydrogenase pseudogene Neighboring gene predicted gene, 25482 Neighboring gene RIKEN cDNA 4930414N06 gene Neighboring gene sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G Neighboring gene mitochondrial ribosomal protein L43 Neighboring gene twinkle mtDNA helicase

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • 6030443O07Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in site of double-strand break IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    SMC5-SMC6 complex localization factor protein 2
    Names
    family with sequence similarity 178, member A
    protein FAM178A

    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_001081225.2NP_001074694.1  SMC5-SMC6 complex localization factor protein 2 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC131105, AC132957, AK031688, BC060679, CJ060323, CK639201
      Consensus CDS
      CCDS37999.1
      UniProtKB/TrEMBL
      E9Q839
      Related
      ENSMUSP00000093758.4, ENSMUST00000096053.5
      Conserved Domains (1) summary
      pfam14816
      Location:6521018
      FAM178; Family of unknown function, FAM178
    2. NM_172638.2NP_766226.2  SMC5-SMC6 complex localization factor protein 2 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the coding region, resulting in a novel 5' UTR and the use of an alternate start codon, compared to variant 1. The encoded isoform (2) has a novel N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AK147588, BC060679, CJ060323, CK639201
      Consensus CDS
      CCDS89398.1
      Related
      ENSMUSP00000158404.2, ENSMUST00000237505.2
      Conserved Domains (1) summary
      pfam14816
      Location:7376
      FAM178; Family of unknown function, FAM178

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000085.7 Reference GRCm39 C57BL/6J

      Range
      44906948..44972225
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006527000.5XP_006527063.1  SMC5-SMC6 complex localization factor protein 2 isoform X1

      Conserved Domains (2) summary
      PTZ00108
      Location:270550
      PTZ00108; DNA topoisomerase 2-like protein; Provisional
      pfam14816
      Location:588957
      FAM178; Family of unknown function, FAM178
    2. XM_011247236.4XP_011245538.1  SMC5-SMC6 complex localization factor protein 2 isoform X2

      Conserved Domains (2) summary
      PTZ00108
      Location:334614
      PTZ00108; DNA topoisomerase 2-like protein; Provisional
      pfam14816
      Location:652731
      FAM178; Family of unknown function, FAM178

    RNA

    1. XR_001782585.2 RNA Sequence

    2. XR_386468.4 RNA Sequence

    3. XR_004940141.1 RNA Sequence

      Related
      ENSMUST00000236895.2
    4. XR_004940142.1 RNA Sequence

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