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Slfn4 schlafen 4 [ Mus musculus (house mouse) ]

Gene ID: 20558, updated on 2-Nov-2024

Summary

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Official Symbol
Slfn4provided by MGI
Official Full Name
schlafen 4provided by MGI
Primary source
MGI:MGI:1329010
See related
Ensembl:ENSMUSG00000000204 AllianceGenome:MGI:1329010
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
The protein encoded by this gene belongs to the Schlafen family. All members of this family contain a Schlafen box domain that lies near an AAA domain. This protein belongs to the group 2 subset of Schlafen proteins, which are defined by a molecular weight between 58 kDa and 68 kDa and by the presence of a SWADL domain that contains the sequence Ser-Trp-Ala-Asp-Leu. In malignant melanoma cells, gene expression is up-regulated in response to interferon alpha. In bone marrow-derived macrophages, expression of this gene is induced during activation by Toll-like receptor agonists and repressed during macrophage colony-stimulating factor-mediated differentiation. Myelopoiesis is disrupted by constitutive overexpression in myeloid-lineage cells. A pseudogene of this gene is found on chromosome 11. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2014]
Expression
Biased expression in liver E18 (RPKM 11.4), colon adult (RPKM 3.3) and 3 other tissues See more
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Genomic context

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See Slfn4 in Genome Data Viewer
Location:
11 C; 11 50.3 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (83066001..83081042)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (83175172..83190216)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53233 Neighboring gene schlafen 1 Neighboring gene predicted gene, 38922 Neighboring gene STARR-seq mESC enhancer starr_30189 Neighboring gene schlafen 3 Neighboring gene STARR-positive B cell enhancer ABC_E3002 Neighboring gene STARR-positive B cell enhancer ABC_E1423 Neighboring gene schlafen long noncoding RNA

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. Macrophage activation and differentiation signals regulate schlafen-4 gene expression: evidence for Schlafen-4 as a modulator of myelopoiesis. van Zuylen WJ, et al. PLoS One, 2011 Jan 7. PMID 21249125, Free PMC Article
  2. Schlafen4(+)-MDSC in Helicobacter-induced gastric metaplasia reveals role for GTPases. Ding L, et al. Front Immunol, 2023. PMID 37334372, Free PMC Article
  3. Gli1 deletion prevents Helicobacter-induced gastric metaplasia and expansion of myeloid cell subsets. El-Zaatari M, et al. PLoS One, 2013. PMID 23520544, Free PMC Article
  4. Schlafen 4-expressing myeloid-derived suppressor cells are induced during murine gastric metaplasia. Ding L, et al. J Clin Invest, 2016 Aug 1. PMID 27427984, Free PMC Article
  5. Expression and regulatory effects of murine Schlafen (Slfn) genes in malignant melanoma and renal cell carcinoma. Mavrommatis E, et al. J Biol Chem, 2013 Nov 15. PMID 24089532, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SLFN4 marks a GLI1-dependent population of myeloid-derived suppressor cells that predict a shift in the gastric mucosa to a metaplastic phenotype
    Title: Schlafen 4-expressing myeloid-derived suppressor cells are induced during murine gastric metaplasia.
  2. several mouse Slfn genes are up-regulated in response to IFN treatment of mouse melanoma and renal cell carcinoma cells, including Slfn1, Slfn2, Slfn4, Slfn5, and Slfn8.
    Title: Expression and regulatory effects of murine Schlafen (Slfn) genes in malignant melanoma and renal cell carcinoma.
  3. Slfn4 mRNA levels were up-regulated during macrophage activation but down-regulated during differentiation. Constitutive Slfn4 expression in the myeloid lineage in vivo perturbs myelopoiesis
    Title: Macrophage activation and differentiation signals regulate schlafen-4 gene expression: evidence for Schlafen-4 as a modulator of myelopoiesis.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA nuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables molecular_function ND
No biological Data available
more info
  
enables ribosome binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within response to bacterium IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
schlafen 4
Names
Schlafen family member 4

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_001302559.1 → NP_001289488.1  schlafen 4

    See identical proteins and their annotated locations for NP_001289488.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK137689, AL669916, BM230056
    Consensus CDS
    CCDS25158.1
    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Related
    ENSMUSP00000132595.2, ENSMUST00000167596.2
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

  2. NM_011410.3 → NP_035540.2  schlafen 4

    See identical proteins and their annotated locations for NP_035540.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK137559, AK137689, AL669916, BM230056
    Consensus CDS
    CCDS25158.1
    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Related
    ENSMUSP00000000208.6, ENSMUST00000000208.13
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    83066001..83081042
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006532660.4 → XP_006532723.1  schlafen 4 isoform X1

    See identical proteins and their annotated locations for XP_006532723.1

    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

  2. XM_006532661.4 → XP_006532724.1  schlafen 4 isoform X1

    See identical proteins and their annotated locations for XP_006532724.1

    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

  3. XM_006532659.4 → XP_006532722.1  schlafen 4 isoform X1

    See identical proteins and their annotated locations for XP_006532722.1

    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

  4. XM_006532663.4 → XP_006532726.1  schlafen 4 isoform X1

    See identical proteins and their annotated locations for XP_006532726.1

    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10, Q3UV66
    Conserved Domains (1) summary
    PHA02782
    Location:94 → 384
    PHA02782; hypothetical protein; Provisional

  5. XM_036156481.1 → XP_036012374.1  schlafen 4 isoform X2

    UniProtKB/TrEMBL
    B2RWZ6, Q3UV10
    Conserved Domains (1) summary
    PHA02782
    Location:35 → 325
    PHA02782; hypothetical protein; Provisional
Nucleotide Protein Strain
Heading Accession and Version

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