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    Siglech sialic acid binding Ig-like lectin H [ Mus musculus (house mouse) ]

    Gene ID: 233274, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Siglechprovided by MGI
    Official Full Name
    sialic acid binding Ig-like lectin Hprovided by MGI
    Primary source
    MGI:MGI:2443256
    See related
    Ensembl:ENSMUSG00000051504 AllianceGenome:MGI:2443256
    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
    Siglec-H; 6430529G09Rik
    Summary
    Enables cargo receptor activity. Acts upstream of or within receptor-mediated endocytosis. Located in cell surface. Is expressed in liver. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in spleen adult (RPKM 7.9), mammary gland adult (RPKM 5.0) and 11 other tissues See more
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    Genomic context

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    Location:
    7 B5; 7 33.42 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (55417916..55429196)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (55768154..55779448)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_18951 Neighboring gene ribosomal protein S7 pseudogene Neighboring gene STARR-seq mESC enhancer starr_18952 Neighboring gene STARR-seq mESC enhancer starr_18954 Neighboring gene STARR-seq mESC enhancer starr_18955 Neighboring gene predicted gene, 26482 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:63049366-63049475 Neighboring gene tubulin, gamma complex component 5 Neighboring gene STARR-seq mESC enhancer starr_18956 Neighboring gene STARR-positive B cell enhancer mm9_chr7:63113113-63113414 Neighboring gene cytoplasmic FMR1 interacting protein 1 Neighboring gene STARR-seq mESC enhancer starr_18959 Neighboring gene peroxiredoxin 3 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. Siglec-H-Deficient Mice Show Enhanced Type I IFN Responses, but Do Not Develop Autoimmunity After Influenza or LCMV Infections. Szumilas N, et al. Front Immunol, 2021. PMID 34497606, Free PMC Article
    2. Branched Sialylated N-glycans Are Accumulated in Brain Synaptosomes and Interact with Siglec-H. Handa-Narumi M, et al. Cell Struct Funct, 2018 Aug 25. PMID 30033944
    3. Siglec-H protects from virus-triggered severe systemic autoimmunity. Schmitt H, et al. J Exp Med, 2016 Jul 25. PMID 27377589, Free PMC Article
    4. Cell depletion in mice that express diphtheria toxin receptor under the control of SiglecH encompasses more than plasmacytoid dendritic cells. Swiecki M, et al. J Immunol, 2014 May 1. PMID 24683186, Free PMC Article
    5. Antigen targeting to plasmacytoid dendritic cells via Siglec-H inhibits Th cell-dependent autoimmunity. Loschko J, et al. J Immunol, 2011 Dec 15. PMID 22079988

    See all (37) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Synthesized branched sialylated glycan clusters interacted with sialic acid-binding immunoglobulin-like lectin H (Siglec-H), which is known to be a microglia-specific molecule.
      Title: Branched Sialylated N-glycans Are Accumulated in Brain Synaptosomes and Interact with Siglec-H.
    2. The Siglec-H is specifically expressed by microglia in the steady state developing CNS and adult mice, except for in the choroid plexus
      Title: Siglec-H is a microglia-specific marker that discriminates microglia from CNS-associated macrophages and CNS-infiltrating monocytes.
    3. These results show that Siglec-H normally serves as a modulator of type I IFN responses after infection with a persistent virus and thereby prevents induction of autoimmune disease
      Title: Siglec-H protects from virus-triggered severe systemic autoimmunity.
    4. We found that lack of SiglecH enhanced IFN-I responses to viral infection, regardless of whether Plasmacytoid dendritic cells were depleted
      Title: Cell depletion in mice that express diphtheria toxin receptor under the control of SiglecH encompasses more than plasmacytoid dendritic cells.
    5. Siglec-H deficiency induced a significant increase in serum IFNalpha levels following systemic MCMV infection. Although Siglec-H modulates anti-viral IFNalpha production, the control of viral replication was unchanged in vivo.
      Title: Absence of Siglec-H in MCMV infection elevates interferon alpha production but does not enhance viral clearance.
    6. Antigen delivery to plasmacytoid dendritic cells via the specifically expressed surface molecule Siglec-H inhibits T helper (Th) cell and antibody responses in the presence of strong immune stimulation in an antigen-specific manner.
      Title: Antigen targeting to plasmacytoid dendritic cells via Siglec-H inhibits Th cell-dependent autoimmunity.
    7. are a family of sialic acid receptor proteins expressed in immune cells, recognize their ligands and play a role in the signal transduction.
      Title: [Functions and molecular evolution of Siglecs, a family of sialic acid receptor proteins].
    8. Siglec-H was expressed specifically on plasmacytoid dendritic cell precursors in bone marrow, spleen, blood, and lymph nodes.
      Title: Characterization of Siglec-H as a novel endocytic receptor expressed on murine plasmacytoid dendritic cell precursors.
    9. A member of the sialic acid binding Ig-like lectin (Siglec) family, Siglec-H, has recently been identified as a specific surface marker for pDCs in mice.
      Title: Sampling and signaling in plasmacytoid dendritic cells: the potential roles of Siglec-H.
    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

    Clone Names

    • MGC106898

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables cargo receptor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT enables sialic acid binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within establishment of localization in cell IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within receptor-mediated endocytosis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    sialic acid binding Ig-like lectin H
    Names
    SIGLEC-like protein

    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_001310738.2 → NP_001297667.1  sialic acid binding Ig-like lectin H isoform 2 precursor

      See identical proteins and their annotated locations for NP_001297667.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 2 which is shorter compared to isoform 1.
      Source sequence(s)
      AC160534
      Consensus CDS
      CCDS80731.1
      UniProtKB/TrEMBL
      A0A4W8, G3X9N0
      Related
      ENSMUSP00000091920.7, ENSMUST00000094360.13
      Conserved Domains (2) summary
      pfam07679
      Location:32 → 144
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    2. NM_001310740.2 → NP_001297669.1  sialic acid binding Ig-like lectin H isoform 3 precursor

      See identical proteins and their annotated locations for NP_001297669.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 5' coding region compared to variant 1. It encodes isoform 3 which is shorter compared to isoform 1.
      Source sequence(s)
      AC160534
      Consensus CDS
      CCDS80732.1
      UniProtKB/TrEMBL
      B7ZMQ5
      Related
      ENSMUSP00000134721.2, ENSMUST00000173835.2
      Conserved Domains (1) summary
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    3. NM_001401813.1 → NP_001388742.1  sialic acid binding Ig-like lectin H isoform 4 precursor

      Status: VALIDATED

      Source sequence(s)
      AC160534

    4. NM_178706.6 → NP_848821.2  sialic acid binding Ig-like lectin H isoform 1 precursor

      See identical proteins and their annotated locations for NP_848821.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC160534
      Consensus CDS
      CCDS21313.2
      UniProtKB/TrEMBL
      Q3Y597, Q4QQK7
      Related
      ENSMUSP00000058875.9, ENSMUST00000060416.15
      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      55417916..55429196
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152979.1 → XP_036008872.1  sialic acid binding Ig-like lectin H isoform X9

      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    2. XM_036152978.1 → XP_036008871.1  sialic acid binding Ig-like lectin H isoform X8

      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    3. XM_036152977.1 → XP_036008870.1  sialic acid binding Ig-like lectin H isoform X7

      Conserved Domains (2) summary
      cd00096
      Location:87 → 91
      Ig; Ig strand A [structural motif]
      cl11960
      Location:87 → 172
      Ig; Immunoglobulin domain

    4. XM_036152974.1 → XP_036008867.1  sialic acid binding Ig-like lectin H isoform X4

      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    5. XM_036152973.1 → XP_036008866.1  sialic acid binding Ig-like lectin H isoform X1

      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    6. XM_011250857.4 → XP_011249159.1  sialic acid binding Ig-like lectin H isoform X2

      Conserved Domains (1) summary
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    7. XM_006540827.5 → XP_006540890.2  sialic acid binding Ig-like lectin H isoform X5

      UniProtKB/TrEMBL
      Q3Y597
      Conserved Domains (1) summary
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    8. XM_011250858.4 → XP_011249160.1  sialic acid binding Ig-like lectin H isoform X3

      UniProtKB/TrEMBL
      Q3Y597
      Conserved Domains (1) summary
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    9. XM_011250859.3 → XP_011249161.1  sialic acid binding Ig-like lectin H isoform X6

      See identical proteins and their annotated locations for XP_011249161.1

      UniProtKB/TrEMBL
      Q3Y597, Q4QQK7
      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    10. XM_036152975.1 → XP_036008868.1  sialic acid binding Ig-like lectin H isoform X6

      UniProtKB/TrEMBL
      Q3Y597, Q4QQK7
      Related
      ENSMUSP00000130632.3, ENSMUST00000165045.9
      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    11. XM_036152976.1 → XP_036008869.1  sialic acid binding Ig-like lectin H isoform X6

      UniProtKB/TrEMBL
      Q3Y597, Q4QQK7
      Related
      ENSMUSP00000130943.2, ENSMUST00000171077.8
      Conserved Domains (2) summary
      cd00096
      Location:40 → 44
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:40 → 145
      Ig; Immunoglobulin domain

    12. XM_036152980.1 → XP_036008873.1  sialic acid binding Ig-like lectin H isoform X11

      Conserved Domains (2) summary
      cd00096
      Location:15 → 20
      Ig; Ig strand C [structural motif]
      cl11960
      Location:2 → 69
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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