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SIGLEC11 sialic acid binding Ig like lectin 11 [ Homo sapiens (human) ]

Gene ID: 114132, updated on 3-Apr-2024

Summary

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Official Symbol
SIGLEC11provided by HGNC
Official Full Name
sialic acid binding Ig like lectin 11provided by HGNC
Primary source
HGNC:HGNC:15622
See related
Ensembl:ENSG00000161640 MIM:607157; AllianceGenome:HGNC:15622
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of the sialic acid-binding immunoglobulin-like lectin family. These cell surface lectins are characterized by structural motifs in the immunoglobulin (Ig)-like domains and sialic acid recognition sites in the first Ig V set domain. This family member mediates anti-inflammatory and immunosuppressive signaling. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
Expression
Biased expression in ovary (RPKM 40.7), spleen (RPKM 13.8) and 1 other tissue See more
Orthologs
all
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Genomic context

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Location:
19q13.33
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (49948985..49961172, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (52949097..52961282, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (50452242..50464429, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene interleukin 4 induced 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14968 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:50411173-50411894 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10946 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14969 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:50415677-50416528 Neighboring gene nucleoporin 62 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:50424983-50425650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:50425735-50426488 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10947 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10948 Neighboring gene activating transcription factor 5 Neighboring gene microRNA 4751 Neighboring gene small nucleolar RNA U3 Neighboring gene uncharacterized LOC124904745 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:50474918-50475418 Neighboring gene sialic acid binding Ig like lectin 16

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Human-specific microglial Siglec-11 transcript variant has the potential to affect polysialic acid-mediated brain functions at a distance. Hane M, et al. Glycobiology, 2021 Apr 1. PMID 32845322, Free PMC Article
  2. Expression of Siglec-11 by human and chimpanzee ovarian stromal cells, with uniquely human ligands: implications for human ovarian physiology and pathology. Wang X, et al. Glycobiology, 2011 Aug. PMID 21467073, Free PMC Article
  3. Alleviation of neurotoxicity by microglial human Siglec-11. Wang Y, et al. J Neurosci, 2010 Mar 3. PMID 20203208, Free PMC Article
  4. SIGLEC16 encodes a DAP12-associated receptor expressed in macrophages that evolved from its inhibitory counterpart SIGLEC11 and has functional and non-functional alleles in humans. Cao H, et al. Eur J Immunol, 2008 Aug. PMID 18629938
  5. A human-specific gene in microglia. Hayakawa T, et al. Science, 2005 Sep 9. PMID 16151003

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Human-specific microglial Siglec-11 transcript variant has the potential to affect polysialic acid-mediated brain functions at a distance.
    Title: Human-specific microglial Siglec-11 transcript variant has the potential to affect polysialic acid-mediated brain functions at a distance.
  2. The authors demonstrated that the human-specific pathogen Escherichia coli K1 uses its polysialic acid capsule as a molecular mimic to engage Siglec-11 and escape killing. In contrast, engagement of the activating counterpart Siglec-16 increases elimination of bacteria.
    Title: Paired Siglec receptors generate opposite inflammatory responses to a human-specific pathogen.
  3. The results indicate potential roles for Siglec-11 in ovarian physiology and human evolution.
    Title: Expression of Siglec-11 by human and chimpanzee ovarian stromal cells, with uniquely human ligands: implications for human ovarian physiology and pathology.
  4. Siglec-11 ectopically expressed on murine microglia interacts with PSA on neurons, reduces LPS-induced gene transcription of proinflammatory mediators, impairs phagocytosis and alleviates microglial neurotoxicity.
    Title: Alleviation of neurotoxicity by microglial human Siglec-11.
  5. Observational study of gene-disease association. (HuGE Navigator)
    Title: New genetic associations detected in a host response study to hepatitis B vaccine.
  6. SIGLEC16 encodes a DAP12-associated receptor expressed in macrophages that evolved from its inhibitory counterpart SIGLEC11 and has functional and non-functional alleles in humans.
    Title: SIGLEC16 encodes a DAP12-associated receptor expressed in macrophages that evolved from its inhibitory counterpart SIGLEC11 and has functional and non-functional alleles in humans.
  7. cloning and characterization; a recently evolved signaling that can interact with SHP-1 and SHP-2 and is expressed by tissue macrophages including brain microglia
    Title: Cloning and characterization of human Siglec-11. A recently evolved signaling molecule that can interact with SHP-1 and SHP-2 and is expressed by tissue macrophages, including brain microglia.
  8. expressed in human but not in chimpanzee brain microglia; findings indicate that human SIGLEC11 emerged through human-specific gene conversion by an adjacent pseudogene
    Title: A human-specific gene in microglia.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

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 GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sialic acid binding IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  
Component Evidence Code Pubs
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 11
Names
siglec-11

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.

Genomic

  1. NG_030323.1 RefSeqGene

    Range
    5001..17188
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001135163.1 → NP_001128635.1  sialic acid-binding Ig-like lectin 11 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the mid coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
    Source sequence(s)
    AC011452, AF337818, AY358135
    Consensus CDS
    CCDS46150.1
    UniProtKB/Swiss-Prot
    Q96RL6
    Related
    ENSP00000398891.2, ENST00000426971.2
    Conserved Domains (4) summary
    cd00096
    Location:387 → 450
    Ig; Immunoglobulin domain
    cd05712
    Location:34 → 153
    Ig_Siglec_N; Immunoglobulin (Ig) domain at the N terminus of Siglec (sialic acid-binding Ig-like lectins)
    smart00408
    Location:280 → 341
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:275 → 351
    IG_like; Immunoglobulin like

  2. NM_052884.3 → NP_443116.2  sialic acid-binding Ig-like lectin 11 isoform 1 precursor

    See identical proteins and their annotated locations for NP_443116.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC011452, AF337818
    Consensus CDS
    CCDS12790.2
    UniProtKB/Swiss-Prot
    Q96RL6
    Related
    ENSP00000412361.2, ENST00000447370.6
    Conserved Domains (4) summary
    cd00096
    Location:387 → 450
    Ig; Immunoglobulin domain
    cd05712
    Location:34 → 153
    Ig_Siglec_N; Immunoglobulin (Ig) domain at the N terminus of Siglec (sialic acid-binding Ig-like lectins)
    smart00408
    Location:280 → 341
    IGc2; Immunoglobulin C-2 Type
    smart00410
    Location:275 → 351
    IG_like; Immunoglobulin like

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    49948985..49961172 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005258476.4 → XP_005258533.3  sialic acid-binding Ig-like lectin 11 isoform X1

  2. XM_047438122.1 → XP_047294078.1  sialic acid-binding Ig-like lectin 11 isoform X2

  3. XM_005258477.4 → XP_005258534.3  sialic acid-binding Ig-like lectin 11 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    52949097..52961282 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054319697.1 → XP_054175672.1  sialic acid-binding Ig-like lectin 11 isoform X1

  2. XM_054319698.1 → XP_054175673.1  sialic acid-binding Ig-like lectin 11 isoform X2

  3. XM_054319699.1 → XP_054175674.1  sialic acid-binding Ig-like lectin 11 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96RL6.2 GenPept UniProtKB/Swiss-Prot:Q96RL6

Gene LinkOut

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