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SIGLEC1 sialic acid binding Ig like lectin 1 [ Homo sapiens (human) ]

Gene ID: 6614, updated on 5-Jan-2025

Summary

Official Symbol
SIGLEC1provided by HGNC
Official Full Name
sialic acid binding Ig like lectin 1provided by HGNC
Primary source
HGNC:HGNC:11127
See related
Ensembl:ENSG00000088827 MIM:600751; AllianceGenome:HGNC:11127
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
Also known as
SN; CD169; SIGLEC-1
Summary
This gene encodes a member of the immunoglobulin superfamily. The encoded protein is a lectin-like adhesion molecule that binds glycoconjugate ligands on cell surfaces in a sialic acid-dependent manner. It is a type I transmembrane protein expressed only by a subpopulation of macrophages and is involved in mediating cell-cell interactions. The protein plays an important role in multiple human diseases and bacterial and viral infections has been shown to enhance SARS-CoV-2 infection. [provided by RefSeq, Dec 2021]
Annotation information
Note: This gene has been reviewed for its involvement in coronavirus biology, and is involved in SARS-CoV-2 infection.
Expression
Broad expression in placenta (RPKM 8.2), spleen (RPKM 6.4) and 20 other tissues See more
Orthologs
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Genomic context

See SIGLEC1 in Genome Data Viewer
Location:
20p13
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (3686970..3712600, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (3717911..3743544, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (3667617..3693247, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12622 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12623 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr20:3647557-3648086 Neighboring gene GDNF family receptor alpha 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3651223-3651828 Neighboring gene ADAM metallopeptidase domain 33 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3657784-3658386 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3658990-3659591 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:3662082-3662975 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3678505-3679004 Neighboring gene Sharpr-MPRA regulatory region 3812 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12624 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_60092 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3713394-3713973 Neighboring gene heat shock protein family A (Hsp70) member 12B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3722898-3723425 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3725082-3725992 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:3729440-3729992 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:3729993-3730543 Neighboring gene adipose secreted signaling protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:3747545-3748309 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:3748437-3749023

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 entry and replication require functional SIGLEC1 in monocyte derived macrophages; antibodies against SIGLEC1 inhibit replication PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env (gp120) V1/V2 loops bind to SIGLEC1 to enter monocyte derived macrophages PubMed
env Interferon-alpha- and interferon-gamma-induced sialoadhesin-expressing monocytes adsorb HIV-1 through interaction with the sialic acid residues on the viral envelope glycoprotein gp120 PubMed
Pr55(Gag) gag Co-localization of HIV-1 Gag virus-like particles in THP-1/CD169YF cells is reduced within CD81+ compartments, but enhanced within CD63+ or LAMP1+ compartments PubMed
gag HIV-1 Gag co-localizes with Siglec-1 in the sac-like compartment PubMed
capsid gag IFN-gamma-activated dendritic cells, monocytes, and macrophages have an enhanced ability to capture and trans-infect HIV-1 via Siglec-1 recognition of viral membrane gangliosides in terms of detected levels of p24 PubMed

Go to the HIV-1, Human Interaction Database

Interactions

General gene information

Clone Names

  • FLJ00051, FLJ00055, FLJ00073, FLJ00411, FLJ32150, DKFZp667F058

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding PubMed 
enables virion binding  
Component Evidence Code Pubs
is_active_in early endosome  
located_in extracellular region  
is_active_in late endosome  
located_in membrane PubMed 
is_active_in plasma membrane  
is_active_in plasma membrane PubMed 

General protein information

Preferred Names
sialoadhesin
Names
sialic acid binding Ig-like lectin 1, sialoadhesin
sialic acid-binding immunoglobulin-like lectin 1

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_001367089.1NP_001354018.1  sialoadhesin isoform 2 precursor

    Status: REVIEWED

    Source sequence(s)
    AL109804
    UniProtKB/TrEMBL
    A5D8Z7
    Related
    ENSP00000516734.1, ENST00000707083.1
    Conserved Domains (8) summary
    smart00409
    Location:431503
    IG; Immunoglobulin
    smart00410
    Location:715792
    IG_like; Immunoglobulin like
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:514594
    Ig_2; Immunoglobulin domain
    pfam13927
    Location:242309
    Ig_3; Immunoglobulin domain
    cd00096
    Location:15521627
    Ig; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain
    cl28434
    Location:898980
    I-set; Immunoglobulin I-set domain
  2. NM_023068.4NP_075556.1  sialoadhesin isoform 1 precursor

    See identical proteins and their annotated locations for NP_075556.1

    Status: REVIEWED

    Source sequence(s)
    AF230073, AK024462, AL109804, AY927519, CD365566
    Consensus CDS
    CCDS13060.1
    UniProtKB/Swiss-Prot
    Q96DL4, Q9BZZ2, Q9GZS5, Q9H1H6, Q9H1H7, Q9H7L7
    UniProtKB/TrEMBL
    A5D8Z7
    Related
    ENSP00000341141.4, ENST00000344754.6
    Conserved Domains (8) summary
    cd00096
    Location:430503
    Ig; Immunoglobulin domain
    smart00409
    Location:516594
    IG; Immunoglobulin
    smart00410
    Location:247323
    IG_like; Immunoglobulin like
    pfam07679
    Location:898980
    I-set; Immunoglobulin I-set domain
    pfam00047
    Location:715788
    ig; Immunoglobulin domain
    pfam08205
    Location:142228
    C2-set_2; CD80-like C2-set immunoglobulin domain
    pfam13895
    Location:245323
    Ig_2; Immunoglobulin domain
    cl11960
    Location:21136
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    3686970..3712600 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    3717911..3743544 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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