Format

Send to:

Choose Destination

SIGLEC6 sialic acid binding Ig like lectin 6 [ Homo sapiens (human) ]

Gene ID: 946, updated on 11-Jun-2021

Summary

Official Symbol
SIGLEC6provided by HGNC
Official Full Name
sialic acid binding Ig like lectin 6provided by HGNC
Primary source
HGNC:HGNC:10875
See related
Ensembl:ENSG00000105492 MIM:604405
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
CD327; CD33L; OBBP1; CD33L1; CD33L2; CDW327
Summary
This gene encodes a member of the SIGLEC (sialic acid binding immunoglobulin-like lectin) family of proteins. The encoded transmembrane receptor binds sialyl-TN glycans and leptin. Placental expression of the encoded protein is upregulated in preeclampsia. [provided by RefSeq, Jul 2016]
Expression
Biased expression in placenta (RPKM 50.1) and lung (RPKM 2.3) See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See SIGLEC6 in Genome Data Viewer
Location:
19q13.41
Exon count:
11
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (51517819..51531803, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (52021073..52034924, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene CEA cell adhesion molecule 18 Neighboring gene sialic acid binding Ig like lectin 12 Neighboring gene sialic acid binding Ig like lectin 27, pseudogene Neighboring gene sialic acid binding Ig like lectin 28, pseudogene Neighboring gene sialic acid binding Ig like lectin 29, pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables sialic acid binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell-cell signaling TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
located_in membrane TAS
Traceable Author Statement
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
sialic acid-binding Ig-like lectin 6
Names
CD33 antigen-like 1
obesity-binding protein 1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_051195.1 RefSeqGene

    Range
    5190..19041
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001177547.3NP_001171018.1  sialic acid-binding Ig-like lectin 6 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate, in-frame splice site and lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 4), compared to isoform 1.
    Source sequence(s)
    AC020914, AK300170, BC035359
    Consensus CDS
    CCDS54307.1
    UniProtKB/Swiss-Prot
    O43699
    Related
    ENSP00000410679.1, ENST00000436458.5
    Conserved Domains (3) summary
    pfam07679
    Location:202284
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:111182
    Ig_3; Immunoglobulin domain
    cl11960
    Location:28105
    Ig; Immunoglobulin domain
  2. NM_001177548.3NP_001171019.1  sialic acid-binding Ig-like lectin 6 isoform 5 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternate, in-frame splice site and lacks an exon in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (5) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC020914, AK300182, BC035359
    Consensus CDS
    CCDS54308.1
    UniProtKB/Swiss-Prot
    O43699
    Related
    ENSP00000353071.4, ENST00000359982.8
    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:265347
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  3. NM_001177549.3NP_001171020.1  sialic acid-binding Ig-like lectin 6 isoform 6 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) uses an alternate, in-frame splice site and lacks two exons in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (5) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC020914, BC035359, BC140798, D86359
    Consensus CDS
    CCDS59417.1
    UniProtKB/Swiss-Prot
    O43699
    Related
    ENSP00000375674.3, ENST00000391797.3
    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:243325
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:143207
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  4. NM_001245.7NP_001236.4  sialic acid-binding Ig-like lectin 6 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001236.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC020914, BC035359
    Consensus CDS
    CCDS12834.3
    UniProtKB/Swiss-Prot
    O43699
    UniProtKB/TrEMBL
    A0A024R4K4
    Related
    ENSP00000401502.2, ENST00000425629.8
    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:254336
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  5. NM_198845.6NP_942142.3  sialic acid-binding Ig-like lectin 6 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC020914, BC035359
    Consensus CDS
    CCDS12835.3
    UniProtKB/Swiss-Prot
    O43699
    Related
    ENSP00000344064.4, ENST00000346477.7
    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:238320
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  6. NM_198846.6NP_942143.3  sialic acid-binding Ig-like lectin 6 isoform 3 precursor

    See identical proteins and their annotated locations for NP_942143.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks two exons in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC020914, BC035359, D86359
    Consensus CDS
    CCDS12836.3
    UniProtKB/Swiss-Prot
    O43699
    Related
    ENSP00000345907.4, ENST00000343300.8
    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:254336
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    51517819..51531803 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011527536.3XP_011525838.1  sialic acid-binding Ig-like lectin 6 isoform X4

    Conserved Domains (3) summary
    pfam07679
    Location:229311
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:111182
    Ig_3; Immunoglobulin domain
    cl11960
    Location:28105
    Ig; Immunoglobulin domain
  2. XM_011527535.3XP_011525837.1  sialic acid-binding Ig-like lectin 6 isoform X3

    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:254336
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:143207
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  3. XM_011527538.3XP_011525840.1  sialic acid-binding Ig-like lectin 6 isoform X6

    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:265347
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  4. XM_011527533.3XP_011525835.1  sialic acid-binding Ig-like lectin 6 isoform X1

    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:265347
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  5. XM_011527537.2XP_011525839.1  sialic acid-binding Ig-like lectin 6 isoform X5

    Conserved Domains (3) summary
    pfam07679
    Location:218300
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:111182
    Ig_3; Immunoglobulin domain
    cl11960
    Location:28105
    Ig; Immunoglobulin domain
  6. XM_011527539.3XP_011525841.1  sialic acid-binding Ig-like lectin 6 isoform X8

    Conserved Domains (3) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  7. XM_011527534.3XP_011525836.1  sialic acid-binding Ig-like lectin 6 isoform X2

    Conserved Domains (4) summary
    smart00410
    Location:36141
    IG_like; Immunoglobulin like
    pfam07679
    Location:265347
    I-set; Immunoglobulin I-set domain
    pfam13927
    Location:147218
    Ig_3; Immunoglobulin domain
    cl11960
    Location:31141
    Ig; Immunoglobulin domain
  8. XM_017027511.2XP_016883000.1  sialic acid-binding Ig-like lectin 6 isoform X7

RNA

  1. XR_935877.3 RNA Sequence

Support Center