CLEC11A C-type lectin domain containing 11A [Homo sapiens (human)] - Gene

Summary

Official Symbol: CLEC11Aprovided by HGNC
Official Full Name: C-type lectin domain containing 11Aprovided by HGNC
Primary source: HGNC:HGNC:10576
See related: Ensembl:ENSG00000105472 MIM:604713; AllianceGenome:HGNC:10576
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: P47; SCGF; LSLCL; CLECSF3
Summary: This gene encodes a member of the C-type lectin superfamily. The encoded protein is a secreted sulfated glycoprotein and functions as a growth factor for primitive hematopoietic progenitor cells. An alternative splice variant has been described but its biological nature has not been determined. [provided by RefSeq, Jul 2008]
Expression: Broad expression in bone marrow (RPKM 36.6), endometrium (RPKM 6.5) and 15 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19q13.33

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (50723364..50725708)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (53812175..53814519)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (51226621..51228965)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CLEC11A methylation is correlated to AML subtypes and cytogenetic risk factors but not patient demographics.
Title: CLEC11A methylation is correlated to AML subtypes and cytogenetic risk factors but not patient demographics.
Identification and characterization of CLEC11A and its derived immune signature in gastric cancer.
Title: Identification and characterization of CLEC11A and its derived immune signature in gastric cancer.
The effect of parathyroid hormone on osteogenesis is mediated partly by osteolectin.
Title: The effect of parathyroid hormone on osteogenesis is mediated partly by osteolectin.
Clec11a maintains the adult skeleton by promoting the differentiation of mesenchymal progenitors into mature osteoblasts.
Title: Clec11a/osteolectin is an osteogenic growth factor that promotes the maintenance of the adult skeleton.
Data show that asymptomatic patients with unstable plaques exhibited higher levels of endothelial microparticles (EMPs), CXCL9 chemokine and stem cell growth factor; lymphocyte secreted C-type lectin (SCGF-beta) compared to those with stable plaques.
Title: Elevated levels of endothelial-derived microparticles, and serum CXCL9 and SCGF-β are associated with unstable asymptomatic carotid plaques.
level of expression correlates with pain response in subjects with intervertebral disc disorders
Title: Exploratory study for identifying systemic biomarkers that correlate with pain response in patients with intervertebral disc disorders.
This is the first report of SCGF beta in heart failure patients.
Title: Prognostic value of circulating levels of stem cell growth factor beta (SCGF beta) in patients with Chagas' disease and idiopathic dilated cardiomyopathy.
These studies highlight a possible role of SCGFalpha in imatinib-induced changes of gastrointestinal stromal tumors structure, consistent with a therapeutic response.
Title: Proteomic detection of a large amount of SCGFα in the stroma of GISTs after imatinib therapy.
The results presented here demonstrate that homozygous T at -539 in the SCGF promoter is associated with elevated SCGF production, enhanced erythropoiesis, and protection against severe malarial anemia.
Title: A novel functional variant in the stem cell growth factor promoter protects against severe malarial anemia.
phagocytosis of hemozoin promotes a decrease in SCGF gene products, which may contribute to reduced erythropoiesis in children with severe malarial anemia.
Title: Suppression of a novel hematopoietic mediator in children with severe malarial anemia.

Submit: New GeneRIF Correction See all GeneRIFs (14)

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)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables carbohydrate binding	NAS Non-traceable Author Statement more info	PubMed
enables growth factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables growth factor activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in ossification	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in extracellular region	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	HDA more info	PubMed
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: C-type lectin domain family 11 member A

Names: C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 3; C-type lectin superfamily member 3; lymphocyte secreted C-type lectin; lymphocyte secreted long form of C-type lectin; osteolectin; stem cell growth factor; stem cell growth factor; lymphocyte secreted C-type lectin

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)

NM_002975.3 → NP_002966.1 C-type lectin domain family 11 member A precursor

See identical proteins and their annotated locations for NP_002966.1

Status: REVIEWED

Source sequence(s)

AF020044, BQ014793

Consensus CDS

CCDS12800.1

UniProtKB/Swiss-Prot

B2RAD4, Q9Y240

UniProtKB/TrEMBL

Q5U0B9

Related

ENSP00000250340.3, ENST00000250340.9

Conserved Domains (1) summary

cd03596
Location:177 → 321

CLECT_tetranectin_like; C-type lectin-like domain (CTLD) of the type found in the tetranectin (TN), cartilage derived C-type lectin (CLECSF1), and stem cell growth factor (SCGF)