CLEC17A C-type lectin domain containing 17A [Homo sapiens (human)] - Gene

Summary

Official Symbol: CLEC17Aprovided by HGNC
Official Full Name: C-type lectin domain containing 17Aprovided by HGNC
Primary source: HGNC:HGNC:34520
See related: Ensembl:ENSG00000187912 MIM:616838; AllianceGenome:HGNC:34520
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary: Enables fucose binding activity; identical protein binding activity; and mannose binding activity. Located in cell surface. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in lymph node (RPKM 5.2), spleen (RPKM 3.9) and 4 other tissues See more
Orthologs: all
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Genomic context

Location:: 19p13.12

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (14580951..14612035)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (14709830..14740103)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (14693896..14722847)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

High CLEC17A expression is associated with breast cancer.
Title: Carcinoma-associated fucosylated antigens are markers of the epithelial state and can contribute to cell adhesion through CLEC17A (Prolectin).
this novel receptor has the potential to function in carbohydrate-mediated communication between cells in the germinal center
Title: Prolectin, a glycan-binding receptor on dividing B cells in germinal centers.

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

EBI GWAS Catalog

Description
Identification of risk loci with shared effects on five major psychiatric disorders: a genome-wide analysis. EBI GWAS Catalog EBI GWAS CatalogPubMed

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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Markers

D19S385 (e-PCR)
- UniSTS:148090

D19S179 (e-PCR)
- UniSTS:146887

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables fucose binding	IBA Inferred from Biological aspect of Ancestor more info
enables fucose binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables mannose binding	IBA Inferred from Biological aspect of Ancestor more info
enables mannose binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in biological process involved in interspecies interaction between organisms	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: C-type lectin domain family 17, member A

Names: C-type lectin domain family 17 member A; prolectin

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_001204118.2 → NP_001191047.1 C-type lectin domain family 17, member A isoform 1

See identical proteins and their annotated locations for NP_001191047.1

Status: VALIDATED

Source sequence(s)

AC010527, AC135052, AC140008, BC140848

Consensus CDS

CCDS56087.1

UniProtKB/Swiss-Prot

A8MX68, B2RTX0, B7ZMM4, Q6ZS10

Related

ENSP00000393719.2, ENST00000417570.6

Conserved Domains (1) summary

cd03590
Location:254 → 374

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)
NM_207390.4 → NP_997273.3 C-type lectin domain family 17, member A isoform 2

See identical proteins and their annotated locations for NP_997273.3

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.

Source sequence(s)

AC010527, AC135052, AC140008

Consensus CDS

CCDS46002.2

UniProtKB/Swiss-Prot

Q6ZS10

Related

ENSP00000450065.1, ENST00000547437.5

Conserved Domains (1) summary

smart00034
Location:254 → 298

CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)

RNA

NR_109784.2 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate internal splice site, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC010527, AC135052, AC140008, AK127809, BC144664
NR_109785.2 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate 3' exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC010527, AC135052, AC140008, AK127809, BC144665

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

NC_000019.10 Reference GRCh38.p14 Primary Assembly

Range

14580951..14612035

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017026788.3 → XP_016882277.1 C-type lectin domain family 17, member A isoform X1

Conserved Domains (2) summary

cd03590
Location:186 → 306

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

PRK14954
Location:13 → 95

PRK14954; DNA polymerase III subunits gamma and tau; Provisional
XM_017026785.3 → XP_016882274.1 C-type lectin domain family 17, member A isoform X1

Conserved Domains (2) summary

cd03590
Location:186 → 306

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

PRK14954
Location:13 → 95

PRK14954; DNA polymerase III subunits gamma and tau; Provisional
XM_017026787.3 → XP_016882276.1 C-type lectin domain family 17, member A isoform X1

Conserved Domains (2) summary

cd03590
Location:186 → 306

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

PRK14954
Location:13 → 95

PRK14954; DNA polymerase III subunits gamma and tau; Provisional
XM_017026792.2 → XP_016882281.1 C-type lectin domain family 17, member A isoform X4
XM_017026791.3 → XP_016882280.1 C-type lectin domain family 17, member A isoform X3
XM_017026786.3 → XP_016882275.1 C-type lectin domain family 17, member A isoform X1

Conserved Domains (2) summary

cd03590
Location:186 → 306

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

PRK14954
Location:13 → 95

PRK14954; DNA polymerase III subunits gamma and tau; Provisional
XM_047438796.1 → XP_047294752.1 C-type lectin domain family 17, member A isoform X2
XM_017026793.2 → XP_016882282.1 C-type lectin domain family 17, member A isoform X5
XM_017026794.2 → XP_016882283.1 C-type lectin domain family 17, member A isoform X6

Alternate T2T-CHM13v2.0

Genomic

NC_060943.1 Alternate T2T-CHM13v2.0

Range

14709830..14740103

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054320951.1 → XP_054176926.1 C-type lectin domain family 17, member A isoform X2
XM_054320950.1 → XP_054176925.1 C-type lectin domain family 17, member A isoform X1