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

Gene ID: 388512, updated on 23-Nov-2023

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
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Genomic context

See CLEC17A in Genome Data Viewer
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_000019.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:14640150-14640734 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14172 Neighboring gene DnaJ heat shock protein family (Hsp40) member B1 Neighboring gene microRNA 639 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14662493-14662992 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14666446-14667327 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:14667328-14668208 Neighboring gene trans-2,3-enoyl-CoA reductase Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14673655-14674462 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10260 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:14676079-14676885 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14173 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14174 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:14693526-14693669 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14175 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14177 Neighboring gene NADH:ubiquinone oxidoreductase subunit B7 Neighboring gene RNA, 7SL, cytoplasmic 337, pseudogene Neighboring gene RNA, 7SL, cytoplasmic 842, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14178 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10261 Neighboring gene adhesion G protein-coupled receptor E3 Neighboring gene small nucleolar RNA, H/ACA box 104 Neighboring gene integrin subunit beta 1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10262 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10263 Neighboring gene zinc finger protein 333 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr19:14841378-14842577 Neighboring gene adhesion G protein-coupled receptor E2

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

Phenotypes

EBI GWAS Catalog

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ45910

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

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)

  1. NM_001204118.2NP_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:254374
    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)
  2. NM_207390.4NP_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:254298
    CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)

RNA

  1. 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
  2. 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

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    14580951..14612035
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (2) summary
    cd03590
    Location:186306
    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:1395
    PRK14954; DNA polymerase III subunits gamma and tau; Provisional
  2. XM_017026785.3XP_016882274.1  C-type lectin domain family 17, member A isoform X1

    Conserved Domains (2) summary
    cd03590
    Location:186306
    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:1395
    PRK14954; DNA polymerase III subunits gamma and tau; Provisional
  3. XM_017026787.3XP_016882276.1  C-type lectin domain family 17, member A isoform X1

    Conserved Domains (2) summary
    cd03590
    Location:186306
    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:1395
    PRK14954; DNA polymerase III subunits gamma and tau; Provisional
  4. XM_017026792.2XP_016882281.1  C-type lectin domain family 17, member A isoform X4

  5. XM_017026791.3XP_016882280.1  C-type lectin domain family 17, member A isoform X3

  6. XM_017026786.3XP_016882275.1  C-type lectin domain family 17, member A isoform X1

    Conserved Domains (2) summary
    cd03590
    Location:186306
    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:1395
    PRK14954; DNA polymerase III subunits gamma and tau; Provisional
  7. XM_047438796.1XP_047294752.1  C-type lectin domain family 17, member A isoform X2

  8. XM_017026793.2XP_016882282.1  C-type lectin domain family 17, member A isoform X5

  9. XM_017026794.2XP_016882283.1  C-type lectin domain family 17, member A isoform X6

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    14709830..14740103
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

  2. XM_054320950.1XP_054176925.1  C-type lectin domain family 17, member A isoform X1