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

    Gene ID: 388512, updated on 19-Jun-2024

    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
    NEW
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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 D-mannose binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables D-mannose binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 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