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CLEC4F C-type lectin domain family 4 member F [ Homo sapiens (human) ]

Gene ID: 165530, updated on 1-Jun-2020

Summary

Official Symbol
CLEC4Fprovided by HGNC
Official Full Name
C-type lectin domain family 4 member Fprovided by HGNC
Primary source
HGNC:HGNC:25357
See related
Ensembl:ENSG00000152672
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
Also known as
KCLR; CLECSF13
Expression
Broad expression in small intestine (RPKM 1.6), spleen (RPKM 1.4) and 17 other tissues See more
Orthologs

Genomic context

See CLEC4F in Genome Data Viewer
Location:
2p13.3
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (70808643..70825235, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (71035775..71047732, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene folliculogenesis specific bHLH transcription factor Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 21 Neighboring gene MOB4 pseudogene 1 Neighboring gene CD207 molecule Neighboring gene long intergenic non-protein coding RNA 1143

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

NHGRI GWAS Catalog

Description
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39110

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
endocytosis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
C-type lectin domain family 4 member F
Names
C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 13

NCBI Reference Sequences (RefSeq)

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_001258027.2NP_001244956.1  C-type lectin domain family 4 member F isoform 2

    See identical proteins and their annotated locations for NP_001244956.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' coding region and UTR compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC007395, AK301242, BC144652
    UniProtKB/TrEMBL
    B7Z704, B7ZMM1
    Conserved Domains (2) summary
    cd03590
    Location:471547
    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)
    pfam15619
    Location:264429
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  2. NM_001321308.2NP_001308237.1  C-type lectin domain family 4 member F isoform 3

    Status: VALIDATED

    Source sequence(s)
    AK096429, BC139723, BU740367
    Consensus CDS
    CCDS82464.1
    UniProtKB/Swiss-Prot
    Q8N1N0
    Related
    ENSP00000390581.1, ENST00000426626.1
    Conserved Domains (2) summary
    cd03590
    Location:471547
    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)
    cl25732
    Location:120448
    SMC_N; RecF/RecN/SMC N terminal domain
  3. NM_173535.3NP_775806.2  C-type lectin domain family 4 member F isoform 1

    See identical proteins and their annotated locations for NP_775806.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest protein (isoform 1).
    Source sequence(s)
    AC007395, AK096429, BU740367, CD701685
    Consensus CDS
    CCDS1910.1
    UniProtKB/Swiss-Prot
    Q8N1N0
    Related
    ENSP00000272367.2, ENST00000272367.7
    Conserved Domains (2) summary
    cd03590
    Location:471547
    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)
    pfam15619
    Location:264446
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    70808643..70825235 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017003519.1XP_016859008.1  C-type lectin domain family 4 member F isoform X1

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  2. XM_011532637.2XP_011530939.1  C-type lectin domain family 4 member F isoform X1

    See identical proteins and their annotated locations for XP_011530939.1

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  3. XM_011532642.2XP_011530944.1  C-type lectin domain family 4 member F isoform X6

    Conserved Domains (2) summary
    cd03590
    Location:441517
    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)
    pfam15619
    Location:234416
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  4. XM_011532639.2XP_011530941.1  C-type lectin domain family 4 member F isoform X3

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  5. XM_011532638.2XP_011530940.1  C-type lectin domain family 4 member F isoform X2

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  6. XM_011532640.2XP_011530942.1  C-type lectin domain family 4 member F isoform X4

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  7. XM_011532635.2XP_011530937.1  C-type lectin domain family 4 member F isoform X1

    See identical proteins and their annotated locations for XP_011530937.1

    Conserved Domains (2) summary
    cd03590
    Location:581657
    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)
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  8. XM_011532643.1XP_011530945.1  C-type lectin domain family 4 member F isoform X7

    Conserved Domains (2) summary
    cd03590
    Location:410486
    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)
    pfam15619
    Location:203385
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
  9. XM_011532641.2XP_011530943.1  C-type lectin domain family 4 member F isoform X5

    Conserved Domains (1) summary
    pfam15619
    Location:374556
    Lebercilin; Ciliary protein causing Leber congenital amaurosis disease
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