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Clec2d C-type lectin domain family 2, member d [ Mus musculus (house mouse) ]

Gene ID: 93694, updated on 12-May-2024

Summary

Official Symbol
Clec2dprovided by MGI
Official Full Name
C-type lectin domain family 2, member dprovided by MGI
Primary source
MGI:MGI:2135589
See related
Ensembl:ENSMUSG00000030157 AllianceGenome:MGI:2135589
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Clrb; Ocil; Clr-b
Summary
Enables natural killer cell lectin-like receptor binding activity. Acts upstream of or within negative regulation of osteoclast differentiation and protection from natural killer cell mediated cytotoxicity. Located in external side of plasma membrane. Is expressed in several structures, including gut; liver; skeleton; spleen; and urinary system. Orthologous to human CLEC2D (C-type lectin domain family 2 member D). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in lung adult (RPKM 34.9), large intestine adult (RPKM 31.4) and 17 other tissues See more
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Genomic context

See Clec2d in Genome Data Viewer
Location:
6 F3; 6 63.16 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (129157578..129163498)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (129180615..129186535)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene killer cell lectin-like receptor subfamily B member 1, pseudogene 1 Neighboring gene predicted gene, 53342 Neighboring gene STARR-seq mESC enhancer starr_17476 Neighboring gene STARR-seq mESC enhancer starr_17477 Neighboring gene predicted gene, 26160 Neighboring gene STARR-positive B cell enhancer ABC_E4870 Neighboring gene predicted gene, 38906 Neighboring gene STARR-positive B cell enhancer ABC_E6494 Neighboring gene STARR-positive B cell enhancer ABC_E9102 Neighboring gene RIKEN cDNA 2310001H17 gene Neighboring gene STARR-positive B cell enhancer ABC_E690 Neighboring gene STARR-positive B cell enhancer ABC_E6495 Neighboring gene STARR-positive B cell enhancer ABC_E4871 Neighboring gene STARR-positive B cell enhancer ABC_E8140 Neighboring gene STARR-positive B cell enhancer ABC_E9019

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

Markers

Clone Names

  • MGC123478

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables carbohydrate binding ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
enables natural killer cell lectin-like receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables natural killer cell lectin-like receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transmembrane signaling receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
Component Evidence Code Pubs
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in external side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
C-type lectin domain family 2 member D
Names
C lectin-related protein B
C-type lectin-domain family 2 member D
C-type lectin-related protein B
lectin-like transmembrane protein
osteoclast inhibitory 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)

  1. NM_053109.3NP_444339.1  C-type lectin domain family 2 member D

    See identical proteins and their annotated locations for NP_444339.1

    Status: VALIDATED

    Source sequence(s)
    AW987086, AY320031
    Consensus CDS
    CCDS20581.1
    UniProtKB/Swiss-Prot
    Q1AFZ3, Q8VI19, Q8VI20, Q91V08
    UniProtKB/TrEMBL
    F5BFH0
    Related
    ENSMUSP00000032260.6, ENSMUST00000032260.6
    Conserved Domains (3) summary
    cd03593
    Location:80192
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
    PHA02867
    Location:39196
    PHA02867; C-type lectin protein; Provisional
    pfam05473
    Location:3144
    Herpes_UL45; UL45 protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    129157578..129163498
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006506805.5XP_006506868.1  C-type lectin domain family 2 member D isoform X1

    Conserved Domains (1) summary
    PHA02642
    Location:1143
    PHA02642; C-type lectin-like protein; Provisional