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Clec1b C-type lectin domain family 1, member b [ Mus musculus (house mouse) ]

Gene ID: 56760, updated on 18-Apr-2024

Summary

Official Symbol
Clec1bprovided by MGI
Official Full Name
C-type lectin domain family 1, member bprovided by MGI
Primary source
MGI:MGI:1913287
See related
Ensembl:ENSMUSG00000030159 AllianceGenome:MGI:1913287
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
Clec2; Clec-2; 1810061I13Rik
Summary
Predicted to enable transmembrane signaling receptor activity. Acts upstream of or within platelet formation. Is integral component of plasma membrane. Is expressed in dorsal root ganglion; liver; lung; and spinal cord. Orthologous to human CLEC1B (C-type lectin domain family 1 member B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in liver E18 (RPKM 7.3), liver E14 (RPKM 6.1) and 8 other tissues See more
Orthologs
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Genomic context

Location:
6 F3; 6 63.3 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (129374260..129382376)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (129397297..129405413)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 2, member m Neighboring gene STARR-positive B cell enhancer ABC_E9103 Neighboring gene STARR-seq mESC enhancer starr_17478 Neighboring gene C-type lectin domain family 12, member a Neighboring gene STARR-seq mESC enhancer starr_17479 Neighboring gene STARR-positive B cell enhancer ABC_E6498 Neighboring gene C-type lectin domain family 12, member B Neighboring gene STARR-positive B cell enhancer ABC_E4872 Neighboring gene C-type lectin domain family 9, member a Neighboring gene STARR-positive B cell enhancer mm9_chr6:129384284-129384585 Neighboring gene C-type lectin domain family 1, member a Neighboring gene STARR-seq mESC enhancer starr_17480

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)
  • Targeted (10)  1 citation
  • Endonuclease-mediated (3) 

Pathways from PubChem

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
enables transmembrane signaling receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables transmembrane signaling receptor activity ISA
Inferred from Sequence Alignment
more info
PubMed 
enables transmembrane signaling receptor activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within cell surface receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
involved_in platelet formation IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within platelet formation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in signal transduction ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
C-type lectin domain family 1 member B
Names
C-type lectin-like receptor 2

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_001204239.1NP_001191168.1  C-type lectin domain family 1 member B isoform 2

    See identical proteins and their annotated locations for NP_001191168.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC138620
    Consensus CDS
    CCDS57452.1
    UniProtKB/Swiss-Prot
    Q9JL99
    Related
    ENSMUSP00000107712.3, ENSMUST00000112081.9
    Conserved Domains (1) summary
    cd03593
    Location:70186
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
  2. NM_001204253.1NP_001191182.1  C-type lectin domain family 1 member B isoform 3

    See identical proteins and their annotated locations for NP_001191182.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two exons in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC138620
    Consensus CDS
    CCDS57453.1
    UniProtKB/TrEMBL
    A0T1G3
    Related
    ENSMUSP00000107710.3, ENSMUST00000112079.3
  3. NM_019985.3NP_064369.1  C-type lectin domain family 1 member B isoform 1

    See identical proteins and their annotated locations for NP_064369.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC138620, BC064054
    Consensus CDS
    CCDS20586.1
    UniProtKB/Swiss-Prot
    A0T1G2, Q9JL99
    Related
    ENSMUSP00000032262.8, ENSMUST00000032262.14
    Conserved Domains (1) summary
    cd03593
    Location:102218
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

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
    129374260..129382376
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)