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Clec1b C-type lectin domain family 1, member B [ Rattus norvegicus (Norway rat) ]

Gene ID: 500336, updated on 27-Nov-2024

Summary

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Official Symbol
Clec1bprovided by RGD
Official Full Name
C-type lectin domain family 1, member Bprovided by RGD
Primary source
RGD:1563517
See related
EnsemblRapid:ENSRNOG00000057335 AllianceGenome:RGD:1563517
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1563517
Summary
Predicted to enable transmembrane signaling receptor activity. Predicted to be involved in platelet formation and signal transduction. Predicted to be located in cell surface. Predicted to be active in plasma membrane. Orthologous to human CLEC1B (C-type lectin domain family 1 member B). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 49.6), Lung (RPKM 19.0) and 4 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Clec1b in Genome Data Viewer
Location:
4q42
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (164533987..164542320)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (162847978..162856291)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (163161941..163170470)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 12, member A Neighboring gene chromatin target of PRMT1-like 1 Neighboring gene C-type lectin domain family 12, member B Neighboring gene C-type lectin domain containing 9A Neighboring gene C-type lectin domain family 1, member A Neighboring gene uncharacterized LOC120102409

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Molecular characterization of two novel C-type lectin-like receptors, one of which is selectively expressed in human dendritic cells. Colonna M, et al. Eur J Immunol, 2000 Feb. PMID 10671229
  2. G6b-B inhibits constitutive and agonist-induced signaling by glycoprotein VI and CLEC-2. Mori J, et al. J Biol Chem, 2008 Dec 19. PMID 18955485, Free PMC Article
  3. The complete inventory of receptors encoded by the rat natural killer cell gene complex. Flornes LM, et al. Immunogenetics, 2010 Aug. PMID 20544345, Free PMC Article
  4. Mice lacking the ITIM-containing receptor G6b-B exhibit macrothrombocytopenia and aberrant platelet function. Mazharian A, et al. Sci Signal, 2012 Oct 30. PMID 23112346, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

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 ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in platelet formation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within platelet formation ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
C-type lectin domain family 1 member B

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_001191978.3 → NP_001178907.1  C-type lectin domain family 1 member B

    See identical proteins and their annotated locations for NP_001178907.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    A6IM43, D3ZJD8
    Related
    ENSRNOP00000071442.1, ENSRNOT00000082537.3
    Conserved Domains (1) summary
    cd03593
    Location:102 → 218
    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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086022.1 Reference GRCr8

    Range
    164533987..164542320
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017592835.3 → XP_017448324.1  C-type lectin domain family 1 member B isoform X4

    UniProtKB/TrEMBL
    A0A8I6A8F5, A6IM44
    Related
    ENSRNOP00000087395.1, ENSRNOT00000102030.2

  2. XM_006237089.5 → XP_006237151.1  C-type lectin domain family 1 member B isoform X2

    UniProtKB/TrEMBL
    A0A8I6GBW7
    Related
    ENSRNOP00000085142.1, ENSRNOT00000111167.2
    Conserved Domains (1) summary
    cd03593
    Location:70 → 186
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

  3. XM_006237088.5 → XP_006237150.1  C-type lectin domain family 1 member B isoform X1

    Conserved Domains (1) summary
    cd03593
    Location:101 → 217
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

  4. XM_006237090.5 → XP_006237152.1  C-type lectin domain family 1 member B isoform X3

    Conserved Domains (1) summary
    cd03593
    Location:69 → 185
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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