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Clec3b C-type lectin domain family 3, member b [ Mus musculus (house mouse) ]

Gene ID: 21922, updated on 26-Sep-2022

Summary

Official Symbol
Clec3bprovided by MGI
Official Full Name
C-type lectin domain family 3, member bprovided by MGI
Primary source
MGI:MGI:104540
See related
Ensembl:ENSMUSG00000025784 AllianceGenome:MGI:104540
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
Tna
Summary
Predicted to enable calcium ion binding activity; heparin binding activity; and kringle domain binding activity. Involved in positive regulation of plasminogen activation. Acts upstream of or within ossification and skeletal system development. Located in cytoplasm. Is expressed in several structures, including genitourinary system; gut; serum; skeletal musculature; and spinal cord. Used to study Scheuermann's disease. Human ortholog(s) of this gene implicated in osteoarthritis. Orthologous to human CLEC3B (C-type lectin domain family 3 member B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in bladder adult (RPKM 244.6), mammary gland adult (RPKM 136.3) and 11 other tissues See more
Orthologs
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Genomic context

See Clec3b in Genome Data Viewer
Location:
9 F4; 9 73.91 cM
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (122980011..122986497)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (123150946..123157432)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene transglutaminase 4 (prostate) Neighboring gene zinc finger, DHHC domain containing 3 Neighboring gene exosome component 7 Neighboring gene predicted gene, 23323 Neighboring gene CUB domain containing protein 1

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

Related articles in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (3) 

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables calcium ion binding TAS
Traceable Author Statement
more info
PubMed 
enables carbohydrate binding TAS
Traceable Author Statement
more info
PubMed 
enables heparin binding ISO
Inferred from Sequence Orthology
more info
 
enables kringle domain binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in bone mineralization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in bone mineralization ISO
Inferred from Sequence Orthology
more info
 
involved_in ossification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in ossification IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in positive regulation of plasminogen activation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within skeletal system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular matrix TAS
Traceable Author Statement
more info
PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular space TAS
Traceable Author Statement
more info
PubMed 
located_in granular component ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
tetranectin
Names
TN
plasminogen kringle 4-binding protein
tetranectin (plasminogen binding protein)

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_011606.2NP_035736.2  tetranectin precursor

    See identical proteins and their annotated locations for NP_035736.2

    Status: VALIDATED

    Source sequence(s)
    BC035043, BY114395
    Consensus CDS
    CCDS23656.1
    UniProtKB/TrEMBL
    Q8CFZ6
    Related
    ENSMUSP00000026890.5, ENSMUST00000026890.6
    Conserved Domains (1) summary
    cd03596
    Location:71199
    CLECT_tetranectin_like; C-type lectin-like domain (CTLD) of the type found in the tetranectin (TN), cartilage derived C-type lectin (CLECSF1), and stem cell growth factor (SCGF)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    122980011..122986497
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)