Clec6a-ps1 C-type lectin domain family 6, member A, pseudogene 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Clec6a-ps1provided by RGD
Full Name: C-type lectin domain family 6, member A, pseudogene 1provided by RGD
Primary source: RGD:1359505
See related: EnsemblRapid:ENSRNOG00000010057 AllianceGenome:RGD:1359505
Gene type: pseudo
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: Clec4n; Dectin-2p
Summary: Predicted to enable D-mannose binding activity; calcium ion binding activity; and pattern recognition receptor activity. Predicted to be involved in several processes, including detection of yeast; positive regulation of immune response; and positive regulation of macromolecule metabolic process. Predicted to be active in plasma membrane. Orthologous to human CLEC6A (C-type lectin domain containing 6A). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Low expression observed in reference dataset See more
Orthologs: human all
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Genomic context

Location:: 4q42

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (158225100..158244722)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (156539408..156559032)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (156186251..156219375)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Other Names

C-type lectin domain family 4, member n
DC-associated C-type lectin-2 pseudogene

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables D-mannose binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables carbohydrate binding	IBA Inferred from Biological aspect of Ancestor more info
enables carbohydrate binding	ISO Inferred from Sequence Orthology more info
enables pattern recognition receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables pattern recognition receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in antifungal innate immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in detection of yeast	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T-helper 17 type immune response	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytokine production	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in stimulatory C-type lectin receptor signaling pathway	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info

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.