Cd209d CD209d molecule [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cd209dprovided by RGD
Official Full Name: CD209d moleculeprovided by RGD
Primary source: RGD:1561104
See related: EnsemblRapid:ENSRNOG00000001017 AllianceGenome:RGD:1561104
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: Cd209; Clec4m; Dc-signr; RGD1561104
Summary: Predicted to enable several functions, including D-mannose binding activity; identical protein binding activity; and virus receptor activity. Predicted to be involved in several processes, including B cell adhesion; positive regulation of T cell proliferation; and positive regulation of viral life cycle. Predicted to act upstream of or within several processes, including defense response to bacterium; positive regulation of cytokine production; and regulation of T cell proliferation. Predicted to be located in plasma membrane. Predicted to be active in external side of plasma membrane. Human ortholog(s) of this gene implicated in Coronavirus infectious disease; aspergillosis; dengue disease (multiple); human immunodeficiency virus infectious disease (multiple); and tuberculosis (multiple). Orthologous to human CD209 (CD209 molecule). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 17.5), Thymus (RPKM 2.0) and 1 other tissue See more
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Genomic context

Location:: 12p12

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (6689002..6695452, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (1891109..1897559, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (2406879..2413324, complement)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

most polymorphic forms of the viral receptor DC-SIGNR assemble into stable homo- and heterotetramers
Title: All but the shortest polymorphic forms of the viral receptor DC-SIGNR assemble into stable homo- and heterotetramers.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
involved_in B cell adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response to bacterium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endocytosis	ISO Inferred from Sequence Orthology more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of T cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cytokine production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of viral life cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in symbiont entry into host cell	ISO Inferred from Sequence Orthology more info

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

General protein information

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Preferred Names: CD209d molecule

Names: C-type lectin domain family 4, member M; CD209 molecule; CD209 molecule D; CD209d antigen; DC-SIGN-related 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)

NM_001108849.1 → NP_001102319.1 CD209d molecule

See identical proteins and their annotated locations for NP_001102319.1

Status: PROVISIONAL

Source sequence(s)

CH474084

UniProtKB/TrEMBL

A0A8I5ZTZ4, A6KQ43

Related

ENSRNOP00000081859.1, ENSRNOT00000108377.2

Conserved Domains (1) summary

cd03590
Location:106 → 228

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)