Cd209a (CD209a antigen) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cd209a (CD209a antigen) Mus musculus
Analyze
Symbol: Cd209a
Name: CD209a antigen
RGD ID: 1317899
MGI Page MGI
Description: Enables D-mannose binding activity and carbohydrate derivative binding activity. Predicted to be involved in immune response. Predicted to act upstream of or within regulation of T cell proliferation. Located in cell surface. Human ortholog(s) of this gene implicated in Coronavirus infectious disease (multiple); aspergillosis; dengue disease (multiple); human immunodeficiency virus infectious disease (multiple); and tuberculosis (multiple). Orthologous to several human genes including CD209 (CD209 molecule).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CD209; CD209 antigen-like protein A; CDSIGN; CI; CIRE; DC-S; DC-SI; DC-SIGN; DC-SIGN1; Dcs; Dcsign; dendritic cell-specific ICAM-3-grabbing non-integrin; MGC130443; SI; SIGN-R1; SIGNR5
RGD Orthologs
Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,793,395 - 3,798,984 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl83,793,397 - 3,798,984 (-)EnsemblGRCm39 Ensembl
GRCm3883,743,395 - 3,748,984 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,743,397 - 3,748,984 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,743,395 - 3,748,984 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3683,743,397 - 3,748,930 (-)NCBIMGSCv36mm8
Celera83,973,555 - 3,979,144 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map81.92NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Paradoxical role of CD16+CCR2+CCR5+ monocytes in tuberculosis: efficient APC in pleural effusion but also mark disease severity in blood. Balboa L, etal., J Leukoc Biol. 2011 Mar 31.
2. Prion pathogenesis is unaltered following down-regulation of SIGN-R1. Bradford BM, etal., Virology. 2016 Oct;497:337-345. doi: 10.1016/j.virol.2016.08.005. Epub 2016 Aug 11.
3. Association of a single nucleotide polymorphism in the CD209 (DC-SIGN) promoter with SARS severity. Chan KY, etal., Hong Kong Med J. 2010;16(5 Suppl 4):37-42.
4. Pulmonary dendritic cells in lungs of preterm infants: neglected participants in bronchopulmonary dysplasia? De Paepe ME, etal., Pediatr Dev Pathol. 2011 Jan-Feb;14(1):20-7. Epub 2010 Jan 5.
5. Mite allergen decreases DC-SIGN expression and modulates human dendritic cell differentiation and function in allergic asthma. Huang HJ, etal., Mucosal Immunol. 2011 Apr 6.
6. CD209a Synergizes with Dectin-2 and Mincle to Drive Severe Th17 Cell-Mediated Schistosome Egg-Induced Immunopathology. Kalantari P, etal., Cell Rep. 2018 Jan 30;22(5):1288-1300. doi: 10.1016/j.celrep.2018.01.001.
7. SIGN-R1 contributes to protection against lethal pneumococcal infection in mice. Lanoue A, etal., J Exp Med. 2004 Dec 6;200(11):1383-93. doi: 10.1084/jem.20040795.
8. N-linked glycosylation facilitates sialic acid-independent attachment and entry of influenza A viruses into cells expressing DC-SIGN or L-SIGN. Londrigan SL, etal., J Virol. 2011 Mar;85(6):2990-3000. Epub 2010 Dec 29.
9. LECT2 protects mice against bacterial sepsis by activating macrophages via the CD209a receptor. Lu XJ, etal., J Exp Med. 2013 Jan 14;210(1):5-13. doi: 10.1084/jem.20121466. Epub 2012 Dec 17.
10. MGDs mouse GO annotations MGD data from the GO Consortium
11. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. Dendritic cell recruitment in lesions of human and experimental pulmonary hypertension. Perros F, etal., Eur Respir J. 2007 Mar;29(3):462-8. Epub 2006 Nov 15.
14. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
15. CD209a expression on dendritic cells is critical for the development of pathogenic Th17 cell responses in murine schistosomiasis. Ponichtera HE, etal., J Immunol. 2014 May 15;192(10):4655-65. doi: 10.4049/jimmunol.1400121. Epub 2014 Apr 11.
16. Mouse MP Annotation Import Pipeline RGD automated import pipeline
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. [Association between genetic polymorphism in the promotor region of CD209 and propensity to develop invasive pulmonary aspergillosis]. Sainz J, etal., Methods Find Exp Clin Pharmacol. 2010 Dec;32 Suppl A:9-13.
19. CD209 genetic polymorphism and tuberculosis disease. Vannberg FO, etal., PLoS One. 2008 Jan 2;3(1):e1388.
Additional References at PubMed
PMID:7820555   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11581173   PMID:11684292   PMID:12351402   PMID:12456590   PMID:12477932   PMID:15136555   PMID:15588578  
PMID:15795245   PMID:16051608   PMID:16141072   PMID:16141073   PMID:16282604   PMID:16297949   PMID:16569675   PMID:16615889   PMID:16682406   PMID:19770268   PMID:20054124   PMID:20130211  
PMID:20305659   PMID:20558171   PMID:21029863   PMID:21257969   PMID:21427223   PMID:21529282   PMID:21685887   PMID:21860028   PMID:21873635   PMID:22292921   PMID:22396536   PMID:23019323  
PMID:23118208   PMID:23487448   PMID:24098455   PMID:25450767   PMID:25574091   PMID:26070485   PMID:26079881   PMID:26106150   PMID:26440060   PMID:27450002   PMID:27596364   PMID:29401627  
PMID:29867967   PMID:30335674   PMID:31358982   PMID:32424104   PMID:36740832  


Genomics

Comparative Map Data
Cd209a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,793,395 - 3,798,984 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl83,793,397 - 3,798,984 (-)EnsemblGRCm39 Ensembl
GRCm3883,743,395 - 3,748,984 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,743,397 - 3,748,984 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,743,395 - 3,748,984 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3683,743,397 - 3,748,930 (-)NCBIMGSCv36mm8
Celera83,973,555 - 3,979,144 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map81.92NCBI
Cd209a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8126,620,541 - 6,626,124 (-)NCBIGRCr8
mRatBN7.2121,822,663 - 1,828,246 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx122,495,441 - 2,501,031 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0123,119,009 - 3,124,599 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0121,881,741 - 1,887,356 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0122,341,960 - 2,347,543 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,341,960 - 2,347,543 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,495,061 - 4,500,644 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,358,909 - 2,364,492 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera123,676,520 - 3,682,107 (-)NCBICelera
Cytogenetic Map12p12NCBI

Variants

.
Variants in Cd209a
472 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:200
Count of miRNA genes:178
Interacting mature miRNAs:184
Transcripts:ENSMUST00000012847
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130447432Mouse
13432571Scvg1_msubcutaneous vessel growth QTL 1 (mouse)8124751082Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000012847   ⟹   ENSMUSP00000012847
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl83,793,397 - 3,798,984 (-)Ensembl
GRCm38.p6 Ensembl83,743,397 - 3,748,984 (-)Ensembl
Ensembl Acc Id: ENSMUST00000207906
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl83,794,036 - 3,798,930 (-)Ensembl
GRCm38.p6 Ensembl83,744,036 - 3,748,930 (-)Ensembl
Ensembl Acc Id: ENSMUST00000207979   ⟹   ENSMUSP00000146702
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl83,793,942 - 3,798,930 (-)Ensembl
GRCm38.p6 Ensembl83,743,942 - 3,748,930 (-)Ensembl
Ensembl Acc Id: ENSMUST00000208960   ⟹   ENSMUSP00000146627
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl83,793,801 - 3,798,927 (-)Ensembl
GRCm38.p6 Ensembl83,743,801 - 3,748,927 (-)Ensembl
RefSeq Acc Id: NM_133238   ⟹   NP_573501
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3983,793,395 - 3,798,984 (-)NCBI
GRCm3883,743,395 - 3,748,984 (-)ENTREZGENE
MGSCv3783,743,395 - 3,748,984 (-)RGD
Celera83,973,555 - 3,979,144 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_573501   ⟸   NM_133238
- UniProtKB: Q3TAT9 (UniProtKB/Swiss-Prot),   Q91ZW5 (UniProtKB/Swiss-Prot),   Q91ZX1 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000012847   ⟸   ENSMUST00000012847
Ensembl Acc Id: ENSMUSP00000146627   ⟸   ENSMUST00000208960
Ensembl Acc Id: ENSMUSP00000146702   ⟸   ENSMUST00000207979
Protein Domains
C-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q91ZX1-F1-model_v2 AlphaFold Q91ZX1 1-238 view protein structure

Promoters
RGD ID:8666363
Promoter ID:EPDNEW_M11210
Type:multiple initiation site
Name:Cd209a_1
Description:Mus musculus CD209a antigen , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3883,748,927 - 3,748,987EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2157942 AgrOrtholog
Ensembl Genes ENSMUSG00000031494 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000012847 ENTREZGENE
  ENSMUST00000012847.3 UniProtKB/Swiss-Prot
  ENSMUST00000207979.2 UniProtKB/Swiss-Prot
  ENSMUST00000208960.2 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_Lectin_Receptor_IMM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD209-like_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:170786 UniProtKB/Swiss-Prot
MGD MGI:2157942 ENTREZGENE
NCBI Gene 170786 ENTREZGENE
PANTHER CD209 ANTIGEN-LIKE PROTEIN C-LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KILLER CELL LECTIN-LIKE RECEPTOR SUBFAMILY F MEMBER 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd209a PhenoGen
PROSITE C_TYPE_LECTIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A140LI09_MOUSE UniProtKB/TrEMBL
  C209A_MOUSE UniProtKB/Swiss-Prot
  Q2TA59_MOUSE UniProtKB/TrEMBL
  Q3TAT9 ENTREZGENE
  Q91ZW5 ENTREZGENE
  Q91ZX1 ENTREZGENE
UniProt Secondary Q3TAT9 UniProtKB/Swiss-Prot
  Q91ZW5 UniProtKB/Swiss-Prot