Cd209a (CD209a molecule) - Rat Genome Database

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Gene: Cd209a (CD209a molecule) Rattus norvegicus
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Symbol: Cd209a
Name: CD209a molecule
RGD ID: 1308239
Description: Predicted to enable D-mannose binding activity; carbohydrate derivative binding activity; and pattern recognition receptor activity. Predicted to be involved in immune response. Predicted to be located in cell surface. 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); PARTICIPATES IN measles pathway; phagocytosis pathway; tuberculosis pathway; INTERACTS WITH endosulfan; glyphosate; thioacetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD209a antigen; LOC288375
RGD Orthologs
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8126,620,541 - 6,626,124 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl126,620,541 - 6,626,124 (-)EnsemblGRCr8
mRatBN7.2121,822,663 - 1,828,246 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx122,495,441 - 2,501,031 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0123,119,009 - 3,124,599 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0121,881,741 - 1,887,356 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd127,424,370 - 7,429,960 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive127,826,326 - 7,831,916 (-)NCBILyon_Normotensive
Lyon_Hypertensive126,861,542 - 6,867,147 (+)NCBILyon_Hypertensive
F344_StmMcwi1217,295,450 - 17,301,051 (-)NCBIF344_StmMcwi
Rnor_6.0122,341,960 - 2,347,543 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,341,960 - 2,347,543 (-)Ensemblrn6Rnor6.0
Rnor_5.0124,495,061 - 4,500,644 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4122,358,909 - 2,364,492 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera123,676,520 - 3,682,107 (-)NCBICelera
Cytogenetic Map12p12NCBI
JBrowse:




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
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. 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.
4. 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.
5. 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.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. 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.
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7820555   PMID:16569675   PMID:16682406  


Genomics

Comparative Map Data
Cd209a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8126,620,541 - 6,626,124 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl126,620,541 - 6,626,124 (-)EnsemblGRCr8
mRatBN7.2121,822,663 - 1,828,246 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx122,495,441 - 2,501,031 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0123,119,009 - 3,124,599 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0121,881,741 - 1,887,356 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd127,424,370 - 7,429,960 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive127,826,326 - 7,831,916 (-)NCBILyon_Normotensive
Lyon_Hypertensive126,861,542 - 6,867,147 (+)NCBILyon_Hypertensive
F344_StmMcwi1217,295,450 - 17,301,051 (-)NCBIF344_StmMcwi
Rnor_6.0122,341,960 - 2,347,543 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,341,960 - 2,347,543 (-)Ensemblrn6Rnor6.0
Rnor_5.0124,495,061 - 4,500,644 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4122,358,909 - 2,364,492 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera123,676,520 - 3,682,107 (-)NCBICelera
Cytogenetic Map12p12NCBI
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 EnsemblGRCm39
GRCm3883,743,395 - 3,748,984 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,743,397 - 3,748,984 (-)Ensemblmm10GRCm38
MGSCv3783,743,395 - 3,748,984 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3683,743,397 - 3,748,930 (-)NCBIMGSCv36mm8
Celera83,973,555 - 3,979,144 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map81.92NCBI

Variants

.
Variants in Cd209a
137 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:59
Interacting mature miRNAs:64
Transcripts:ENSRNOT00000061727
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12592191825247790Rat
724526Uae3Urinary albumin excretion QTL 34.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)12115486827Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)12129775522Rat
7204484Bp358Blood pressure QTL 3580.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12124849755Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12141361854Rat
1357337Gluco3Glucose level QTL 30.0004adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)12116966671Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12348941648489416Rat
1331739Hrtrt14Heart rate QTL 143.56232heart pumping trait (VT:2000009)heart rate (CMO:0000002)12138687564Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12274769447747694Rat
2303568Bw88Body weight QTL 883body mass (VT:0001259)body weight (CMO:0000012)12128606299Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12133700600Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12308718048087180Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)12138635130Rat
61334Gluco17Glucose level QTL 176.3adipocyte glucose uptake trait (VT:0004185)adipocyte maximal glucose uptake to basal glucose uptake ratio (CMO:0000874)12116966671Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12128133365Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12563330650633306Rat
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)12128606299Rat
1331787Rf41Renal function QTL 412.998kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)12133700556Rat
1600391Edcs2Endometrial carcinoma susceptibility QTL23.50.01uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)12111869600Rat

Markers in Region
D12Got205  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8126,621,786 - 6,621,932 (+)Marker Load Pipeline
mRatBN7.2121,823,908 - 1,824,054 (+)MAPPERmRatBN7.2
Rnor_6.0122,343,206 - 2,343,351NCBIRnor6.0
Rnor_5.0124,496,307 - 4,496,452UniSTSRnor5.0
RGSC_v3.4122,363,101 - 2,363,246UniSTSRGSC3.4
Celera123,677,766 - 3,677,911UniSTS
Cytogenetic Map12p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 6 13 32 74 85 55 67 55 6 204 87 22 46 25 30

Sequence


Ensembl Acc Id: ENSRNOT00000061727   ⟹   ENSRNOP00000058440
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl126,620,541 - 6,626,124 (-)Ensembl
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)Ensembl
Rnor_6.0 Ensembl122,341,960 - 2,347,543 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101226   ⟹   ENSRNOP00000085886
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl126,620,541 - 6,626,046 (-)Ensembl
mRatBN7.2 Ensembl121,822,663 - 1,828,168 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104589   ⟹   ENSRNOP00000094272
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl126,620,541 - 6,626,124 (-)Ensembl
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)Ensembl
RefSeq Acc Id: NM_001105904   ⟹   NP_001099374
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8126,620,541 - 6,626,124 (-)NCBI
mRatBN7.2121,822,663 - 1,828,246 (-)NCBI
Dahl_SR_JrHsd127,424,370 - 7,429,960 (-)NCBI
Lyon_Normotensive127,826,326 - 7,831,916 (-)NCBI
Lyon_Hypertensive126,861,542 - 6,867,147 (+)NCBI
F344_StmMcwi1217,295,450 - 17,301,051 (-)NCBI
Rnor_6.0122,341,960 - 2,347,543 (-)NCBI
Rnor_5.0124,495,061 - 4,500,644 (-)NCBI
RGSC_v3.4122,358,909 - 2,364,492 (+)RGD
Celera123,676,520 - 3,682,107 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099374 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL74965 (Get FASTA)   NCBI Sequence Viewer  
  EDL74966 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000058440
  ENSRNOP00000058440.4
  ENSRNOP00000085886.1
  ENSRNOP00000094272.1
RefSeq Acc Id: NP_001099374   ⟸   NM_001105904
- UniProtKB: D3ZP17 (UniProtKB/TrEMBL),   A6KQ41 (UniProtKB/TrEMBL),   A0A8I6ALS7 (UniProtKB/TrEMBL),   A6KQ40 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000058440   ⟸   ENSRNOT00000061727
Ensembl Acc Id: ENSRNOP00000094272   ⟸   ENSRNOT00000104589
Ensembl Acc Id: ENSRNOP00000085886   ⟸   ENSRNOT00000101226
Protein Domains
C-type lectin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZP17-F1-model_v2 AlphaFold D3ZP17 1-240 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308239 AgrOrtholog
BioCyc Gene G2FUF-20379 BioCyc
Ensembl Genes ENSRNOG00000040128 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061727 ENTREZGENE
  ENSRNOT00000061727.5 UniProtKB/TrEMBL
  ENSRNOT00000101226.2 UniProtKB/TrEMBL
  ENSRNOT00000104589.2 UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
InterPro C-type_lectin UniProtKB/TrEMBL
  C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin/snaclec_domain UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  C-type_Lectin_Receptor_IMM UniProtKB/TrEMBL
  CD209-like_CTLD UniProtKB/TrEMBL
KEGG Report rno:288375 UniProtKB/TrEMBL
NCBI Gene 288375 ENTREZGENE
PANTHER CD209 ANTIGEN-LIKE PROTEIN C-LIKE UniProtKB/TrEMBL
  KILLER CELL LECTIN-LIKE RECEPTOR SUBFAMILY F MEMBER 2 UniProtKB/TrEMBL
  MANNOSE, PHOSPHOLIPASE, LECTIN RECEPTOR RELATED UniProtKB/TrEMBL
Pfam Lectin_C UniProtKB/TrEMBL
PhenoGen Cd209a PhenoGen
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000040128 RatGTEx
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
UniProt A0A8I6A078_RAT UniProtKB/TrEMBL
  A0A8I6ALS7 ENTREZGENE, UniProtKB/TrEMBL
  A6KQ40 ENTREZGENE, UniProtKB/TrEMBL
  A6KQ41 ENTREZGENE, UniProtKB/TrEMBL
  D3ZP17 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-03-07 Cd209a  CD209a molecule  Cd209a  CD209a antigen  Name changed 629549 APPROVED
2019-04-10 Cd209a  CD209a antigen  Cd209a  CD209a molecule  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd209a  Cd209a molecule  Cd209a  CD209a antigen   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd209a  CD209a molecule  Cd209a  Cd209a molecule  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cd209a  CD209a antigen   Cd209a_predicted  CD209a antigen (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cd209a_predicted  CD209a antigen (predicted)      Symbol and Name status set to approved 70820 APPROVED