Cd209a (CD209a molecule) - Rat Genome Database

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Gene: Cd209a (CD209a molecule) Rattus norvegicus
Analyze
Symbol: Cd209a
Name: CD209a molecule (Ensembl:CD209a antigen)
RGD ID: 1308239
Description: Predicted to enable carbohydrate derivative binding activity and mannose binding activity. 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; thioacetamide; trichloroethene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD209a antigen; LOC288375
RGD Orthologs
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0123,119,009 - 3,124,599 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0121,881,741 - 1,887,356 (-)NCBIRnor_WKY
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
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

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
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_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0123,119,009 - 3,124,599 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0121,881,741 - 1,887,356 (-)NCBIRnor_WKY
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
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

Variants

.
Variants in Cd209a
29 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)127977298525593Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat

Markers in Region
D12Got205  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 21 18 14 18 10 4
Below cutoff 2 4 25 19 4 19 6 6 8 8 9 7 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061727   ⟹   ENSRNOP00000058440
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,822,663 - 1,828,246 (-)Ensembl
Rnor_6.0 Ensembl122,341,960 - 2,347,543 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101226   ⟹   ENSRNOP00000085886
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,822,663 - 1,828,168 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104589   ⟹   ENSRNOP00000094272
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
mRatBN7.2121,822,663 - 1,828,246 (-)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  
Reference Sequences
RefSeq Acc Id: NP_001099374   ⟸   NM_001105904
- Sequence:
RefSeq Acc Id: ENSRNOP00000058440   ⟸   ENSRNOT00000061727
RefSeq Acc Id: ENSRNOP00000094272   ⟸   ENSRNOT00000104589
RefSeq 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 Protein ENSRNOP00000058440 ENTREZGENE
  ENSRNOP00000058440.4 UniProtKB/TrEMBL
  ENSRNOP00000085886.1 UniProtKB/TrEMBL
  ENSRNOP00000094272.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061727 ENTREZGENE
  ENSRNOT00000061727.4 UniProtKB/TrEMBL
  ENSRNOT00000101226.1 UniProtKB/TrEMBL
  ENSRNOT00000104589.1 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_CS UniProtKB/TrEMBL
  C-type_lectin_fold UniProtKB/TrEMBL
  CD209-like_CTLD UniProtKB/TrEMBL
NCBI Gene 288375 ENTREZGENE
Pfam Lectin_C UniProtKB/TrEMBL
PhenoGen Cd209a PhenoGen
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP C-type_lectin_fold UniProtKB/TrEMBL
UniProt A0A8I6A078_RAT UniProtKB/TrEMBL
  A0A8I6ALS7_RAT UniProtKB/TrEMBL
  D3ZP17_RAT 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