Cd209d (CD209d antigen) - Rat Genome Database

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Gene: Cd209d (CD209d antigen) Mus musculus
Analyze
Symbol: Cd209d
Name: CD209d antigen
RGD ID: 1558208
MGI Page MGI
Description: Enables identical protein binding activity and mannose binding activity. Acts upstream of or within defense response to bacterium; endocytosis; and positive regulation of cytokine production. Predicted to be located in external side of plasma membrane. Predicted to be integral component of 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; tuberculosis pathway; INTERACTS WITH 4-hydroxyphenyl retinamide; benzo[a]pyrene; benzo[b]fluoranthene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CD209 antigen-like protein D; DC-SIGN-related protein 3; DC-SIGNR3; mSI; mSIGNR3; SI; SIG; SIGN-R3; SIGNR3
RGD Orthologs
Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,921,824 - 3,928,548 (-)NCBIGRCm39mm39
GRCm39 Ensembl83,921,824 - 3,928,555 (-)Ensembl
GRCm3883,871,824 - 3,878,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,871,824 - 3,878,555 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,871,824 - 3,878,499 (-)NCBIGRCm37mm9NCBIm37
MGSCv3683,871,824 - 3,878,499 (-)NCBImm8
Celera84,090,520 - 4,097,195 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
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
References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11581173   PMID:12466851   PMID:15136555   PMID:15588578   PMID:16141072   PMID:16141073   PMID:16682406   PMID:19770268  
PMID:20724666   PMID:21267068   PMID:21677750   PMID:23118208   PMID:23684988   PMID:23882266   PMID:25666591   PMID:28587925   PMID:28739879  


Genomics

Comparative Map Data
Cd209d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,921,824 - 3,928,548 (-)NCBIGRCm39mm39
GRCm39 Ensembl83,921,824 - 3,928,555 (-)Ensembl
GRCm3883,871,824 - 3,878,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,871,824 - 3,878,555 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,871,824 - 3,878,499 (-)NCBIGRCm37mm9NCBIm37
MGSCv3683,871,824 - 3,878,499 (-)NCBImm8
Celera84,090,520 - 4,097,195 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
Cd209
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2121,891,109 - 1,897,559 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl122,406,879 - 2,413,324 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0122,406,879 - 2,413,324 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0124,560,987 - 4,567,014 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,283,730 - 2,290,484 (+)NCBIRGSC3.4rn4RGSC3.4
Celera123,744,146 - 3,750,549 (-)NCBICelera
Cytogenetic Map12p12NCBI

Position Markers
UniSTS:235833  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3883,871,877 - 3,872,081UniSTSGRCm38
MGSCv3783,871,877 - 3,872,081UniSTSGRCm37
Celera84,090,573 - 4,090,777UniSTS
Cytogenetic Map8A1.1UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
13432571Scvg1_msubcutaneous vessel growth QTL 1 (mouse)8124701082Mouse
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130397432Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131723288Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:97
Interacting mature miRNAs:99
Transcripts:ENSMUST00000011445
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000011445   ⟹   ENSMUSP00000011445
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl83,871,824 - 3,878,555 (-)Ensembl
RefSeq Acc Id: ENSMUST00000209176   ⟹   ENSMUSP00000147198
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl83,871,921 - 3,878,495 (-)Ensembl
RefSeq Acc Id: NM_130904   ⟹   NP_570974
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3983,921,824 - 3,928,499 (-)NCBI
GRCm3883,871,824 - 3,878,499 (-)NCBI
MGSCv3783,871,824 - 3,878,499 (-)RGD
Celera84,090,520 - 4,097,195 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011242039   ⟹   XP_011240341
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3983,922,130 - 3,928,548 (-)NCBI
GRCm3883,872,136 - 3,878,548 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_570974   ⟸   NM_130904
- UniProtKB: Q91ZW8 (UniProtKB/Swiss-Prot),   Q3UW57 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011240341   ⟸   XM_011242039
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000011445   ⟸   ENSMUST00000011445
RefSeq Acc Id: ENSMUSP00000147198   ⟸   ENSMUST00000209176
Protein Domains
C-type lectin

Promoters
RGD ID:8666359
Promoter ID:EPDNEW_M11211
Type:initiation region
Name:Cd209d_1
Description:Mus musculus CD209d 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
GRCm3883,878,554 - 3,878,614EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2157947 AgrOrtholog
Ensembl Genes ENSMUSG00000031495 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000011445 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000147198 UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000011445 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000209176 UniProtKB/Swiss-Prot
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
  CD209-like_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:170779 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2157947 ENTREZGENE
NCBI Gene 170779 ENTREZGENE
Pfam Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cd209d 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 C209D_MOUSE UniProtKB/Swiss-Prot
  Q3UW57 ENTREZGENE, UniProtKB/TrEMBL
  Q91ZW8 ENTREZGENE
UniProt Secondary Q8VIK4 UniProtKB/Swiss-Prot