Human Gene CD69 (uc001qwk.3)
  Description: Homo sapiens CD69 molecule (CD69), mRNA.
RefSeq Summary (NM_001781): This gene encodes a member of the calcium dependent lectin superfamily of type II transmembrane receptors. Expression of the encoded protein is induced upon activation of T lymphocytes, and may play a role in proliferation. Furthermore, the protein may act to transmit signals in natural killer cells and platelets. [provided by RefSeq, Aug 2011].
Transcript (Including UTRs)
   Position: hg19 chr12:9,905,082-9,913,497 Size: 8,416 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr12:9,906,077-9,913,416 Size: 7,340 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:9,905,082-9,913,497)mRNA (may differ from genome)Protein (199 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CD69_HUMAN
DESCRIPTION: RecName: Full=Early activation antigen CD69; AltName: Full=Activation inducer molecule; Short=AIM; AltName: Full=BL-AC/P26; AltName: Full=C-type lectin domain family 2 member C; AltName: Full=EA1; AltName: Full=Early T-cell activation antigen p60; AltName: Full=GP32/28; AltName: Full=Leukocyte surface antigen Leu-23; AltName: Full=MLR-3; AltName: CD_antigen=CD69;
FUNCTION: Involved in lymphocyte proliferation and functions as a signal transmitting receptor in lymphocytes, natural killer (NK) cells, and platelets.
SUBUNIT: Homodimer; disulfide-linked.
SUBCELLULAR LOCATION: Membrane; Single-pass type II membrane protein.
TISSUE SPECIFICITY: Expressed on the surface of activated T-cells, B-cells, natural killer cells, neutrophils, eosinophils, epidermal Langerhans cells and platelets.
DEVELOPMENTAL STAGE: Earliest inducible cell surface glycoprotein acquired during lymphoid activation.
INDUCTION: By antigens, mitogens or activators of PKC on the surface of T and B-lymphocytes. By interaction of IL-2 with the p75 IL-2R on the surface of NK cells.
PTM: Constitutive Ser/Thr phosphorylation in both mature thymocytes and activated T-lymphocytes.
SIMILARITY: Contains 1 C-type lectin domain.
WEB RESOURCE: Name=Functional Glycomics Gateway - Glycan Binding; Note=CD69; URL="http://www.functionalglycomics.org/glycomics/GBPServlet?&operationType=view&cbpId=cbp_hum_Ctlect_235";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CD69
CDC HuGE Published Literature: CD69
Positive Disease Associations: Diabetes Mellitus, Type 1 , Forced Vital Capacity , type 1 diabetes
Related Studies:
  1. Diabetes Mellitus, Type 1
    Jeffrey C Barrett et al. Nature genetics 2009, Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes., Nature genetics. [PubMed 19430480]
  2. Forced Vital Capacity
    , , . [PubMed 0]
  3. type 1 diabetes
    Barrett ,et al. 2009, Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes, Nature genetics 2009 . [PubMed 19430480]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: CD69
Diseases sorted by gene-association score: coccidioidomycosis (6), asthma (3), peritonitis (3), common variable immunodeficiency (2), actinic prurigo (2), stromal keratitis (2), chronic lymphocytic leukemia (2), malaria (2), dendritic cell tumor (2), cd3gamma deficiency (1), primary amebic meningoencephalitis (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 38.40 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 158.36 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -14.6081-0.180 Picture PostScript Text
3' UTR -243.59995-0.245 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001304 - C-type_lectin
IPR016186 - C-type_lectin-like
IPR016187 - C-type_lectin_fold

Pfam Domains:
PF00059 - Lectin C-type domain
PF05473 - UL45 protein, carbohydrate-binding C-type lectin-like

SCOP Domains:
56436 - C-type lectin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1E87 - X-ray MuPIT 1E8I - X-ray MuPIT 1FM5 - X-ray MuPIT 3CCK - X-ray MuPIT 3HUP - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q07108
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004888 transmembrane signaling receptor activity
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0030246 carbohydrate binding
GO:0042803 protein homodimerization activity

Biological Process:
GO:0007165 signal transduction
GO:0035690 cellular response to drug

Cellular Component:
GO:0005887 integral component of plasma membrane
GO:0009897 external side of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  BC007037 - Homo sapiens CD69 molecule, mRNA (cDNA clone MGC:12409 IMAGE:3950403), complete cds.
Z22576 - H.sapiens CD69 gene.
L07555 - Homo sapiens early activation antigen CD69 mRNA, complete cds.
AK291869 - Homo sapiens cDNA FLJ75888 complete cds, highly similar to Homo sapiens CD69 antigen (p60, early T-cell activation antigen) (CD69), mRNA.
JD328065 - Sequence 309089 from Patent EP1572962.
JD066940 - Sequence 47964 from Patent EP1572962.
JD456428 - Sequence 437452 from Patent EP1572962.
JD361669 - Sequence 342693 from Patent EP1572962.
JD063319 - Sequence 44343 from Patent EP1572962.
JD206667 - Sequence 187691 from Patent EP1572962.
KJ890870 - Synthetic construct Homo sapiens clone ccsbBroadEn_00264 CD69 gene, encodes complete protein.
AY238518 - Homo sapiens CD69 antigen (CD69) mRNA, complete cds.
CU675505 - Synthetic construct Homo sapiens gateway clone IMAGE:100016762 5' read CD69 mRNA.
DQ893175 - Synthetic construct clone IMAGE:100005805; FLH194639.01X; RZPDo839D0680D CD69 molecule (CD69) gene, encodes complete protein.
DQ896474 - Synthetic construct Homo sapiens clone IMAGE:100010934; FLH194635.01L; RZPDo839D0670D CD69 molecule (CD69) gene, encodes complete protein.
AK303174 - Homo sapiens cDNA FLJ55409 complete cds, highly similar to Early activation antigen CD69.
AK303383 - Homo sapiens cDNA FLJ58387 complete cds, highly similar to Early activation antigen CD69.
JD160488 - Sequence 141512 from Patent EP1572962.
JD049548 - Sequence 30572 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CD69_HUMAN, CLEC2C, NM_001781, NP_001772, Q07108
UCSC ID: uc001qwk.3
RefSeq Accession: NM_001781
Protein: Q07108 (aka CD69_HUMAN)
CCDS: CCDS8604.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001781.2
exon count: 5CDS single in 3' UTR: no RNA size: 1676
ORF size: 600CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1400.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.