Human Gene CD2 (ENST00000369478.4_4) from GENCODE V47lift37
  Description: CD2 molecule, transcript variant 2 (from RefSeq NM_001767.5)
Gencode Transcript: ENST00000369478.4_4
Gencode Gene: ENSG00000116824.5_7
Transcript (Including UTRs)
   Position: hg19 chr1:117,297,052-117,311,851 Size: 14,800 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:117,297,115-117,311,405 Size: 14,291 Coding Exon Count: 5 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:117,297,052-117,311,851)mRNA (may differ from genome)Protein (351 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CD2
Diseases sorted by gene-association score: penis squamous cell carcinoma (15), immune defect due to absence of thymus (13), lethal midline granuloma (12), supine hypotensive syndrome (11), actinic prurigo (10), sm-ahnmd (9), inflammatory bowel disease 16 (9), lepromatous leprosy (8), extracutaneous mastocytoma (8), cortical thymoma (8), thymoma (7), mast cell disease (7), systemic mastocytosis (7), pericoronitis (7), lobomycosis (6), indolent systemic mastocytosis (6), reticulum cell sarcoma (6), cutaneous mastocytosis (6), deafness, autosomal recessive 23 (6), polyclonal hypergammaglobulinemia (6), follicular mucinosis (5), adult lymphoma (5), ochronosis (5), rheumatic myocarditis (5), chronic nk-cell lymphocytosis (5), specific bursitis often of occupational origin (5), thymic dysplasia (5), cutaneous solitary mastocytoma (5), olecranon bursitis (5), appendix adenocarcinoma (4), immunodeficiency with hyper-igm, type 2 (4), sezary's disease (1), leukemia, acute myeloid (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: 25.27 RPKM in Spleen
Total median expression: 105.64 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 -6.8063-0.108 Picture PostScript Text
3' UTR -129.10446-0.289 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
IPR013783 - Ig-like_fold
IPR008424 - Ig_C2-set
IPR013106 - Ig_V-set
IPR015631 - SLAM_fam_rcpts
IPR015632 - T-cell_sdhesion_molc_CD2

Pfam Domains:
PF05790 - Immunoglobulin C2-set domain
PF07686 - Immunoglobulin V-set domain

SCOP Domains:
48726 - Immunoglobulin

ModBase Predicted Comparative 3D Structure on Q53F96
FrontTopSide
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0042803 protein homodimerization activity

Biological Process:
GO:0007155 cell adhesion

Cellular Component:
GO:0005576 extracellular region
GO:0005911 cell-cell junction
GO:0009897 external side of plasma membrane
GO:0009898 cytoplasmic side of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0046658 anchored component of plasma membrane


-  Descriptions from all associated GenBank mRNAs
  AK313614 - Homo sapiens cDNA, FLJ94184, highly similar to Homo sapiens CD2 antigen (p50), sheep red blood cell receptor (CD2), mRNA.
AK223393 - Homo sapiens mRNA for CD2 antigen (p50), sheep red blood cell receptor variant, clone: FCC107D05.
M16336 - Human T-cell surface antigen CD2 (T11) mRNA, complete cds, clone PB1.
BC033583 - Homo sapiens CD2 molecule, mRNA (cDNA clone MGC:34621 IMAGE:5227138), complete cds.
M14362 - Human T-cell surface antigen CD2 (T11) mRNA, complete cds.
AX680070 - Sequence 1 from Patent EP1279730.
M16445 - Human surface antigen CD2 mRNA, complete cds.
KJ896558 - Synthetic construct Homo sapiens clone ccsbBroadEn_05952 CD2 gene, encodes complete protein.
KJ905161 - Synthetic construct Homo sapiens clone ccsbBroadEn_14568 CD2 gene, encodes complete protein.
AB590327 - Synthetic construct DNA, clone: pFN21AE1477, Homo sapiens CD2 gene for CD2 molecule, without stop codon, in Flexi system.
DQ894115 - Synthetic construct Homo sapiens clone IMAGE:100008575; FLH167909.01L; RZPDo839H0289D CD2 molecule (CD2) gene, encodes complete protein.
DQ890953 - Synthetic construct clone IMAGE:100003583; FLH167913.01X; RZPDo839H0290D CD2 molecule (CD2) gene, encodes complete protein.
AK301154 - Homo sapiens cDNA FLJ59767 complete cds, highly similar to T-cell surface antigen CD2 precursor.
AK303367 - Homo sapiens cDNA FLJ51428 complete cds, highly similar to T-cell surface antigen CD2 precursor.
AK310676 - Homo sapiens cDNA, FLJ17718.
JD324689 - Sequence 305713 from Patent EP1572962.
JD110666 - Sequence 91690 from Patent EP1572962.
JD386430 - Sequence 367454 from Patent EP1572962.
JD185964 - Sequence 166988 from Patent EP1572962.
JD526646 - Sequence 507670 from Patent EP1572962.
JD047103 - Sequence 28127 from Patent EP1572962.
JD411103 - Sequence 392127 from Patent EP1572962.
JD244186 - Sequence 225210 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_il17Pathway - IL 17 Signaling Pathway
h_dcPathway - Dendritic cells in regulating TH1 and TH2 Development
h_stathminPathway - Stathmin and breast cancer resistance to antimicrotubule agents
h_tcytotoxicPathway - T Cytotoxic Cell Surface Molecules
h_thelperPathway - T Helper Cell Surface Molecules
h_no2il12Pathway - NO2-dependent IL 12 Pathway in NK cells

-  Other Names for This Gene
  Alternate Gene Symbols: CD2 , ENST00000369478.1, ENST00000369478.2, ENST00000369478.3, hCG_39065 , NM_001767, Q53F96, Q53F96_HUMAN, uc318hpf.1, uc318hpf.2
UCSC ID: ENST00000369478.4_4
RefSeq Accession: NM_001767.5
Protein: Q53F96

-  Gene Model Information
  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.