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CD5 Gene(Protein Coding)

CD5 Molecule

GCID:
GC11P061115
GIFtS:
47
Genes Participants
UDN Logo

Aliases for CD5 Gene

Aliases for CD5 Gene

  • CD5 Molecule 2 3 5
  • Lymphocyte Antigen T1/Leu-1 3 4
  • CD5 Antigen (P56-62) 2 3
  • LEU1 3 4
  • T-Cell Surface Glycoprotein CD5 3
  • CD5 Antigen 4
  • T1 3

External Ids for CD5 Gene

Previous HGNC Symbols for CD5 Gene

  • LEU1

Previous GeneCards Identifiers for CD5 Gene

  • GC11P063262
  • GC11P062382
  • GC11P061120
  • GC11P060646
  • GC11P060647
  • GC11P060626
  • GC11P060869
  • GC11P057229
  • GC11P061105
  • GC11P061106
  • GC11P061107
  • GC11P061109
  • GC11P061110
  • GC11P061112
  • GC11P061113
  • GC11P061114

Summaries for CD5 Gene

Entrez Gene Summary for CD5 Gene

  • This gene encodes a member of the scavenger receptor cysteine-rich (SRCR) superfamily. Members of this family are secreted or membrane-anchored proteins mainly found in cells associated with the immune system. This protein is a type-I transmembrane glycoprotein found on the surface of thymocytes, T lymphocytes and a subset of B lymphocytes. The encoded protein contains three SRCR domains and may act as a receptor to regulate T-cell proliferation. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Oct 2016]

GeneCards Summary for CD5 Gene

CD5 (CD5 Molecule) is a Protein Coding gene. Diseases associated with CD5 include Thymus Cancer and Richter's Syndrome. Among its related pathways are Hematopoietic Stem Cell Differentiation Pathways and Lineage-specific Markers and B Cell Development Pathways. Gene Ontology (GO) annotations related to this gene include scavenger receptor activity.

UniProtKB/Swiss-Prot for CD5 Gene

  • May act as a receptor in regulating T-cell proliferation.

Gene Wiki entry for CD5 Gene

Additional gene information for CD5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CD5 Gene

Genomics for CD5 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for CD5 Gene

Promoters and enhancers for CD5 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH11J061101 Promoter/Enhancer 1.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 693.4 +1.2 1155 3.7 HDGF BCOR ZSCAN4 ZMYM3 EBF1 CDC5L FOXK2 SCRT2 HES1 SRF CD5 GC11P061103 GC11P061102 CD6 RNU6-933P VPS37C SDHAF2 GC11P061126 GC11M061097
GH11J061157 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 32 +59.4 59362 8.2 HDGF PKNOX1 CLOCK FOXA2 SMAD1 MLX ARNT ARID4B NEUROD1 SIN3A VPS37C CD5 CPSF7 CD6 TMEM216 SLC15A3 CYB561A3 SDHAF2 PTGDR2 GC11P061168
GH11J061148 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 36.2 +48.9 48941 6.3 PKNOX1 CLOCK ARNT ZNF280A TCF12 ZNF766 GATA2 ZFP91 FOS YY2 CD5 CD6 GC11M061097 GC11M061146 PIR36654 VPS37C
GH11J061119 Enhancer 1.3 FANTOM5 ENCODE dbSUPER 43.3 +18.2 18169 2.6 NFIB FEZF1 ZBTB40 ZNF335 GLIS2 ZNF366 RCOR1 EGR2 ZNF843 ZFP69B CD5 CD6 RNU6-933P VPS37C FADS1 GC11P061126 GC11P061103 GC11P061102 GC11M061097
GH11J061128 Enhancer 1.4 Ensembl ENCODE dbSUPER 33.1 +28.6 28606 4.2 HDGF PKNOX1 CLOCK FOXA2 MLX ARNT ARID4B NEUROD1 SIN3A DMAP1 CD5 CD6 RNU6-933P GC11P061126 ENSG00000279549 GC11M061097 VPS37C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CD5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CD5 gene promoter:
  • Pax-4a
  • FOXD1
  • c-Myb
  • Max1
  • c-Myc
  • POU3F2
  • USF1
  • USF-1
  • SREBP-1c
  • SREBP-1b

Genomic Locations for CD5 Gene

Genomic Locations for CD5 Gene
chr11:61,102,395-61,127,852
(GRCh38/hg38)
Size:
25,458 bases
Orientation:
Plus strand
chr11:60,869,867-60,895,324
(GRCh37/hg19)
Size:
25,458 bases
Orientation:
Plus strand

Genomic View for CD5 Gene

Genes around CD5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CD5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CD5 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CD5 Gene

Proteins for CD5 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for CD5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P06127-CD5_HUMAN
    Recommended name:
    T-cell surface glycoprotein CD5
    Protein Accession:
    P06127
    Secondary Accessions:
    • A0N0P4
    • A8K9I3

    Protein attributes for CD5 Gene

    Size:
    495 amino acids
    Molecular mass:
    54578 Da
    Quaternary structure:
    • Interacts with CD72/LYB-2. Interacts with PTPN6/SHP-1 (By similarity).

    Three dimensional structures from OCA and Proteopedia for CD5 Gene

neXtProt entry for CD5 Gene

Protein Expression for CD5 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for CD5 Gene

  • Phosphorylated on tyrosine residues by LYN; this creates binding sites for PTPN6/SHP-1.
  • Glycosylation at posLast=241241 and posLast=116116
  • Ubiquitination at posLast=346346, posLast=273273, and Lys43
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • CD5_HUMAN (589)

Other Protein References for CD5 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for CD5

No data available for DME Specific Peptides for CD5 Gene

Domains & Families for CD5 Gene

Gene Families for CD5 Gene

HGNC:
Human Protein Atlas (HPA):
  • CD markers
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for CD5 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for CD5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CD5: view

No data available for UniProtKB/Swiss-Prot for CD5 Gene

Function for CD5 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for CD5 Gene

UniProtKB/Swiss-Prot Function:
May act as a receptor in regulating T-cell proliferation.
GENATLAS Biochemistry:
cell differentiation antigen CD5 (p56-62),expressed on thymocytes,T and B cells,single chain,identified by monoclonal antibodies T1,UCHT2,T101,HH9,AMG4

Phenotypes From GWAS Catalog for CD5 Gene

Gene Ontology (GO) - Molecular Function for CD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004888 transmembrane signaling receptor activity NAS 3093892
GO:0005044 scavenger receptor activity IEA --
GO:0005515 protein binding IPI 1711157
GO:0038023 signaling receptor activity NAS 1711157
genes like me logo Genes that share ontologies with CD5: view
genes like me logo Genes that share phenotypes with CD5: view

Animal Models for CD5 Gene

MGI Knock Outs for CD5:
  • Cd5 Cd5<tm1.1(KOMP)Mbp>
  • Cd5 Cd5<tm1Cgn>

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for CD5 Gene

Localization for CD5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CD5 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CD5 gene
Compartment Confidence
plasma membrane 5
extracellular 4
cytoskeleton 2
nucleus 2
cytosol 2
lysosome 1

Gene Ontology (GO) - Cellular Components for CD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IDA 11390434
GO:0005887 integral component of plasma membrane NAS 1711157
GO:0009897 external side of plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CD5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CD5 Gene

Pathways & Interactions for CD5 Gene

genes like me logo Genes that share pathways with CD5: view

Pathways by source for CD5 Gene

1 KEGG pathway for CD5 Gene

SIGNOR curated interactions for CD5 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for CD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006898 receptor-mediated endocytosis IEA --
GO:0008037 cell recognition NAS 1711157
GO:0008283 cell proliferation NAS 3093892
GO:0031295 T cell costimulation IEA --
GO:0097190 apoptotic signaling pathway IEA --
genes like me logo Genes that share ontologies with CD5: view

Drugs & Compounds for CD5 Gene

Products:

  1. Drug

(2) Drugs for CD5 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(3) Additional Compounds for CD5 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CD5: view

Transcripts for CD5 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for CD5 Gene

(2) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(56) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CD5 Gene

CD5 molecule:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CD5 Gene

No ASD Table

Relevant External Links for CD5 Gene

GeneLoc Exon Structure for
CD5
ECgene alternative splicing isoforms for
CD5

Expression for CD5 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CD5 Gene

mRNA expression in normal human tissues for CD5 Gene
mRNA expression by BioGPS for CD5 GenemRNA expression by GTEx for CD5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CD5 Gene

This gene is overexpressed in Whole Blood (x24.2), Spleen (x5.6), and Small Intestine - Terminal Ileum (x4.4).

Protein differential expression in normal tissues from HIPED for CD5 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (35.1), CD8 Tcells (9.8), and Tlymphocyte (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CD5 Gene



Protein tissue co-expression partners for CD5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CD5 Gene:

CD5

SOURCE GeneReport for Unigene cluster for CD5 Gene:

Hs.58685

Evidence on tissue expression from TISSUES for CD5 Gene

  • Blood(4.7)
  • Pancreas(4.1)
  • Lymph node(3.7)
  • Bone marrow(3.3)
  • Spleen(3.2)
  • Intestine(2.8)
  • Skin(2.1)
  • Stomach(2)
genes like me logo Genes that share expression patterns with CD5: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CD5 Gene

Orthologs for CD5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CD5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia CD5 34 33
  • 99.64 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia CD5 34 33
  • 78.5 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia CD5 34 33
  • 74.75 (n)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia LOC100911215 33
  • 74.15 (n)
mouse
(Mus musculus)
 Mammalia Cd5 16 34 33
  • 73.53 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia CD5 34
  • 52 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia CD5 34
  • 47 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves CD5 34 33
  • 52.35 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia CD5 34
  • 31 (a)
 OneToOne
Species where no ortholog for CD5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CD5 Gene

ENSEMBL:
Gene Tree for CD5 (if available)
TreeFam:
Gene Tree for CD5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CD5: view image

Paralogs for CD5 Gene

No data available for Paralogs for CD5 Gene

Variants for CD5 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for CD5 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000049833 -- 61,126,252(+) T/C intron_variant
rs1000313350 -- 61,106,294(+) T/C intron_variant
rs1000367998 -- 61,119,064(+) G/T intron_variant
rs1000463647 -- 61,102,922(+) T/G intron_variant
rs1000685325 -- 61,106,030(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CD5 Gene

Variant ID Type Subtype PubMed ID
dgv1212n100 CNV gain 25217958
esv2760588 CNV gain+loss 21179565
nsv1116676 CNV tandem duplication 24896259
nsv428259 CNV gain+loss 18775914
nsv509412 CNV insertion 20534489
nsv526162 CNV loss 19592680
nsv832176 CNV gain+loss 17160897

Variation tolerance for CD5 Gene

Residual Variation Intolerance Score: 55.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.68; 57.12% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CD5 Gene

Human Gene Mutation Database (HGMD)
CD5
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CD5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CD5 Gene

Disorders for CD5 Gene

MalaCards: The human disease database

(60) MalaCards diseases for CD5 Gene - From: HGMD, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
thymus cancer
  • neoplasm of thymus
richter's syndrome
  • richter syndrome
prolymphocytic leukemia
  • leukemia prolymphocytic
epithelial malignant thymoma
  • squamoid thymoma
dendritic cell thymoma
  • epithelioid thymoma
- elite association - COSMIC cancer census association via MalaCards
Search CD5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CD5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CD5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CD5 Gene

Publications for CD5 Gene

  1. The B-cell surface protein CD72/Lyb-2 is the ligand for CD5. (PMID: 1711157) Van de Velde H … Thielemans K (Nature 1991) 2 3 4 58
  2. Common single nucleotide polymorphisms in immunoregulatory genes and multiple myeloma risk among women in Connecticut. (PMID: 20568250) Lee KM … Lan Q (American journal of hematology 2010) 3 44 58
  3. Common genetic variants in candidate genes and risk of familial lymphoid malignancies. (PMID: 19573080) Liang XS … Goldin LR (British journal of haematology 2009) 3 44 58
  4. Association between genetic variants in VEGF, ERCC3 and occupational benzene haematotoxicity. (PMID: 19773279) Hosgood HD … Lan Q (Occupational and environmental medicine 2009) 3 44 58
  5. Three-dimensional solution structure and conformational plasticity of the N-terminal scavenger receptor cysteine-rich domain of human CD5. (PMID: 18339402) Garza-Garcia A … Driscoll PC (Journal of molecular biology 2008) 3 4 58

Products for CD5 Gene

Sources for CD5 Gene

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