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TMED3 Gene(Protein Coding)

Transmembrane P24 Trafficking Protein 3

GCID:
GC15P079311
GIFtS:
51
Genes Participants
UDN Logo

Aliases for TMED3 Gene

Aliases for TMED3 Gene

  • Transmembrane P24 Trafficking Protein 3 2 3 5
  • Transmembrane Emp24 Protein Transport Domain Containing 3 2 3
  • P24 Family Protein Gamma-4 3 4
  • Membrane Protein P24B 3 4
  • P24gamma4 3 4
  • C15orf22 3 4
  • P26 3 4
  • Testis Tissue Sperm-Binding Protein Li 48e 3
  • Transmembrane Emp24 Domain Containing 3 2
  • Chromosome 15 Open Reading Frame 22 2
  • Integral Type I Protein 3
  • P24g4 3
  • P24B 3

External Ids for TMED3 Gene

Previous HGNC Symbols for TMED3 Gene

  • C15orf22

Previous GeneCards Identifiers for TMED3 Gene

  • GC15P077391
  • GC15P079603
  • GC15P056361

Summaries for TMED3 Gene

GeneCards Summary for TMED3 Gene

TMED3 (Transmembrane P24 Trafficking Protein 3) is a Protein Coding gene. Among its related pathways are Golgi-to-ER retrograde transport and Transport to the Golgi and subsequent modification. An important paralog of this gene is TMED5.

UniProtKB/Swiss-Prot for TMED3 Gene

  • Potential role in vesicular protein trafficking, mainly in the early secretory pathway. Contributes to the coupled localization of TMED2 and TMED10 in the cis-Golgi network.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TMED3 Gene

Genomics for TMED3 Gene

Products:

  1. Regulatory Element

Regulatory Elements for TMED3 Gene

Enhancers for TMED3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TMED3 on UCSC Golden Path with GeneCards custom track

Promoters for TMED3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TMED3 on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the TMED3 gene promoter:

Genomic Location for TMED3 Gene

Chromosome:
15
Start:
79,311,062 bp from pter
End:
79,427,432 bp from pter
Size:
116,371 bases
Orientation:
Plus strand

Genomic View for TMED3 Gene

Genes around TMED3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMED3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMED3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TMED3 Gene

Proteins for TMED3 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for TMED3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y3Q3-TMED3_HUMAN
    Recommended name:
    Transmembrane emp24 domain-containing protein 3
    Protein Accession:
    Q9Y3Q3
    Secondary Accessions:
    • A8K069
    • B4DN05
    • Q2T9F8

    Protein attributes for TMED3 Gene

    Size:
    217 amino acids
    Molecular mass:
    24777 Da
    Quaternary structure:
    • Monomer in endoplasmic reticulum, endoplasmic reticulum-Golgi intermediate compartment and cis-Golgi network. Interacts (via C-terminus) with COPG1; the interaction involves dimeric TMED3; however, there are conflicting reports on the interaction. Interacts with GORASP1 and GORASP2 (By similarity).

    Alternative splice isoforms for TMED3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TMED3 Gene

Proteomics data for TMED3 Gene at MOPED

Protein Expression for TMED3 Gene

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

Post-translational modifications for TMED3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TMED3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TMED3 Gene

Domains & Families for TMED3 Gene

Gene Families for TMED3 Gene

HGNC:

Protein Domains for TMED3 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for TMED3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y3Q3

UniProtKB/Swiss-Prot:

TMED3_HUMAN :
  • Contains 1 GOLD domain.
  • Belongs to the EMP24/GP25L family.
Domain:
  • Contains 1 GOLD domain.
Family:
  • Belongs to the EMP24/GP25L family.
genes like me logo Genes that share domains with TMED3: view

Function for TMED3 Gene

Products:

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

Molecular function for TMED3 Gene

UniProtKB/Swiss-Prot Function:
Potential role in vesicular protein trafficking, mainly in the early secretory pathway. Contributes to the coupled localization of TMED2 and TMED10 in the cis-Golgi network.

Phenotypes for TMED3 Gene

GenomeRNAi human phenotypes for TMED3:
genes like me logo Genes that share phenotypes with TMED3: view

Animal Model Products

miRNA for TMED3 Gene

miRTarBase miRNAs that target TMED3

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TMED3 Gene

Localization for TMED3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMED3 Gene

Endoplasmic reticulum-Golgi intermediate compartment membrane; Single-pass type I membrane protein. Golgi apparatus, cis-Golgi network membrane; Single-pass type I membrane protein. Golgi apparatus, Golgi stack membrane; Single-pass type I membrane protein. Endoplasmic reticulum membrane; Single-pass type I membrane protein. Cytoplasmic vesicle, COPI-coated vesicle membrane; Single-pass type I membrane protein. Note=Probably cycles between compartments of the early secretatory pathway. {ECO:0000269 PubMed:10852829}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TMED3 Gene COMPARTMENTS Subcellular localization image for TMED3 gene
Compartment Confidence
endoplasmic reticulum 5
golgi apparatus 5
mitochondrion 2
extracellular 1
lysosome 1
plasma membrane 1
vacuole 1

Gene Ontology (GO) - Cellular Components for TMED3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IDA 12237308
GO:0005789 endoplasmic reticulum membrane IEA,TAS --
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment IDA 12237308
GO:0016021 integral component of membrane IEA --
GO:0030126 COPI vesicle coat ISS --
genes like me logo Genes that share ontologies with TMED3: view

Pathways & Interactions for TMED3 Gene

genes like me logo Genes that share pathways with TMED3: view

Gene Ontology (GO) - Biological Process for TMED3 Gene

None

No data available for SIGNOR curated interactions for TMED3 Gene

Drugs & Compounds for TMED3 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for TMED3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for TMED3 Gene

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

Unigene Clusters for TMED3 Gene

Transmembrane emp24 protein transport domain containing 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TMED3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d
SP1: - - -
SP2: -
SP3: - -
SP4:

Relevant External Links for TMED3 Gene

GeneLoc Exon Structure for
TMED3
ECgene alternative splicing isoforms for
TMED3

Expression for TMED3 Gene

Products:

  1. Primer

mRNA expression in normal human tissues for TMED3 Gene

mRNA expression in normal human tissues for TMED3 Gene
mRNA expression by BioGPS for TMED3 GenemRNA expression by GTEx for TMED3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TMED3 Gene

This gene is overexpressed in Skin (15.8), Hair follicle (15.1), and Breast (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for TMED3 Gene



SOURCE GeneReport for Unigene cluster for TMED3 Gene Hs.513058

genes like me logo Genes that share expression patterns with TMED3: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for TMED3 Gene

Orthologs for TMED3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TMED3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia LOC539132 35
  • 89.4 (n)
  • 91.24 (a)
TMED3 36
  • 91 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia TMED3 35
  • 88.05 (n)
  • 92.42 (a)
TMED3 36
  • 86 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Tmed3 35
  • 87.54 (n)
  • 93.94 (a)
Tmed3 16
Tmed3 36
  • 88 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia TMED3 35
  • 99.39 (n)
  • 99.08 (a)
TMED3 36
  • 99 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Tmed3 35
  • 87.1 (n)
  • 93.09 (a)
oppossum
(Monodelphis domestica)
 Mammalia TMED3 36
  • 75 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia TICAM2 36
  • 5 (a)
 ManyToMany
chicken
(Gallus gallus)
 Aves TMED3 35
  • 78.35 (n)
  • 80.93 (a)
TMED3 36
  • 72 (a)
 OneToOne
zebrafish
(Danio rerio)
 Actinopterygii tmed3 35
  • 66.3 (n)
  • 68.85 (a)
wufb09b11 35
tmed3 36
  • 63 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta p24-1 36
  • 44 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea F57B10.5 36
  • 50 (a)
 OneToMany
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes EMP24 36
  • 22 (a)
 OneToMany
sea squirt
(Ciona intestinalis)
 Ascidiacea Cin.11649 35
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.9127 36
  • 49 (a)
 OneToMany
Species with no ortholog for TMED3:
  • 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)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 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)

Evolution for TMED3 Gene

ENSEMBL:
Gene Tree for TMED3 (if available)
TreeFam:
Gene Tree for TMED3 (if available)

Paralogs for TMED3 Gene

Paralogs for TMED3 Gene

(4) SIMAP similar genes for TMED3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with TMED3: view

Variants for TMED3 Gene

Sequence variations from dbSNP and Humsavar for TMED3 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs3784543 - 79,313,844(+) AGTAC(A/G)ACAGC nc-transcript-variant, reference, missense
rs188242 -- 79,313,941(+) TGACT(C/T)TCAAG nc-transcript-variant, reference, missense
rs190807 -- 79,314,072(+) TCTGT(A/C)TAGGC intron-variant
rs190808 -- 79,314,407(+) cacca(A/C)acatc intron-variant
rs190809 -- 79,315,762(+) ACCAT(C/G)TGTGC intron-variant

Variation tolerance for TMED3 Gene

Residual Variation Intolerance Score: 72.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.16; 51.73% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Relevant External Links for TMED3 Gene

Disorders for TMED3 Gene

Relevant External Links for TMED3

Genetic Association Database (GAD)
TMED3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TMED3

No disorders were found for TMED3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMED3 Gene

Publications for TMED3 Gene

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 2 3 4 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  5. A novel genome-wide in vivo screen for metastatic suppressors in human colon cancer identifies the positive WNT-TCF pathway modulators TMED3 and SOX12. (PMID: 24920608) Duquet A. … Ruiz i Altaba A. (EMBO Mol Med 2014) 3

Products for TMED3 Gene

Sources for TMED3 Gene

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