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Aliases for TMED9 Gene

Aliases for TMED9 Gene

  • Transmembrane P24 Trafficking Protein 9 2 3 5
  • Transmembrane Emp24 Protein Transport Domain Containing 9 2 3
  • P24 Family Protein Alpha-2 3 4
  • Glycoprotein 25L2 3 4
  • P24alpha2 3 4
  • GMP25 3 4
  • P25 3 4
  • Transmembrane Emp24 Domain-Containing Protein 9 3
  • HSGP25L2G 3
  • GP25L2 4
  • P24a2 3

External Ids for TMED9 Gene

Previous GeneCards Identifiers for TMED9 Gene

  • GC05P176952
  • GC05P171938
  • GC05P177019

Summaries for TMED9 Gene

Entrez Gene Summary for TMED9 Gene

  • This gene is a member of a family of genes encoding transport proteins located in the endoplasmic reticulum and the Golgi. A similar gene in mouse is the target of microRNA miR-296, which is part of an imprinted cluster. [provided by RefSeq, Jul 2016]

GeneCards Summary for TMED9 Gene

TMED9 (Transmembrane P24 Trafficking Protein 9) is a Protein Coding gene. Among its related pathways are Transport to the Golgi and subsequent modification and Vesicle-mediated transport. GO annotations related to this gene include syntaxin binding. An important paralog of this gene is TMED4.

UniProtKB/Swiss-Prot for TMED9 Gene

  • Appears to be involved in vesicular protein trafficking, mainly in the early secretory pathway. In COPI vesicle-mediated retrograde transport involved in the coatomer recruitment to membranes of the early secretory pathway. Increases coatomer-dependent activity of ARFGAP2. Thought to play a crucial role in the specific retention of p24 complexes in cis-Golgi membranes; specifically contributes to the coupled localization of TMED2 and TMED10 in the cis-Golgi network. May be involved in organization of intracellular membranes, such as of the ER-Golgi intermediate compartment and the Golgi apparatus. Involved in ER localization of PTPN2 isoform PTPB.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TMED9 Gene

Genomics for TMED9 Gene

Regulatory Elements for TMED9 Gene

Enhancers for TMED9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05F177542 1.6 FANTOM5 Ensembl ENCODE 11.8 -46.2 -46156 6.3 PKNOX1 ARID4B SIN3A YY1 FOS PPARG SMARCA4 GLIS1 RCOR2 STAT3 DOK3 LOC105377750 DDX41 TMED9 PDLIM7 MXD3 DBN1 RAB24 GRK6 NSD1
GH05F177552 1.1 ENCODE 11.9 -38.0 -37974 3.2 HDGF ARNT ARID4B SIN3A ZNF2 YY1 ZNF143 FOS SP3 JUNB DOK3 DDX41 TMED9 B4GALT7 FAM153A GC05P177553 FAM193B
GH05F177591 1.1 ENCODE 6.5 +0.3 273 1.8 ATF1 CREB3L1 ARID4B SIN3A DMAP1 ZNF48 BRCA1 ZNF2 ETS1 YY1 FAM153C TMED9 B4GALT7
GH05F177599 1.1 ENCODE 5.4 +8.1 8073 2.2 HDGF PKNOX1 CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZNF207 ZNF143 B4GALT7 DDX41 TMED9 ENSG00000247679
GH05F177606 0.9 ENCODE 5.3 +15.3 15304 1.9 KLF17 ARID4B ZNF48 ZNF2 RAD21 SCRT2 ZNF143 MIXL1 EGR2 THAP11 B4GALT7 FAM153C LOC202181 FAM153A TMED9 ENSG00000247679
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TMED9 on UCSC Golden Path with GeneCards custom track

Promoters for TMED9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001297931 243 1600 ATF1 CREB3L1 ARID4B SIN3A DMAP1 ZNF48 BRCA1 ZNF2 ETS1 YY1

Genomic Location for TMED9 Gene

Chromosome:
5
Start:
177,592,158 bp from pter
End:
177,596,124 bp from pter
Size:
3,967 bases
Orientation:
Plus strand

Genomic View for TMED9 Gene

Genes around TMED9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMED9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMED9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMED9 Gene

Proteins for TMED9 Gene

  • Protein details for TMED9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BVK6-TMED9_HUMAN
    Recommended name:
    Transmembrane emp24 domain-containing protein 9
    Protein Accession:
    Q9BVK6
    Secondary Accessions:
    • Q14437
    • Q8WZ61

    Protein attributes for TMED9 Gene

    Size:
    235 amino acids
    Molecular mass:
    27277 Da
    Quaternary structure:
    • Monomer and homodimer in endoplasmic reticulum. Predominantly monomeric and to lesser extent homodimeric in endoplasmic reticulum-Golgi intermediate compartment and cis-Golgi network. Probably oligomerizes with other members of the EMP24/GP25L family such as TMED2, TMED7 and TMED10. Interacts with TMED5. Interacts (via C-terminus) with COPG1; the interaction involves dimeric TMED9. Interacts with PTPN2 and SPAST. Interacts with STX17; the interaction is direct.
    SequenceCaution:
    • Sequence=AAL35268.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAA62380.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

neXtProt entry for TMED9 Gene

Post-translational modifications for TMED9 Gene

Other Protein References for TMED9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TMED9 Gene

Domains & Families for TMED9 Gene

Gene Families for TMED9 Gene

Protein Domains for TMED9 Gene

Suggested Antigen Peptide Sequences for TMED9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BVK6

UniProtKB/Swiss-Prot:

TMED9_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 TMED9: view

Function for TMED9 Gene

Molecular function for TMED9 Gene

UniProtKB/Swiss-Prot Function:
Appears to be involved in vesicular protein trafficking, mainly in the early secretory pathway. In COPI vesicle-mediated retrograde transport involved in the coatomer recruitment to membranes of the early secretory pathway. Increases coatomer-dependent activity of ARFGAP2. Thought to play a crucial role in the specific retention of p24 complexes in cis-Golgi membranes; specifically contributes to the coupled localization of TMED2 and TMED10 in the cis-Golgi network. May be involved in organization of intracellular membranes, such as of the ER-Golgi intermediate compartment and the Golgi apparatus. Involved in ER localization of PTPN2 isoform PTPB.

Gene Ontology (GO) - Molecular Function for TMED9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16595549
GO:0019905 syntaxin binding IPI 21545355
genes like me logo Genes that share ontologies with TMED9: view
genes like me logo Genes that share phenotypes with TMED9: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TMED9 Gene

Localization for TMED9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMED9 Gene

Endoplasmic reticulum membrane; Single-pass type I membrane protein. Golgi apparatus, cis-Golgi network membrane; Single-pass type I membrane protein. Endoplasmic reticulum-Golgi intermediate compartment membrane; Single-pass type I membrane protein. Golgi apparatus, trans-Golgi network membrane; Single-pass type I membrane protein. Note=Cycles between compartments of the early secretatory pathway.

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 TMED9 gene
Compartment Confidence
extracellular 5
endoplasmic reticulum 5
golgi apparatus 5
plasma membrane 1
mitochondrion 1
peroxisome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for TMED9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005783 endoplasmic reticulum IEA,IDA 12237308
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment IDA 12237308
GO:0005794 Golgi apparatus IEA,IDA 12237308
genes like me logo Genes that share ontologies with TMED9: view

Pathways & Interactions for TMED9 Gene

genes like me logo Genes that share pathways with TMED9: view

Gene Ontology (GO) - Biological Process for TMED9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0006888 ER to Golgi vesicle-mediated transport TAS --
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER TAS --
GO:0007030 Golgi organization IMP 18287528
GO:0010638 positive regulation of organelle organization IMP 18287528
genes like me logo Genes that share ontologies with TMED9: view

No data available for SIGNOR curated interactions for TMED9 Gene

Transcripts for TMED9 Gene

Unigene Clusters for TMED9 Gene

Transmembrane emp24 protein transport domain containing 9:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TMED9 Gene

No ASD Table

Relevant External Links for TMED9 Gene

GeneLoc Exon Structure for
TMED9
ECgene alternative splicing isoforms for
TMED9

Expression for TMED9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TMED9 Gene

Protein differential expression in normal tissues from HIPED for TMED9 Gene

This gene is overexpressed in Nasal epithelium (32.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TMED9 Gene



Protein tissue co-expression partners for TMED9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TMED9 Gene:

TMED9

SOURCE GeneReport for Unigene cluster for TMED9 Gene:

Hs.279929
genes like me logo Genes that share expression patterns with TMED9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TMED9 Gene

Orthologs for TMED9 Gene

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

Orthologs for TMED9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TMED9 34 35
  • 99.29 (n)
dog
(Canis familiaris)
Mammalia TMED9 35
  • 92 (a)
OneToOne
LOC481444 34
  • 91.35 (n)
cow
(Bos Taurus)
Mammalia TMED9 34 35
  • 89.79 (n)
mouse
(Mus musculus)
Mammalia Tmed9 34 16 35
  • 87.52 (n)
rat
(Rattus norvegicus)
Mammalia Tmed9 34
  • 87.09 (n)
oppossum
(Monodelphis domestica)
Mammalia TMED9 35
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TMED9 35
  • 54 (a)
OneToOne
chicken
(Gallus gallus)
Aves -- 35
  • 51 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia TMED9 35
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tmed9 34
  • 75.4 (n)
zebrafish
(Danio rerio)
Actinopterygii tmed9 34 35
  • 78.99 (n)
sbcb294 34
fruit fly
(Drosophila melanogaster)
Insecta eca 35
  • 64 (a)
ManyToMany
p24-2 35
  • 51 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea Y60A3A.9 35
  • 67 (a)
ManyToMany
T08D2.1 35
  • 55 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ERP5 35
  • 29 (a)
ManyToMany
ERP6 35
  • 29 (a)
ManyToMany
ERP1 35 37
  • 26 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 66 (a)
OneToMany
Species where no ortholog for TMED9 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)

Evolution for TMED9 Gene

ENSEMBL:
Gene Tree for TMED9 (if available)
TreeFam:
Gene Tree for TMED9 (if available)

Paralogs for TMED9 Gene

Paralogs for TMED9 Gene

(5) SIMAP similar genes for TMED9 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with TMED9: view

Variants for TMED9 Gene

Sequence variations from dbSNP and Humsavar for TMED9 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs869025249 Uncertain significance 177,592,291(+) CCTCC(A/T)GCTGG reference, missense
rs1049880 -- 177,596,041(+) AGAGT(C/T)TTAGT utr-variant-3-prime
rs111288872 -- 177,597,439(+) GGAGC(A/G)GTGGC downstream-variant-500B
rs111657445 -- 177,594,761(+) TTATG(C/T)GAACA intron-variant
rs111970893 -- 177,592,539(+) CTCGC(A/G)CTCCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TMED9 Gene

Variant ID Type Subtype PubMed ID
nsv5149 CNV insertion 18451855

Variation tolerance for TMED9 Gene

Residual Variation Intolerance Score: 38.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.15; 39.08% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TMED9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TMED9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TMED9 Gene

Disorders for TMED9 Gene

Relevant External Links for TMED9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TMED9

No disorders were found for TMED9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMED9 Gene

Publications for TMED9 Gene

  1. Syntaxin 17 cycles between the ER and ERGIC and is required to maintain the architecture of ERGIC and Golgi. (PMID: 21545355) Muppirala M. … Swarup G. (Biol. Cell 2011) 3 4 64
  2. The cargo receptors Surf4, endoplasmic reticulum-Golgi intermediate compartment (ERGIC)-53, and p25 are required to maintain the architecture of ERGIC and Golgi. (PMID: 18287528) Mitrovic S. … Hauri H.-P. (Mol. Biol. Cell 2008) 3 4 64
  3. Evidence for a role of transmembrane protein p25 in localization of protein tyrosine phosphatase TC48 to the ER. (PMID: 16595549) Gupta V. … Swarup G. (J. Cell Sci. 2006) 3 4 64
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  5. Identification and quantification of N-linked glycoproteins using hydrazide chemistry, stable isotope labeling and mass spectrometry. (PMID: 12754519) Zhang H. … Aebersold R. (Nat. Biotechnol. 2003) 3 4 64

Products for TMED9 Gene

Sources for TMED9 Gene

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