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Aliases for TMEM39A Gene

Aliases for TMEM39A Gene

  • Transmembrane Protein 39A 2 3 5

External Ids for TMEM39A Gene

Previous GeneCards Identifiers for TMEM39A Gene

  • GC03M120632
  • GC03M119148
  • GC03M116525

Summaries for TMEM39A Gene

GeneCards Summary for TMEM39A Gene

TMEM39A (Transmembrane Protein 39A) is a Protein Coding gene. An important paralog of this gene is TMEM39B.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TMEM39A Gene

Genomics for TMEM39A Gene

Regulatory Elements for TMEM39A Gene

Enhancers for TMEM39A 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
GH03F120347 1.1 ENCODE 27.4 -880.6 -880598 3.4 CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 FOS TMEM39A LOC100130701 POGLUT1 GPR156 LOC442087 LRRC58
GH03F119468 1.1 ENCODE 11.3 -0.3 -296 2.2 HDGF ATF1 ARID4B SIN3A FEZF1 DMAP1 ZNF48 ZNF2 ETS1 YY1 POGLUT1 MIR198 TMEM39A CD80 TIMMDC1 ENSG00000272662
GH03F119462 1.1 ENCODE 10.9 +5.4 5393 2.8 HDGF PKNOX1 CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1 YY1 SLC30A9 POGLUT1 MIR198 TIMMDC1 TMEM39A GC03P119428
GH03F119778 1.1 ENCODE 10.6 -310.3 -310284 1.2 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF766 ZNF143 CEBPZ MIR198 TMEM39A NR1I2 PIR58327
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TMEM39A on UCSC Golden Path with GeneCards custom track

Promoters for TMEM39A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001371682 -470 1401 HDGF ATF1 ARID4B SIN3A FEZF1 DMAP1 ZNF48 ZNF2 ETS1 YY1

Genomic Location for TMEM39A Gene

119,428,960 bp from pter
119,468,830 bp from pter
39,871 bases
Minus strand

Genomic View for TMEM39A Gene

Genes around TMEM39A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMEM39A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMEM39A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMEM39A Gene

Proteins for TMEM39A Gene

  • Protein details for TMEM39A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Transmembrane protein 39A
    Protein Accession:
    Secondary Accessions:
    • D3DN80
    • Q53FN4
    • Q53GI1
    • Q6PKB5

    Protein attributes for TMEM39A Gene

    488 amino acids
    Molecular mass:
    55667 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TMEM39A Gene


neXtProt entry for TMEM39A Gene

Post-translational modifications for TMEM39A Gene

  • Ubiquitination at Lys 358
  • Glycosylation at Asn 31 and Asn 39
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TMEM39A Gene

Domains & Families for TMEM39A Gene

Protein Domains for TMEM39A Gene


Suggested Antigen Peptide Sequences for TMEM39A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the TMEM39 family.
  • Belongs to the TMEM39 family.
genes like me logo Genes that share domains with TMEM39A: view

No data available for Gene Families for TMEM39A Gene

Function for TMEM39A Gene

genes like me logo Genes that share phenotypes with TMEM39A: view

Animal Model Products

  • Taconic Biosciences Mouse Models for TMEM39A

miRNA for TMEM39A Gene

miRTarBase miRNAs that target TMEM39A

Inhibitory RNA Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TMEM39A Gene

Localization for TMEM39A Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMEM39A Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

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 TMEM39A gene
Compartment Confidence
plasma membrane 3
nucleus 3
mitochondrion 1
peroxisome 1
endosome 1

Gene Ontology (GO) - Cellular Components for TMEM39A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TMEM39A: view

Pathways & Interactions for TMEM39A Gene

SuperPathways for TMEM39A Gene

No Data Available

Interacting Proteins for TMEM39A Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
Selected Interacting proteins: Q9NV64-TM39A_HUMAN ENSP00000326063 for TMEM39A Gene via IID STRING

Gene Ontology (GO) - Biological Process for TMEM39A Gene


No data available for Pathways by source and SIGNOR curated interactions for TMEM39A Gene

Transcripts for TMEM39A Gene

Unigene Clusters for TMEM39A Gene

Transmembrane protein 39A:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TMEM39A Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11 ^ 12a · 12b
SP1: -
SP2: - -
SP3: -
SP4: - - - -
SP5: - -
SP6: -
SP7: -
SP8: - - - - - - -
SP9: - -

Relevant External Links for TMEM39A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for TMEM39A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TMEM39A Gene

Protein differential expression in normal tissues from HIPED for TMEM39A Gene

This gene is overexpressed in Lung (48.9) and Placenta (20.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TMEM39A Gene

Protein tissue co-expression partners for TMEM39A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TMEM39A Gene:


SOURCE GeneReport for Unigene cluster for TMEM39A Gene:

genes like me logo Genes that share expression patterns with TMEM39A: view

Primer Products

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 TMEM39A Gene

Orthologs for TMEM39A Gene

This gene was present in the common ancestor of animals.

Orthologs for TMEM39A Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia TMEM39A 34 35
  • 99.8 (n)
(Monodelphis domestica)
Mammalia TMEM39A 35
  • 95 (a)
(Canis familiaris)
Mammalia TMEM39A 34 35
  • 94.81 (n)
(Bos Taurus)
Mammalia TMEM39A 34 35
  • 93.78 (n)
(Mus musculus)
Mammalia Tmem39a 34 16 35
  • 90.12 (n)
(Rattus norvegicus)
Mammalia Tmem39a 34
  • 89.24 (n)
(Gallus gallus)
Aves TMEM39A 34 35
  • 80.85 (n)
(Anolis carolinensis)
Reptilia TMEM39A 35
  • 90 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia tmem39a 34
  • 76.2 (n)
Str.10539 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.11343 34
(Danio rerio)
Actinopterygii tmem39a 34 35
  • 66.53 (n)
wufb92e03 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011817 34
  • 44.16 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG13016 34 35
  • 44 (n)
(Caenorhabditis elegans)
Secernentea D1007.5 34 35
  • 43.71 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 36 (a)
Species where no ortholog for TMEM39A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 TMEM39A Gene

Gene Tree for TMEM39A (if available)
Gene Tree for TMEM39A (if available)

Paralogs for TMEM39A Gene

Paralogs for TMEM39A Gene

(1) SIMAP similar genes for TMEM39A Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with TMEM39A: view

Variants for TMEM39A Gene

Sequence variations from dbSNP and Humsavar for TMEM39A Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
VAR_036095 A breast cancer sample
rs10575462 -- 119,449,166(+) TTATG(-/TTAATT)TTAAA intron-variant
rs10653676 -- 119,451,850(+) TCTCA(-/AAA)AAAAA intron-variant
rs111230388 -- 119,458,660(+) GAGGC(C/T)GAGGC intron-variant
rs111252904 -- 119,445,325(+) GCGAT(C/G)CTGGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TMEM39A Gene

Variant ID Type Subtype PubMed ID
esv2725823 CNV deletion 23290073
esv3597558 CNV loss 21293372
nsv829694 CNV gain 17160897
nsv829695 CNV loss 17160897

Variation tolerance for TMEM39A Gene

Residual Variation Intolerance Score: 16% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.52; 71.93% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TMEM39A Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TMEM39A Gene

Disorders for TMEM39A Gene

Relevant External Links for TMEM39A

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for TMEM39A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMEM39A Gene

Publications for TMEM39A Gene

  1. Assessment of a polymorphism of SDK1 with hypertension in Japanese Individuals. (PMID: 19851296) Oguri M. … Yamada Y. (Am. J. Hypertens. 2010) 3 46 64
  2. Association of genetic variants with hemorrhagic stroke in Japanese individuals. (PMID: 20198315) Yoshida T. … Yamada Y. (Int. J. Mol. Med. 2010) 3 46 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64

Products for TMEM39A Gene

Sources for TMEM39A Gene

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