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Aliases for TMEM39B Gene

Aliases for TMEM39B Gene

  • Transmembrane Protein 39B 2 3 5

External Ids for TMEM39B Gene

Previous GeneCards Identifiers for TMEM39B Gene

  • GC01P032207
  • GC01P032310
  • GC01P032537
  • GC01P030655

Summaries for TMEM39B Gene

GeneCards Summary for TMEM39B Gene

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

Additional gene information for TMEM39B Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TMEM39B Gene

Genomics for TMEM39B Gene

GeneHancer (GH) Regulatory Elements for TMEM39B Gene

Promoters and enhancers for TMEM39B 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
GH01I032071 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.8 818 3 HDGF PKNOX1 CLOCK SMAD1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF2 ENSG00000203325 GC01M032072 TMEM39B RBBP4 SNRNP40 KPNA6
GH01I031924 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 45 -136.2 -136198 22.1 CLOCK MLX ZFP64 YBX1 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 GC01P031934 PTP4A2 TXLNA SNRNP40 KHDRBS1 RBBP4 ENSG00000229447 TSSK3 ZBTB8A TMEM39B
GH01I031951 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 51.6 -116.0 -115961 9.1 DMAP1 YBX1 IRF4 YY1 E2F8 ZC3H11A MEF2D GLIS1 RCOR2 NBN SNRNP40 KHDRBS1 TXLNA RBBP4 TSSK3 TMEM39B ENSG00000229447 ZBTB8A IQCC ENSG00000228634
GH01I032813 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 32 +745.2 745211 7.3 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 S100PBP YARS TXLNA TSSK3 RBBP4 ZBTB8A KHDRBS1 TMEM39B EIF3I FAM229A
GH01I032262 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 46.9 +193.4 193357 4.8 ZNF493 ZNF529 ZFP64 RARA ZNF213 SCRT2 ZNF654 ZNF680 ZBTB11 CEBPB TXLNA RBBP4 SNRNP40 KHDRBS1 TSSK3 TMEM39B ZBTB8A ZNF362 DCDC2B S100PBP
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TMEM39B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TMEM39B gene promoter:

Genomic Locations for TMEM39B Gene

Genomic Locations for TMEM39B Gene
chr1:32,072,031-32,102,866
(GRCh38/hg38)
Size:
30,836 bases
Orientation:
Plus strand
chr1:32,537,632-32,568,467
(GRCh37/hg19)

Genomic View for TMEM39B Gene

Genes around TMEM39B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TMEM39B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TMEM39B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TMEM39B Gene

Proteins for TMEM39B Gene

  • Protein details for TMEM39B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9GZU3-TM39B_HUMAN
    Recommended name:
    Transmembrane protein 39B
    Protein Accession:
    Q9GZU3
    Secondary Accessions:
    • B4DKN8
    • B4DQE6
    • B4DTN8
    • D3DPP4
    • Q6IA44

    Protein attributes for TMEM39B Gene

    Size:
    492 amino acids
    Molecular mass:
    56274 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TMEM39B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TMEM39B Gene

Post-translational modifications for TMEM39B Gene

  • Ubiquitination at isoforms=3, 4234 and isoforms=4475
  • Glycosylation at posLast=88
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TMEM39B Gene

Domains & Families for TMEM39B Gene

Gene Families for TMEM39B Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for TMEM39B Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9GZU3

UniProtKB/Swiss-Prot:

TM39B_HUMAN :
  • Belongs to the TMEM39 family.
Family:
  • Belongs to the TMEM39 family.
genes like me logo Genes that share domains with TMEM39B: view

Function for TMEM39B Gene

genes like me logo Genes that share phenotypes with TMEM39B: view

Animal Model Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TMEM39B Gene

Localization for TMEM39B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TMEM39B Gene

Membrane; Multi-pass 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 TMEM39B gene
Compartment Confidence
plasma membrane 3
peroxisome 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for TMEM39B 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 TMEM39B: view

Pathways & Interactions for TMEM39B Gene

SuperPathways for TMEM39B Gene

No Data Available

Interacting Proteins for TMEM39B Gene

Selected Interacting proteins: Q9GZU3-TM39B_HUMAN for TMEM39B Gene via IID

Gene Ontology (GO) - Biological Process for TMEM39B Gene

None

No data available for Pathways by source and SIGNOR curated interactions for TMEM39B Gene

Drugs & Compounds for TMEM39B Gene

No Compound Related Data Available

Transcripts for TMEM39B Gene

Unigene Clusters for TMEM39B Gene

Transmembrane protein 39B:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TMEM39B Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d · 2e · 2f · 2g · 2h ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c · 5d ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c ^ 11a · 11b ·
SP1: - - - - - - - - - - - -
SP2: - - - - -
SP3: - - - - - - - -
SP4: - - - - -
SP5: - - - - - -
SP6: - - - - - - -
SP7: - - - -
SP8: - - - -
SP9: - - - - - - - - - - -
SP10: - - - - - - - - -
SP11: - - - - - - - -
SP12: - - - - - -
SP13: - - - -
SP14: - - - -
SP15: -
SP16: -

ExUns: 11c ^ 12a · 12b ^ 13 ^ 14
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:

Relevant External Links for TMEM39B Gene

GeneLoc Exon Structure for
TMEM39B
ECgene alternative splicing isoforms for
TMEM39B

Expression for TMEM39B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TMEM39B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TMEM39B Gene

This gene is overexpressed in Synovial fluid (36.6) and Peripheral blood mononuclear cells (25.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TMEM39B Gene



Protein tissue co-expression partners for TMEM39B Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TMEM39B Gene:

TMEM39B

SOURCE GeneReport for Unigene cluster for TMEM39B Gene:

Hs.25544

Evidence on tissue expression from TISSUES for TMEM39B Gene

  • Nervous system(4.5)
  • Intestine(4.2)
genes like me logo Genes that share expression patterns with TMEM39B: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TMEM39B Gene

Orthologs for TMEM39B Gene

This gene was present in the common ancestor of animals.

Orthologs for TMEM39B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TMEM39B 33 34
  • 99.93 (n)
dog
(Canis familiaris)
Mammalia TMEM39B 33 34
  • 93.77 (n)
cow
(Bos Taurus)
Mammalia TMEM39B 33 34
  • 93.36 (n)
mouse
(Mus musculus)
Mammalia Tmem39b 33 16 34
  • 91.87 (n)
rat
(Rattus norvegicus)
Mammalia Tmem39b 33
  • 91.12 (n)
oppossum
(Monodelphis domestica)
Mammalia TMEM39B 34
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TMEM39B 34
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves TMEM39B 33 34
  • 77.34 (n)
lizard
(Anolis carolinensis)
Reptilia TMEM39B 34
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tmem39b 33
  • 70.08 (n)
Str.15850 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.4712 33
zebrafish
(Danio rerio)
Actinopterygii tmem39b 33 34
  • 67.85 (n)
wufi31h12 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6164 33
fruit fly
(Drosophila melanogaster)
Insecta CG13016 34
  • 29 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea D1007.5 34
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 34 (a)
OneToMany
Species where no ortholog for TMEM39B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • 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 TMEM39B Gene

ENSEMBL:
Gene Tree for TMEM39B (if available)
TreeFam:
Gene Tree for TMEM39B (if available)

Paralogs for TMEM39B Gene

Paralogs for TMEM39B Gene

(1) SIMAP similar genes for TMEM39B Gene using alignment to 8 proteins:

genes like me logo Genes that share paralogs with TMEM39B: view

Variants for TMEM39B Gene

Sequence variations from dbSNP and Humsavar for TMEM39B Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000041923 -- 32,100,347(+) G/T intron_variant
rs1000075197 -- 32,096,747(+) C/T intron_variant
rs1000297876 -- 32,090,494(+) C/T intron_variant
rs1000314157 -- 32,078,445(+) T/C intron_variant
rs1000530257 -- 32,085,478(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TMEM39B Gene

Variant ID Type Subtype PubMed ID
dgv224n54 CNV loss 21841781
dgv225n54 CNV loss 21841781
esv25480 CNV loss 19812545
esv2674125 CNV deletion 23128226
esv3560393 CNV deletion 23714750
esv3585663 CNV loss 21293372
esv3585664 CNV loss 21293372
esv3585665 CNV loss 21293372
esv3585666 CNV loss 21293372
nsv1154076 CNV insertion 26484159
nsv545957 CNV loss 21841781

Variation tolerance for TMEM39B Gene

Residual Variation Intolerance Score: 41.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.75; 15.77% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TMEM39B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TMEM39B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TMEM39B Gene

Disorders for TMEM39B Gene

Additional Disease Information for TMEM39B

No disorders were found for TMEM39B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TMEM39B Gene

Publications for TMEM39B Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3 58
  4. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S … Poustka A (Genome research 2001) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for TMEM39B Gene

Sources for TMEM39B Gene

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