Free for academic non-profit institutions. Other users need a Commercial license

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.

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

Regulatory Elements for TMEM39B Gene

Enhancers for TMEM39B 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
GH01G031924 2.1 FANTOM5 Ensembl ENCODE dbSUPER 10.4 -136.2 -136199 22.1 MLX CREB3L1 AGO1 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF416 SNRNP40 ENSG00000229447 TSSK3 LOC105378626 EIF3I MTMR9LP KHDRBS1 HDAC1 ENSG00000224066 TMEM39B
GH01G031963 1.5 Ensembl ENCODE dbSUPER 10.4 -107.8 -107788 1.2 HDGF ATF1 ARNT WRNIP1 ARID4B SIN3A ZNF2 ZNF121 ZNF766 ZNF143 KHDRBS1 ENSG00000203325 TMEM39B PTP4A2
GH01G032106 1.1 ENCODE 11.8 +36.1 36121 3.0 HDGF CREB3L1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF207 ENSG00000203325 TMEM39B CCDC28B IQCC LCK FAM167B KPNA6 LRRC37A12P PIR55954
GH01G032044 0.8 VISTA 12.1 -27.2 -27161 0.9 POLR2H PAF1 ZNF3 POLR2A ATF2 SUPT5H ENSG00000203325 TMEM39B KHDRBS1 GC01P032045
GH01G032021 0.8 ENCODE 10.8 -50.2 -50168 0.9 HDAC1 PKNOX1 CBX3 ARNT TCF12 NCOA1 ZEB2 ZNF592 NFIC SMARCA4 ENSG00000203325 TMEM39B EIF3I KHDRBS1 GC01P032045
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TMEM39B on UCSC Golden Path with GeneCards custom track

Promoters for TMEM39B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000004312 1069 1401 HDGF PKNOX1 MLX CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B

Genomic Location for TMEM39B Gene

Chromosome:
1
Start:
32,072,031 bp from pter
End:
32,102,866 bp from pter
Size:
30,836 bases
Orientation:
Plus strand

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 posLast=234234 and isoforms=4475
  • Glycosylation at isoforms=28
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TMEM39B Gene

Domains & Families for TMEM39B Gene

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

No data available for Gene Families for TMEM39B Gene

Function for TMEM39B Gene

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

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , 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

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:

CRISPR Products

Inhibitory RNA 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

Primer Products

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 34 35
  • 99.93 (n)
dog
(Canis familiaris)
Mammalia TMEM39B 34 35
  • 93.77 (n)
cow
(Bos Taurus)
Mammalia TMEM39B 34 35
  • 93.36 (n)
mouse
(Mus musculus)
Mammalia Tmem39b 34 16 35
  • 91.87 (n)
rat
(Rattus norvegicus)
Mammalia Tmem39b 34
  • 91.12 (n)
oppossum
(Monodelphis domestica)
Mammalia TMEM39B 35
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TMEM39B 35
  • 69 (a)
OneToOne
chicken
(Gallus gallus)
Aves TMEM39B 34 35
  • 77.34 (n)
lizard
(Anolis carolinensis)
Reptilia TMEM39B 35
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tmem39b 34
  • 70.08 (n)
Str.15850 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.4712 34
zebrafish
(Danio rerio)
Actinopterygii tmem39b 34 35
  • 67.85 (n)
wufi31h12 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6164 34
fruit fly
(Drosophila melanogaster)
Insecta CG13016 35
  • 29 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea D1007.5 35
  • 24 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 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 Sequence Context AA Info Type
rs1000041923 -- 32,100,347(+) AATGG(G/T)AGTAG intron-variant
rs1000075197 -- 32,096,747(+) TGAGC(C/T)ACTAC intron-variant
rs1000297876 -- 32,090,494(+) CTGCC(C/T)GGCCA intron-variant
rs1000314157 -- 32,078,445(+) GCCAC(C/T)GTACT intron-variant
rs1000530257 -- 32,085,478(+) CTGGG(C/T)GTGGT intron-variant, upstream-variant-2KB

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)

Relevant External Links 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

Relevant External Links for TMEM39B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 S.G. … Bentley D.R. (Nature 2006) 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  3. 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
  4. Towards 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 Res. 2001) 3 4 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 TMEM39B Gene

Sources for TMEM39B Gene

Content
Loading form....