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Aliases for TM6SF1 Gene

Aliases for TM6SF1 Gene

  • Transmembrane 6 Superfamily Member 1 2 3 5

External Ids for TM6SF1 Gene

Previous GeneCards Identifiers for TM6SF1 Gene

  • GC15P079702
  • GC15P076809
  • GC15P081354
  • GC15P081496
  • GC15P081567
  • GC15P083776
  • GC15P060039
  • GC15P083108
  • GC15P083109
  • GC15P083113
  • GC15P083116
  • GC15P083146

Summaries for TM6SF1 Gene

GeneCards Summary for TM6SF1 Gene

TM6SF1 (Transmembrane 6 Superfamily Member 1) is a Protein Coding gene. An important paralog of this gene is TM6SF2.

UniProtKB/Swiss-Prot for TM6SF1 Gene

  • May function as sterol isomerase.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TM6SF1 Gene

Genomics for TM6SF1 Gene

Regulatory Elements for TM6SF1 Gene

Enhancers for TM6SF1 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
GH15G083060 2 FANTOM5 Ensembl ENCODE dbSUPER 12.2 -42.7 -42685 7.5 HDGF HNRNPUL1 PKNOX1 FOXA2 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 C15orf40 BTBD1 TM6SF1 SNHG21 FAM103A1 AP3B2 GOLGA6L9 WHAMM MIR4515 GC15P083164
GH15G083052 1.1 Ensembl ENCODE dbSUPER 12 -54.0 -53951 1.4 FEZF1 ZNF394 EP300 PRDM6 JUND ZNF692 SCRT2 FOS TM6SF1 C15orf40 BTBD1 GOLGA6L10 GC15P083164 MIR4515
GH15G083077 1 ENCODE dbSUPER 12.4 -29.2 -29201 1.6 CTCF PKNOX1 IRF2 FEZF1 RAD21 YY1 GATA3 SMC3 FOS NR2F6 TM6SF1 FAM103A1 C15orf40 BTBD1 GC15P083143
GH15G083069 1 Ensembl ENCODE 12.2 -38.1 -38068 0.3 NFYA MAFG NFYC SP2 ELF1 CHAMP1 SP1 FOXM1 MBD2 ZNF316 BTBD1 TM6SF1 FAM103A1 C15orf40 GC15P083143
GH15G083010 1.1 ENCODE 9.7 -95.9 -95948 2.8 HDGF CREB3L1 ARNT ZFP64 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B FAM103A1 SNHG21 C15orf40 CPEB1 CPEB1-AS1 AP3B2 WHAMM ENSG00000260579 HOMER2 BTBD1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TM6SF1 on UCSC Golden Path with GeneCards custom track

Promoters for TM6SF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000080280 593 1601 HDAC1 CBX3 ATF1 RB1 TBL1XR1 CREB3L1 ZBTB40 ELK1 ETV6 ZNF263

Genomic Location for TM6SF1 Gene

Chromosome:
15
Start:
83,107,407 bp from pter
End:
83,144,854 bp from pter
Size:
37,448 bases
Orientation:
Plus strand

Genomic View for TM6SF1 Gene

Genes around TM6SF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TM6SF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TM6SF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TM6SF1 Gene

Proteins for TM6SF1 Gene

  • Protein details for TM6SF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BZW5-TM6S1_HUMAN
    Recommended name:
    Transmembrane 6 superfamily member 1
    Protein Accession:
    Q9BZW5
    Secondary Accessions:
    • A8K7T5
    • H3BU56
    • Q4U0U5

    Protein attributes for TM6SF1 Gene

    Size:
    370 amino acids
    Molecular mass:
    41636 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TM6SF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TM6SF1 Gene

Post-translational modifications for TM6SF1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for TM6SF1 Gene

Domains & Families for TM6SF1 Gene

Protein Domains for TM6SF1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TM6SF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BZW5

UniProtKB/Swiss-Prot:

TM6S1_HUMAN :
  • Belongs to the TM6SF family.
Family:
  • Belongs to the TM6SF family.
genes like me logo Genes that share domains with TM6SF1: view

No data available for Gene Families for TM6SF1 Gene

Function for TM6SF1 Gene

Molecular function for TM6SF1 Gene

UniProtKB/Swiss-Prot Function:
May function as sterol isomerase.

Gene Ontology (GO) - Molecular Function for TM6SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI --
genes like me logo Genes that share ontologies with TM6SF1: view
genes like me logo Genes that share phenotypes with TM6SF1: view

Animal Model Products

CRISPR 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 TM6SF1 Gene

Localization for TM6SF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TM6SF1 Gene

Lysosome 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 TM6SF1 gene
Compartment Confidence
lysosome 4
plasma membrane 3
cytoskeleton 2
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for TM6SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005764 lysosome IEA --
GO:0005765 lysosomal membrane ISS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TM6SF1: view

Pathways & Interactions for TM6SF1 Gene

SuperPathways for TM6SF1 Gene

No Data Available

Interacting Proteins for TM6SF1 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000317000%0d%0a9606.ENSP00000407401%0d%0a
Selected Interacting proteins: ENSP00000317000 Q9BZW5-TM6S1_HUMAN for TM6SF1 Gene via STRING IID

Gene Ontology (GO) - Biological Process for TM6SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with TM6SF1: view

No data available for Pathways by source and SIGNOR curated interactions for TM6SF1 Gene

Transcripts for TM6SF1 Gene

Unigene Clusters for TM6SF1 Gene

Transmembrane 6 superfamily member 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TM6SF1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b
SP1: - -
SP2: - - - - -
SP3: - - - - - -
SP4:

Relevant External Links for TM6SF1 Gene

GeneLoc Exon Structure for
TM6SF1
ECgene alternative splicing isoforms for
TM6SF1

Expression for TM6SF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TM6SF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TM6SF1 Gene

This gene is overexpressed in Whole Blood (x4.8).

Protein differential expression in normal tissues from HIPED for TM6SF1 Gene

This gene is overexpressed in Monocytes (31.0), Peripheral blood mononuclear cells (26.6), and Platelet (10.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TM6SF1 Gene



Protein tissue co-expression partners for TM6SF1 Gene

NURSA nuclear receptor signaling pathways regulating expression of TM6SF1 Gene:

TM6SF1

SOURCE GeneReport for Unigene cluster for TM6SF1 Gene:

Hs.513094

mRNA Expression by UniProt/SwissProt for TM6SF1 Gene:

Q9BZW5-TM6S1_HUMAN
Tissue specificity: Enhanced expression in spleen, testis and peripheral blood leukocytes.

Evidence on tissue expression from TISSUES for TM6SF1 Gene

  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with TM6SF1: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for TM6SF1 Gene

Orthologs for TM6SF1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TM6SF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TM6SF1 34 35
  • 99.37 (n)
dog
(Canis familiaris)
Mammalia TM6SF1 34 35
  • 94.14 (n)
cow
(Bos Taurus)
Mammalia TM6SF1 34 35
  • 91.98 (n)
mouse
(Mus musculus)
Mammalia Tm6sf1 34 16 35
  • 89.64 (n)
rat
(Rattus norvegicus)
Mammalia Tm6sf1 34
  • 88.6 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 86 (a)
OneToMany
-- 35
  • 77 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia TM6SF1 35
  • 65 (a)
OneToOne
chicken
(Gallus gallus)
Aves TM6SF1 34 35
  • 77.3 (n)
lizard
(Anolis carolinensis)
Reptilia TM6SF1 35
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tm6sf1 34
  • 68.84 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.2482 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5317 35
  • 29 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
Species where no ortholog for TM6SF1 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TM6SF1 Gene

ENSEMBL:
Gene Tree for TM6SF1 (if available)
TreeFam:
Gene Tree for TM6SF1 (if available)

Paralogs for TM6SF1 Gene

Paralogs for TM6SF1 Gene

(1) SIMAP similar genes for TM6SF1 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with TM6SF1: view

Variants for TM6SF1 Gene

Sequence variations from dbSNP and Humsavar for TM6SF1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1000095506 -- 83,132,257(+) AGATA(C/T)GCCTT intron-variant, downstream-variant-500B
rs1000125578 -- 83,135,458(+) TTACA(C/T)TTAGA intron-variant
rs1000244087 -- 83,107,583(+) AGGCG(A/C)CTCGA upstream-variant-2KB, utr-variant-5-prime
rs1000577851 -- 83,106,050(+) AGACC(C/T)TGCCT upstream-variant-2KB
rs1000650951 -- 83,130,590(+) AGAAT(A/G/T)ATGGG intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TM6SF1 Gene

Variant ID Type Subtype PubMed ID
nsv1120052 OTHER inversion 24896259

Variation tolerance for TM6SF1 Gene

Residual Variation Intolerance Score: 31.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.87; 67.41% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TM6SF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TM6SF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TM6SF1 Gene

Disorders for TM6SF1 Gene

Relevant External Links for TM6SF1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TM6SF1

No disorders were found for TM6SF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TM6SF1 Gene

Publications for TM6SF1 Gene

  1. Cloning of the novel gene TM6SF1 reveals conservation of clusters of paralogous genes between human chromosomes 15q24-q26 and 19p13.3- p12. (PMID: 11124529) Carim-Todd L. … Sumoy L. (Cytogenet. Cell Genet. 2000) 2 3 4 64
  2. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  3. TM6SF2 and MAC30, new enzyme homologs in sterol metabolism and common metabolic disease. (PMID: 25566323) Sanchez-Pulido L. … Ponting C.P. (Front. Genet. 2014) 4 64
  4. Validation of DNA promoter hypermethylation biomarkers in breast cancer--a short report. (PMID: 25123395) de Groot J.S. … Moelans C.B. (Cell Oncol (Dordr) 2014) 3 64
  5. Analysis of the DNA sequence and duplication history of human chromosome 15. (PMID: 16572171) Zody M.C. … Nusbaum C. (Nature 2006) 4 64

Products for TM6SF1 Gene

Sources for TM6SF1 Gene

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