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Aliases for TM4SF1 Gene

Aliases for TM4SF1 Gene

  • Transmembrane 4 L Six Family Member 1 2 3 5
  • Transmembrane 4 Superfamily Member 1 2 3
  • Tumor-Associated Antigen L6 3 4
  • TAAL6 3 4
  • M3S1 3 4
  • Membrane Component, Chromosome 3, Surface Marker 1 3
  • Membrane Component Chromosome 3 Surface Marker 1 4
  • Transmembrane 4 L6 Family Member 1 3
  • H-L6 3
  • L6 3

External Ids for TM4SF1 Gene

Previous HGNC Symbols for TM4SF1 Gene

  • M3S1

Previous GeneCards Identifiers for TM4SF1 Gene

  • GC03U990049
  • GC03M149971
  • GC03M150368
  • GC03M150407
  • GC03M150569
  • GC03M149086
  • GC03M146458

Summaries for TM4SF1 Gene

Entrez Gene Summary for TM4SF1 Gene

  • The protein encoded by this gene is a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Most of these members are cell-surface proteins that are characterized by the presence of four hydrophobic domains. The proteins mediate signal transduction events that play a role in the regulation of cell development, activation, growth and motility. This encoded protein is a cell surface antigen and is highly expressed in different carcinomas. [provided by RefSeq, Jul 2008]

GeneCards Summary for TM4SF1 Gene

TM4SF1 (Transmembrane 4 L Six Family Member 1) is a Protein Coding gene. An important paralog of this gene is TM4SF4.

Gene Wiki entry for TM4SF1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TM4SF1 Gene

Genomics for TM4SF1 Gene

Regulatory Elements for TM4SF1 Gene

Enhancers for TM4SF1 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
GH03G149338 1.7 FANTOM5 Ensembl ENCODE dbSUPER 17.4 +36.9 36890 5.6 ELF3 TBP FOXA2 NFIB SIN3A RAD21 RFX5 GATA2 ZNF366 ELK1 TM4SF1 TM4SF1-AS1 HPS3 TM4SF18 GC03M149358
GH03G149352 1.4 Ensembl ENCODE dbSUPER 17.5 +25.2 25217 1.1 ELF3 HDGF FOXA2 WRNIP1 ARID4B DMAP1 ZNF2 ZNF48 RAD21 YY1 TM4SF1 TM4SF1-AS1 GC03M149358 TM4SF18
GH03G149381 2 FANTOM5 Ensembl ENCODE dbSUPER 10.3 -8.8 -8797 10.9 PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZBTB7B YY1 ZNF207 TM4SF4 TM4SF18 TM4SF1 WWTR1-IT1 COMMD2 ENSG00000243885 LOC105374151
GH03G149355 1.2 ENCODE dbSUPER 16.9 +21.4 21413 2.4 ELF3 TBP FOXA2 ATF1 MLX ARID4B DMAP1 RAD21 DNMT3B THRB TM4SF1 TM4SF1-AS1 TM4SF18 GC03M149358
GH03G149365 1.7 Ensembl ENCODE dbSUPER 11.7 +5.3 5343 14.3 CREB3L1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 MEF2D SSRP1 TM4SF1 TM4SF18 TM4SF1-AS1 RPS25P5
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TM4SF1 on UCSC Golden Path with GeneCards custom track

Promoters for TM4SF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000159963 1065 2001 FOXA2 ATF1 ARID4B SIN3A ZNF48 SLC30A9 CBX5 GATA2 FOS SP5

Genomic Location for TM4SF1 Gene

Chromosome:
3
Start:
149,369,018 bp from pter
End:
149,377,865 bp from pter
Size:
8,848 bases
Orientation:
Minus strand

Genomic View for TM4SF1 Gene

Genes around TM4SF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TM4SF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TM4SF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TM4SF1 Gene

Proteins for TM4SF1 Gene

  • Protein details for TM4SF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P30408-T4S1_HUMAN
    Recommended name:
    Transmembrane 4 L6 family member 1
    Protein Accession:
    P30408
    Secondary Accessions:
    • Q6IB51

    Protein attributes for TM4SF1 Gene

    Size:
    202 amino acids
    Molecular mass:
    21632 Da
    Quaternary structure:
    • Present in high molecular weight complexes in tumor cells.

neXtProt entry for TM4SF1 Gene

Post-translational modifications for TM4SF1 Gene

  • Glycosylation at posLast=129129 and isoforms=159

Other Protein References for TM4SF1 Gene

No data available for DME Specific Peptides for TM4SF1 Gene

Domains & Families for TM4SF1 Gene

Protein Domains for TM4SF1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for TM4SF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P30408

UniProtKB/Swiss-Prot:

T4S1_HUMAN :
  • Belongs to the L6 tetraspanin family.
Family:
  • Belongs to the L6 tetraspanin family.
genes like me logo Genes that share domains with TM4SF1: view

No data available for Gene Families for TM4SF1 Gene

Function for TM4SF1 Gene

Molecular function for TM4SF1 Gene

GENATLAS Biochemistry:
transmembrane 4 superfamily member 1,membrane component chromosome 3,cell surface marker 1

Gene Ontology (GO) - Molecular Function for TM4SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with TM4SF1: view
genes like me logo Genes that share phenotypes with TM4SF1: view

Animal Model Products

CRISPR Products

miRNA for TM4SF1 Gene

miRTarBase miRNAs that target TM4SF1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TM4SF1 Gene

Localization for TM4SF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TM4SF1 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 TM4SF1 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for TM4SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane IDA 7510285
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TM4SF1: view

Pathways & Interactions for TM4SF1 Gene

SuperPathways for TM4SF1 Gene

No Data Available

Interacting Proteins for TM4SF1 Gene

Gene Ontology (GO) - Biological Process for TM4SF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with TM4SF1: view

No data available for Pathways by source and SIGNOR curated interactions for TM4SF1 Gene

Drugs & Compounds for TM4SF1 Gene

No Compound Related Data Available

Transcripts for TM4SF1 Gene

Unigene Clusters for TM4SF1 Gene

Transmembrane 4 L six family member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TM4SF1 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5a · 5b · 5c
SP1: -
SP2: - - -
SP3: - - -
SP4: -
SP5:

Relevant External Links for TM4SF1 Gene

GeneLoc Exon Structure for
TM4SF1
ECgene alternative splicing isoforms for
TM4SF1

Expression for TM4SF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TM4SF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TM4SF1 Gene

This gene is overexpressed in Minor Salivary Gland (x4.3).

Protein differential expression in normal tissues from HIPED for TM4SF1 Gene

This gene is overexpressed in Nasal epithelium (23.2) and Lung (23.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TM4SF1 Gene



NURSA nuclear receptor signaling pathways regulating expression of TM4SF1 Gene:

TM4SF1

SOURCE GeneReport for Unigene cluster for TM4SF1 Gene:

Hs.351316

mRNA Expression by UniProt/SwissProt for TM4SF1 Gene:

P30408-T4S1_HUMAN
Tissue specificity: Highly expressed in lung, breast, colon and ovarian carcinomas. It is also present on some normal cells, endothelial cells in particular.

Evidence on tissue expression from TISSUES for TM4SF1 Gene

  • Lung(4.9)
  • Pancreas(4.4)
  • Bone marrow(4)
  • Liver(4)
  • Nervous system(3.9)
  • Stomach(3.1)
  • Intestine(2.9)
  • Skin(2.7)
  • Kidney(2.5)
  • Heart(2.2)
  • Gall bladder(2.1)
  • Spleen(2.1)
genes like me logo Genes that share expression patterns with TM4SF1: view

Primer Products

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for TM4SF1 Gene

Orthologs for TM4SF1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TM4SF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TM4SF1 34 35
  • 98.51 (n)
dog
(Canis familiaris)
Mammalia TM4SF1 35
  • 90 (a)
OneToOne
cow
(Bos Taurus)
Mammalia TM4SF1 34 35
  • 85.48 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TM4SF1 35
  • 84 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tm4sf1 34
  • 83.33 (n)
mouse
(Mus musculus)
Mammalia Tm4sf1 34 16 35
  • 82.84 (n)
oppossum
(Monodelphis domestica)
Mammalia TM4SF1 35
  • 43 (a)
OneToOne
chicken
(Gallus gallus)
Aves TM4SF1 34 35
  • 63.2 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 40 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia tm4sf1 34
  • 68.16 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.18717 34
zebrafish
(Danio rerio)
Actinopterygii tm4sf18 35
  • 48 (a)
OneToMany
Species where no ortholog for TM4SF1 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)

Evolution for TM4SF1 Gene

ENSEMBL:
Gene Tree for TM4SF1 (if available)
TreeFam:
Gene Tree for TM4SF1 (if available)

Paralogs for TM4SF1 Gene

Paralogs for TM4SF1 Gene

(4) SIMAP similar genes for TM4SF1 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with TM4SF1: view

Variants for TM4SF1 Gene

Sequence variations from dbSNP and Humsavar for TM4SF1 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs1000322759 -- 149,379,041(+) GAGGG(C/T)GGGAC intron-variant, upstream-variant-2KB
rs1000382146 -- 149,372,587(+) AACAG(A/G)AAGCA intron-variant
rs1000544177 -- 149,375,779(+) TTAGG(A/G)AACAA intron-variant, upstream-variant-2KB
rs1000816347 -- 149,372,945(+) TCTGT(C/G)CTGAA intron-variant
rs1001131541 -- 149,369,539(+) AATAG(C/T)GATTG nc-transcript-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TM4SF1 Gene

Variant ID Type Subtype PubMed ID
nsv998572 CNV loss 25217958

Variation tolerance for TM4SF1 Gene

Residual Variation Intolerance Score: 25.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.66; 14.07% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TM4SF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TM4SF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TM4SF1 Gene

Disorders for TM4SF1 Gene

Relevant External Links for TM4SF1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TM4SF1

No disorders were found for TM4SF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TM4SF1 Gene

Publications for TM4SF1 Gene

  1. Cloning and expression of the tumor-associated antigen L6. (PMID: 1565644) Marken J.S. … Aruffo A. (Proc. Natl. Acad. Sci. U.S.A. 1992) 2 3 4 64
  2. 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
  3. Membrane topology of the L6 antigen and identification of the protein epitope recognized by the L6 monoclonal antibody. (PMID: 7510285) Marken J.S. … Aruffo A. (J. Biol. Chem. 1994) 3 4 64
  4. Chromosomal localization of three human genes coding for A15, L6, and S5.7 (TAPA1): all members of the transmembrane 4 superfamily of proteins. (PMID: 8168850) Virtaneva K.I. … SchrAPder J.P. (Immunogenetics 1994) 3 22 64
  5. TM4SF1 Regulates Pancreatic Cancer Migration and Invasion In Vitro and In Vivo. (PMID: 27459514) Cao J. … Logsdon C.D. (Cell. Physiol. Biochem. 2016) 3 64

Products for TM4SF1 Gene

Sources for TM4SF1 Gene

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