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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TM4SF5 Gene

protein-coding   GIFtS: 47
GCID: GC17P004675

Transmembrane 4 L Six Family Member 5

(Previous name: transmembrane 4 superfamily member 5)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Transmembrane 4 L Six Family Member 51 2
Transmembrane 4 Superfamily Member 51 2
Tetraspan Transmembrane Protein L6H2 3
Transmembrane 4 L6 Family Member 52

External Ids:    HGNC: 118571   Entrez Gene: 90322   Ensembl: ENSG000001424847   OMIM: 6046575   UniProtKB: O148943   

Export aliases for TM4SF5 gene to outside databases

Previous GC identifers: GC17P005102 GC17P005020 GC17P004625 GC17P004881 GC17P004621 GC17P004563


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for TM4SF5 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 glycoprotein and is highly
similar in sequence and structure to transmembrane 4 superfamily member 1. It may play a role in cell
proliferation, and overexpression of this protein may be associated with the uncontrolled growth of tumour cells.
(provided by RefSeq, Jul 2008)

GeneCards Summary for TM4SF5 Gene: 
TM4SF5 (transmembrane 4 L six family member 5) is a protein-coding gene. Diseases associated with TM4SF5 include pancreatic cancer, and gastric cancer. An important paralog of this gene is TM4SF4.

Gene Wiki entry for TM4SF5 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000017.10  NC_018928.2  NT_010718.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TM4SF5 gene promoter:
         PPAR-alpha   NF-1   NF-kappaB2   RelA   LCR-F1   NF-kappaB   NF-kappaB1   Evi-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTM4SF5 promoter sequence
   Search SABiosciences Chromatin IP Primers for TM4SF5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TM4SF5


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17p13.3   Ensembl cytogenetic band:  17p13.2   HGNC cytogenetic band: 17p13.3

TM4SF5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TM4SF5 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P004675:  view genomic region     (about GC identifiers)

Start:
4,675,179 bp from pter      End:
4,686,506 bp from pter
Size:
11,328 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: T4S5_HUMAN, O14894 (See protein sequence)
Recommended Name: Transmembrane 4 L6 family member 5  
Size: 197 amino acids; 20823 Da
Subcellular location: Membrane; Multi-pass membrane protein
Secondary accessions: Q17RW9 Q6IB79

Explore the universe of human proteins at neXtProt for TM4SF5: NX_O14894

Explore proteomics data for TM4SF5 at MOPED 

TM4SF5 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

TM4SF5 Protein Expression

REFSEQ proteins: NP_003954.2  
ENSEMBL proteins: 
 ENSP00000270560  

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Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005887integral to plasma membrane TAS9479038
GO:0016021integral to membrane ----

TM4SF5 for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
1 InterPro protein domain:
 IPR008661 L6_membrane

Graphical View of Domain Structure for InterPro Entry O14894

ProtoNet protein and cluster: O14894

1 Blocks protein domain: IPB008661 L6 membrane

UniProtKB/Swiss-Prot: T4S5_HUMAN, O14894
Similarity: Belongs to the L6 tetraspanin family


TM4SF5 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Molecular Function:
     Genatlas biochemistry entry for TM4SF5:
transmembrane 4 superfamily,member 5 (tetraspanin family),overexpressed in pancreas cancer,highly homolog to the
tumor associated antigen L6

Animal Models:
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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for TM4SF5

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for TM4SF5 (T4S5)

Search CenterWatch for drugs/clinical trials and news about TM4SF5 / T4S5

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
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Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for TM4SF5 gene: 
NM_003963.2  

Unigene Cluster for TM4SF5:

Transmembrane 4 L six family member 5
Hs.184194  [show with all ESTs]
Unigene Representative Sequence: W84524
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000576530 ENST00000270560(uc002fyw.1)
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Additional mRNA sequence: 

AF027204.1 BC069519.1 BC093688.1 BC117163.1 CR456925.1 CR541798.1 

2 DOTS entries:

DT.102821322  DT.86852291 

24/47 AceView cDNA sequences (see all 47):

NM_003963 BC069519 AX772822 BG186169 CD617743 CD617742 W84524 BV179260 
AA844492 T25072 CD617746 W84512 AF027204 CD617741 AI242043 CR456925 
CR541798 BF435758 CD617745 AA694177 AI284409 W86026 H49257 AA910944 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

TM4SF5 expression in normal human tissues (normalized intensities)      TM4SF5 embryonic expression: see
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGCGGCTTCA
TM4SF5 Expression
About this image


TM4SF5 expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database 
 5/6 selected tissues (see all 6) fully expand
 
 Intestine (Gastrointestinal Tract)    fully expand to see all 4 entries
         ileum   
 
 Liver (Hepatobiliary System)
         Human Hepatocyte (HH)   
 
 Colon (Gastrointestinal Tract)
         sigmoid colon mucosa   
 
 Heart (Cardiovascular System)
         Atrioventricular Canal Cells Atrioventricular Canal
 
 Kidney (Urinary System)

See TM4SF5 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TM4SF5

SOURCE GeneReport for Unigene cluster: Hs.184194

UniProtKB/Swiss-Prot: T4S5_HUMAN, O14894
Tissue specificity: Intestine. Overexpressed in pancreatic cancers

    SABiosciences Custom PCR Arrays for TM4SF5
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TM4SF5

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of chordates.

Orthologs for TM4SF5 gene from 3/9 species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Tm4sf51 , 5 transmembrane 4 superfamily member 51, 5 84.01(n)1
82.65(a)1
  11 (42.99 cM)5
756041  NM_029360.31  NP_083636.21 
 705052445 
lizard
(Anolis carolinensis)
Reptilia TM4SF56
transmembrane 4 L six family member 5
54(a)
1 ↔ 1
AAWZ02039070(33-7897)
zebrafish
(Danio rerio)
Actinopterygii tm4sf51 transmembrane 4 L six family member 5 58.99(n)
57.59(a)
  436645  NM_001002372.1  NP_001002372.1 


ENSEMBL Gene Tree for TM4SF5 (if available)
TreeFam Gene Tree for TM4SF5 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for TM4SF5 gene
TM4SF42  TM4SF192  TM4SF182  TM4SF12  
4 SIMAP similar genes for TM4SF5 using alignment to 2 protein entries:     T4S5_HUMAN (see all proteins):
TM4SF1    TM4SF4    TM4SF18    TM4SF19

TM4SF5 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/392 SNPs in TM4SF5 are shown (see all 392)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 17 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs178241491,2
C,F,H--4659610(+) TCAAGA/GGGTAA 1 -- us2k19Minor allele frequency- G:0.11NA NS CSA WA EA 728
rs1177690891,2
F--4673321(+) CCACTG/AGCTGG 1 -- us2k11Minor allele frequency- A:0.01NA 120
rs72200351,2
C,F,A,H--4673433(+) TAGGGC/TTCATT 1 -- us2k110Minor allele frequency- T:0.48NA WA CSA EA 373
rs1430937431,2
--4673464(+) CTGTTG/TGCTTC 1 -- us2k10--------
rs1836388631,2
--4673529(+) GCCTGA/GGTGAC 1 -- us2k10--------
rs1124384631,2
C--4673552(+) ATCTCA/-AAAAA 1 -- us2k11Minor allele frequency- -:0.00CSA 2
rs1474900811,2
C--4673566(+) AACAAC/GAAAAA 1 -- us2k10--------
rs98907971,2
C,F--4673609(+) AGTCCC/TAGCTA 1 -- us2k15Minor allele frequency- T:0.40NA 10
rs1121584011,2
C,F--4673622(+) CGGGAA/GGCTGA 1 -- us2k11Minor allele frequency- G:0.00CSA 1
rs1820723061,2
--4673694(+) CCAGCC/TTGGGC 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TM4SF5 (4675179 - 4686506 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for TM4SF5:    About this table     
Variant IDTypeSubtypePubMed ID
nsv907618CNV Loss21882294
nsv833346CNV Loss17160897

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
OMIM gene information: 604657    OMIM disorders: --

4 diseases for TM4SF5:    About MalaCards
pancreatic cancer    gastric cancer    pancreatitis    atherosclerosis


TM4SF5 for disorders           About GeneDecksing

Genetic Association Database (GAD): TM4SF5

Export disorders for TM4SF5 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for TM4SF5 gene, integrated from 9 sources (see all 21):
(articles sorted by number of sources associating them with TM4SF5)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Identification of a new tumour-associated antigen TM4SF5 and its expression in human cancer. (PubMed id 9479038)1, 2, 3, 9 Mueller-Pillasch F.... Gress T.M. (1998)
  2. Genome-wide association study identifies novel loci as sociated with circulating phospho- and sphingolipid concentrations. (PubMed id 22359512)1, 4 Demirkan A....Schmitz G. (2012)
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
  4. Tetraspanin TM4SF5 mediates loss of contact inhibition through epithelial-mesenchymal transition in human hepatocarcinoma. (PubMed id 18357344)1, 9 Lee S.A....Lee J.W. (2008)
  5. Novel Loci for metabolic networks and multi-tissue exp ression studies reveal genes for atherosclerosis. (PubMed id 22916037)1 Inouye M....de Bakker P.I. (2012)
  6. Cross-talk between TGFb1 and EGFR signalling pathways induces TM4SF5 expression and epithelial-mesenchymal transition. (PubMed id 22292774)1 Kang M....Lee J.W. (2012)
  7. JNK signaling activity regulates cell-cell adhesions via TM4SF5-mediated p27(Kip1) phosphorylation. (PubMed id 22014979)1 Kim H....Lee J.W. (2012)
  8. Gefitinib resistance of cancer cells correlated with T M4SF5-mediated epithelial-mesenchymal transition. (PubMed id 22178131)1 Lee M.S....Lee J.W. (2012)
  9. Proteasome inhibition causes epithelial-mesenchymal t ransition upon TM4SF5 expression. (PubMed id 21328452)1 Kim J.Y....Cho M. (2011)
  10. Modulation of signaling between TM4SF5 and integrins in tumor microenvironment. (PubMed id 21196261)1 Lee S.A....Lee J.W. (2011)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 9032 HGNC: 11857 AceView: TM4SF5 Ensembl:ENSG00000142484 euGenes: HUgn9032
ECgene: TM4SF5 H-InvDB: TM4SF5

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for TM4SF5 Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for TM4SF5 Genetics and Cytogenetics in Oncology and Haematology

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TM4SF5 gene:
Search GeneIP for patents involving TM4SF5

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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