Human Gene TSPAN32 (uc001lvy.1) Description and Page Index
  Description: Homo sapiens tetraspanin 32 (TSPAN32), mRNA.
RefSeq Summary (NM_139022): This gene, which is a member of the tetraspanin superfamily, is one of several tumor-suppressing subtransferable fragments located in the imprinted gene domain of chromosome 11p15.5, an important tumor-suppressor gene region. Alterations in this region have been associated with Beckwith-Wiedemann syndrome, Wilms tumor, rhabdomyosarcoma, adrenocortical carcinoma, and lung, ovarian and breast cancers. This gene is located among several imprinted genes; however, this gene, as well as the tumor-suppressing subchromosomal transferable fragment 4, escapes imprinting. This gene may play a role in malignancies and diseases that involve this region, and it is also involved in hematopoietic cell function. Alternatively spliced transcript variants have been described, but their biological validity has not been determined. [provided by RefSeq, Jul 2008]. Sequence Note: A downstream start codon is selected for this RefSeq based on better conservation with homologs. The use of an alternative upstream start codon, which is present in primate species, would increase the protein length from 320 aa to 355 aa. The presence of a predicted signal anchor for the shorter, but not the longer, protein suggests that the downstream start codon may be preferentially used. The shorter protein is described in PMID 11718897. ##Evidence-Data-START## Transcript exon combination :: AY039001.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1968968 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## CDS uses downstream in-frame AUG :: lack of evidence for use of upstream AUG RefSeq Select criteria :: based on conservation, expression ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr11:2,323,243-2,339,430 Size: 16,188 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr11:2,323,380-2,339,154 Size: 15,775 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:2,323,243-2,339,430)mRNA (may differ from genome)Protein (320 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TSN32_HUMAN
DESCRIPTION: RecName: Full=Tetraspanin-32; Short=Tspan-32; AltName: Full=Protein Phemx;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
TISSUE SPECIFICITY: Expressed ubiquitously at low levels. High levels of expression are confined to hematopoietic tissues including peripheral blood leukocytes, thymus and spleen.
DEVELOPMENTAL STAGE: Expressed from early embryogenesis through to adulthood.
SIMILARITY: Belongs to the tetraspanin (TM4SF) family.

-  MalaCards Disease Associations
  MalaCards Gene Search: TSPAN32
Diseases sorted by gene-association score: beckwith-wiedemann syndrome (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.06 RPKM in Whole Blood
Total median expression: 43.28 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -43.80137-0.320 Picture PostScript Text
3' UTR -84.20276-0.305 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR023396 - CD81_extracellular
IPR000301 - Tetraspanin
IPR018499 - Tetraspanin/Peripherin
IPR008952 - Tetraspanin_EC2

Pfam Domains:
PF00335 - Tetraspanin family

SCOP Domains:
48652 - Tetraspanin

ModBase Predicted Comparative 3D Structure on Q96QS1
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0007010 cytoskeleton organization
GO:0007166 cell surface receptor signaling pathway
GO:0007229 integrin-mediated signaling pathway
GO:0007267 cell-cell signaling
GO:0007596 blood coagulation
GO:0007599 hemostasis
GO:0008285 negative regulation of cell proliferation
GO:0030886 negative regulation of myeloid dendritic cell activation
GO:0042832 defense response to protozoan
GO:0050688 regulation of defense response to virus
GO:0070527 platelet aggregation

Cellular Component:
GO:0005622 intracellular
GO:0005887 integral component of plasma membrane
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0070442 integrin alphaIIb-beta3 complex


-  Descriptions from all associated GenBank mRNAs
  AK307638 - Homo sapiens cDNA, FLJ97586.
BC016693 - Homo sapiens tetraspanin 32, mRNA (cDNA clone MGC:22455 IMAGE:4071111), complete cds.
AK128812 - Homo sapiens cDNA FLJ46034 fis, clone SPLEN2033996.
JD183199 - Sequence 164223 from Patent EP1572962.
JD103077 - Sequence 84101 from Patent EP1572962.
JD077368 - Sequence 58392 from Patent EP1572962.
JD484908 - Sequence 465932 from Patent EP1572962.
JD255692 - Sequence 236716 from Patent EP1572962.
JD444489 - Sequence 425513 from Patent EP1572962.
JD200577 - Sequence 181601 from Patent EP1572962.
JD392735 - Sequence 373759 from Patent EP1572962.
JD465702 - Sequence 446726 from Patent EP1572962.
JD472949 - Sequence 453973 from Patent EP1572962.
JD445863 - Sequence 426887 from Patent EP1572962.
AY039001 - Homo sapiens tetraspanin (TSSC6) mRNA, complete cds.
AK310116 - Homo sapiens cDNA, FLJ17158.
CU677677 - Synthetic construct Homo sapiens gateway clone IMAGE:100016910 5' read TSPAN32 mRNA.
KJ904643 - Synthetic construct Homo sapiens clone ccsbBroadEn_14037 TSPAN32 gene, encodes complete protein.
AK298692 - Homo sapiens cDNA FLJ52720 complete cds, highly similar to Tetraspanin-32.
AF176070 - Homo sapiens PHEMX (Phemx) mRNA, complete cds, alternatively spliced.
AF125569 - Homo sapiens tumor suppressing STF cDNA 6 (TSSC6) mRNA, complete cds.
AY303780 - Homo sapiens pan-hematopoietic expression protein (PHEMX) mRNA, complete cds; alternatively spliced.
AF176071 - Homo sapiens PHEMX (Phemx) mRNA, partial cds, alternatively spliced.
JD143614 - Sequence 124638 from Patent EP1572962.
JD278766 - Sequence 259790 from Patent EP1572962.
JD475601 - Sequence 456625 from Patent EP1572962.
JD097479 - Sequence 78503 from Patent EP1572962.
JD068804 - Sequence 49828 from Patent EP1572962.
JD514551 - Sequence 495575 from Patent EP1572962.
JD151407 - Sequence 132431 from Patent EP1572962.
JD141023 - Sequence 122047 from Patent EP1572962.
JD458296 - Sequence 439320 from Patent EP1572962.
JD388083 - Sequence 369107 from Patent EP1572962.
JD558573 - Sequence 539597 from Patent EP1572962.
JD222506 - Sequence 203530 from Patent EP1572962.
JD442339 - Sequence 423363 from Patent EP1572962.
JD537986 - Sequence 519010 from Patent EP1572962.
JD295067 - Sequence 276091 from Patent EP1572962.
JD223156 - Sequence 204180 from Patent EP1572962.
JD376967 - Sequence 357991 from Patent EP1572962.
JD353546 - Sequence 334570 from Patent EP1572962.
JD372706 - Sequence 353730 from Patent EP1572962.
JD111823 - Sequence 92847 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_139022, NP_620591, PHEMX, Q96KX4, Q96QS1, Q9HC50, Q9HC51, Q9Y5U1, TSN32_HUMAN, TSSC6
UCSC ID: uc001lvy.1
RefSeq Accession: NM_139022
Protein: Q96QS1 (aka TSN32_HUMAN)
CCDS: CCDS7733.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_139022.2
exon count: 10CDS single in 3' UTR: no RNA size: 1376
ORF size: 963CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2105.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.