title: Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse Spatial gene.
abstract: BACKGROUND
  The stromal component of the thymic microenvironment is critical for T lymphocyte generation. Thymocyte differentiation involves a cascade of coordinated stromal genes controlling thymocyte survival, lineage commitment and selection. The "Stromal Protein Associated with Thymii And Lymph-node" (Spatial) gene encodes a putative transcription factor which may be involved in T-cell development. In the testis, the Spatial gene is also expressed by round spermatids during spermatogenesis.
  
  
  RESULTS
  The Spatial gene maps to the B3-B4 region of murine chromosome 10 corresponding to the human syntenic region 10q22.1. The mouse Spatial genomic DNA is organised into 10 exons and is alternatively spliced to generate two short isoforms (Spatial-alpha and -gamma) and two other long isoforms (Spatial-delta and -epsilon) comprising 5 additional exons on the 3' site. Here, we report the cloning of a new short isoform, Spatial-beta, which differs from other isoforms by an additional alternative exon of 69 bases. This new exon encodes an interesting proline-rich signature that could confer to the 34 kDa Spatial-beta protein a particular function. By quantitative TaqMan RT-PCR, we have shown that the short isoforms are highly expressed in the thymus while the long isoforms are highly expressed in the testis. We further examined the inter-species conservation of Spatial between several mammals and identified that the protein which is rich in proline and positive amino acids, is highly conserved.
  
  
  CONCLUSIONS
  The Spatial gene generates at least five alternative spliced variants: three short isoforms (Spatial-alpha, -beta and -gamma) highly expressed in the thymus and two long isoforms (Spatial-delta and -epsilon) highly expressed in the testis. These alternative spliced variants could have a tissue specific function.
authors.affiliation: ERM 0206 INSERM, Case 928, Parc Scientifique de Luminy, F-13288 Marseille Cedex 9, Université de la méditerranée, faculté de science de Luminy, France. irla@tagc.univ-mrs.fr
authors.forename: Magali
authors.initials: M
authors.lastname: Irla
authors.forename: Denis
authors.initials: D
authors.lastname: Puthier
authors.forename: Samuel
authors.initials: S
authors.lastname: Granjeaud
authors.forename: Murielle
authors.initials: M
authors.lastname: Saade
authors.forename: Geneviève
authors.initials: G
authors.lastname: Victorero
authors.forename: Marie-Geneviève
authors.initials: MG
authors.lastname: Mattei
authors.forename: Catherine
authors.initials: C
authors.lastname: Nguyen
mesh_terms: D017398:Alternative Splicing; D000595:Amino Acid Sequence; D000818:Animals; D002417:Cattle; D002874:Chromosome Mapping; D003360:Cosmids; D005091:Exons / Q000235:genetics; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D008297:Male; D008322:Mammals / Q000235:genetics / Q000378:metabolism; D051379:Mice; D008969:Molecular Sequence Data; D009687:Nuclear Proteins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D009928:Organ Specificity; D020033:Protein Isoforms / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D017433:Protein Structure, Secondary; D022821:RNA Splice Sites; D051381:Rats; D020133:Reverse Transcriptase Polymerase Chain Reaction; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid; D013045:Species Specificity; D034421:Sus scrofa; D013737:Testis / Q000378:metabolism; D013950:Thymus Gland / Q000378:metabolism
chemical_list: D009687:Nuclear Proteins; D020033:Protein Isoforms; D022821:RNA Splice Sites; C419984:spatial protein, mouse