SummarySince a dysregulated synthesis of tumor necrosis factor a (TNF-a) may be involved in the pathogenesis of autoimmune diseases, it was ofinterest to precisely locate the recently reported Ncol restriction fragment length polymorphism (RFLP) of the TNF-a region . However, by mapping of 56.8 kb of overlapping cosmid clones and direct sequencing, we could localize the polymorphic Ncol restriction site within the first intron of the TNF-0 gene and not in the TNF-a gene. To study whether regulatory mechanisms are affected by this polymorphism, we analyzed the TNF-a/TNF-0 production of phytohemagglutinin-stimuated peripheral blood mononuclear cells ofindividuals homozygous for the TNF-0 Ncol RFLP by ELISA and concomitant Northern blot analysis. On days 2-4 after stimulation with mitogen, the TNFB*1 allele corresponding to a 5.3-kb Ncol fragment presented with a significantly higher TNF-0 response. A mRNA analysis demonstrated that higher protein levels of TNF-0 correlate also with increased amounts ofTNF-0 transcripts . No allelic association was found in respect to TNF-a production . To further investigate a possible allelic influence on transcription, we determined the DNA sequence of 2 kb ofthe 5' portion of our cloned TNFB*2 allele and compared it with the available TNF-0 sequences. By computer-aided recognition motif search ofDNA binding factors, we report putative binding sites conserved between mouse and man in the 5' flanking region as well as in intron 1 ofthe TNF-0 gene, found also in other cytokine promoter sequences. In addition, by polymerase chain reaction amplification and sequencing of 740 by of the 5' part of TNF-0 of individuals typed homozygously for the Ncol RFLP, we could show that amino acid position 26 is conserved as asparagine in the TNFB*1 and as threonine in the TNFB* 2 sequence. A previously reported, EcoRI RFLP in the 3' untranslated region of TNF-0 does not segregate with either of the two alleles. Thus, four TNFB alleles can de defined at the DNA level .