Table 3

Examples of modules of shared cis-elements found in highly expressed genes in 3 immune tissues. Elements were clustered with at least 2 other cis-elements within a 200 bp window, indicating the presence of a putative regulatory module which contained at least 3 transcription factor binding sites, one of which was required to be a lymphoid element. All are located within 3 kb upstream and 100 bp downstream of the first bp of exon 1. The modules were present in the mouse and human orthologs of at least 2 genes from sets of genes that were highly expressed in thymus, stimulated lymph nodes, or activated T-cells. The number of genes for which orthologs were available: thymus, 7; lymph node, 4; activated T-cells, 17.

Thymus

Stimulated Lymph Node

Activated T-cell

MAZF SP1F ZBPF

AP2F CDEF EGRF SP1F ZBPF ZF5F

MAZF SP1F ZBPF

EGRF MAZF SP1F ZBPF

LHXF NKXH OCT1 RBIT

CREB SP1F ZBPF

ETSF SP1F ZBPF

EGRF ETSF NFKB

E2FF MAZF SP1F

AP2F EGRF HESF MAZF SP1F ZBPF

GATA HOXF NKXH

ECAT PCAT SP1F ZBPF

ETSF MAZF SP1F STAT ZBPF

LHXF NKXH OCT1

ETSF MAZF MZF1

AP2F EGRF ETSF SP1F ZBPF

NKXH OCT1 RBIT

EGRF SP1F ZBPF

EGRF MAZF P53F SP1F

IKRS MAZF NFKB

GATA HAML MYT1

E2FF EBOX ETSF MAZF SP1F ZF5F

BCL6 CREB E2FF STAT

HOXF LEFF LHXF OCT1

MAZF MZF1 NFKB PAX5

Hutton et al. BMC Genomics 2004 5:82   doi:10.1186/1471-2164-5-82