HuR SELEX (Gao et al., PNAS 2004) (RWUUUAUUUWR) Blk1 A C G U 1 50.00 0.00 50.00 0.00 2 50.00 0.00 0.00 50.00 3 0.00 0.00 0.00 100.00 4 0.00 0.00 0.00 100.00 5 0.00 0.00 0.00 100.00 6 100.00 0.00 0.00 0.00 7 0.00 0.00 0.00 100.00 8 0.00 0.00 0.00 100.00 9 0.00 0.00 0.00 100.00 10 50.00 0.00 0.00 50.00 11 50.00 0.00 50.00 0.00 HuR Integrated (Meisner et al, Chembiochem 2004) (NNUUNNUUU) Blk1 A C G U 1 25.00 25.00 25.00 25.00 2 25.00 25.00 25.00 25.00 3 0.00 0.00 0.00 100.00 4 0.00 0.00 0.00 100.00 5 25.00 25.00 25.00 25.00 6 25.00 25.00 25.00 25.00 7 0.00 0.00 0.00 100.00 8 0.00 0.00 0.00 100.00 9 0.00 0.00 0.00 100.00 HUR Structural (de Silanes et al., PNAS 2004) PO A C G U 1 0 0 37 63 2 0 0 63 37 3 22.6 7.6 47.1 22.6 4 59.6 5.2 12.6 22.6 5 20.1 5.2 12.6 62.1 6 34.9 2.7 32.3 30 7 15.2 27.4 37.3 20.1 8 25.1 24.9 27.4 22.6 9 27.5 20 27.4 25.1 10 0 0 0 100 11 0.4 0.2 37.3 62.1 12 0.4 39.7 34.8 25.1 13 27.5 5.2 52.1 15.2 14 27.5 5.2 5.2 62.1 15 17.7 0.2 10.1 72 16 17.7 0.2 49.6 32.5 17 17.7 0.2 17.5 64.6 18 15.2 17.5 2.7 64.6 19 62.1 12.6 5.2 20.1 20 67 10.1 0.2 22.6 SF2 SELEX-A (Tacke and Manley, EMBO 1995) (RGAAGAAC) Blk1 A C G U 1 50 0 50 0 2 0 0 100 0 3 100 0 0 0 4 100 0 0 0 5 0 0 100 0 6 100 0 0 0 7 100 0 0 0 8 0 100 0 0 SF2 SELEX-B (Tacke and Manley, EMBO 1995) (AGGACRRAGC) Blk1 A C G U 1 100 0 0 0 2 0 0 100 0 3 0 0 100 0 4 100 0 0 0 5 0 100 0 0 6 50 0 50 0 7 50 0 50 0 8 100 0 0 0 9 0 0 100 0 10 0 100 0 0 SF2 SELEX-C (Liu et al., Genes and Dev 1998) (GARGAGC) Blk1 A C G U 1 0 0 100 0 2 100 0 0 0 3 50 0 50 0 4 0 0 100 0 5 100 0 0 0 6 0 0 100 0 7 0 100 0 0 8 100 0 0 0 SF2 Functional SELEX (Liu et al., Genes and Dev 1998) (SRSASGA) Blk1 A C G U 1 0 50 50 0 2 50 0 50 0 3 0 50 50 0 4 100 0 0 0 5 0 50 50 0 6 0 0 100 0 7 100 0 0 0 SF2 CLIP (Sanford et al., PLOS ONE 2008) PO A C G U 1 6.2 0.5 5.9 87.3 2 0.8 0.5 97.8 0.8 3 71.1 0.5 27.5 0.8 4 22.5 5.9 5.9 65.7 5 0.8 0.5 97.8 0.8 6 60.3 5.9 33 0.8 7 71.1 5.9 5.9 17.1 SF2 CLIP-Seq (Sanford et al., Genome Research 2008) PO A C G U 1 35 10 35 20 2 0 10 90 0 3 80 5 15 0 4 65 5 10 20 5 15 0 85 0 6 70 5 25 0 7 35 10 30 25 8 25 20 40 15 Vts1 Structural (Aviv et al., 2006) (CNGGN(0-3)) PO A C G U 1 0 100 0 0 2 25 25 25 25 3 0 0 100 0 4 0 0 100 0 5 25 25 25 25 Vts1 RIP (Hogan et al PLOS Biology 2008) PO A C G U 1 0 0 0 100 2 0 0 50 50 3 50 0 0 50 4 0 100 0 0 5 0 0 100 0 6 50 0 50 0 7 0 0 100 0 8 0 0 100 0 9 25 25 25 25 PTB SELEX (UCUU) (Perez et al RNA 1997) (UCUU) PO A C G U 1 0 0 0 100 2 0 100 0 0 3 0 0 0 100 4 0 0 0 100 PTB SELEX (UCUUC) (Perez et al. RNA 1997) (UCUUC) PO A C G U 1 0 0 0 100 2 0 100 0 0 3 0 0 0 100 4 0 0 0 100 5 0 100 0 0 PTB Structure (Oberstrass et al., Science 2005) (CUCUCU) PO A C G U 1 0 100 0 0 2 0 0 0 100 3 0 100 0 0 4 0 0 0 100 5 0 100 0 0 6 0 0 0 100 FUSIP1 SELEX (Shin and Manley, Cell 2002) (ACAAAGACAAA) PO A C G U 1 100 0 0 0 2 0 100 0 0 3 100 0 0 0 4 100 0 0 0 5 100 0 0 0 6 0 0 100 0 7 100 0 0 0 8 0 100 0 0 9 100 0 0 0 10 100 0 0 0 11 100 0 0 0 U1A SELEX (Tsai et al., Nucleic Acids Research 2001) (AUUGCAC) PO A C G U 1 100 0 0 0 2 0 0 0 100 3 0 0 0 100 4 0 0 100 0 5 0 100 0 0 6 100 0 0 0 7 0 100 0 0 YB1 Footprinting (Skabkina et al., Molecular and Cellular Biology, 2005) (UCCAG/ACAA) PO A C G U 1 0 0 0 100 2 0 100 0 0 3 0 100 0 0 4 100 0 0 0 5 50 0 50 0 6 0 100 0 0 7 100 0 0 0 8 100 0 0 0