DNA & RNA Element - AREsite Gene Name Motif CDS Area ARE Area Evidence Cstf1 ATTTA 327-1622 3363-3367 Identification of a target RNA motif for RNA-binding protein HuR.#Proc Natl Acad Sci U S A 2004; 101(9): 2987-92.!

DNA & RNA Element - microRNA Mirbase Acc miRNA Name Gene ID Gene Symbol miRNA Alignment Alignment Gene Alignment miRNA Start miRNA End Gene Start Gene End Genome Coordinates Conservation Align Score Seed Cat Energy mirSVR Score MIMAT0004530 mmu-miR-127* 67337 Cstf1 uaGUCUCGGGAGACUCGA-AGUc || ||||:|| |||| ||| ggCACAGCCUUC--AGCUCUCAu 2 21 234 254 [mm9:2:172206353-172206373:+] 0.5851 129 0 -17.40 -0.1246 MIMAT0004542 mmu-miR-191* 67337 Cstf1 cccuUGCUUUAG--GUUCACGUCg || |: |: ::||||||| cuccACCAGCUUAGUGAGUGCAGg 2 19 206 229 [mm9:2:172206325-172206348:+] 0.6266 145 7 -13.58 -0.3148 MIMAT0000240 mmu-miR-207 67337 Cstf1 cucccuccucucGGUCCUCUUCg || ||||||| ucagcucucauuCCUGGAGAAGg 2 12 244 266 [mm9:2:172206363-172206385:+] 0.5436 147 7 -15.68 -0.1453 MIMAT0005444 mmu-miR-218-2* 67337 Cstf1 gcgCCACGAACUGUCUUGGUAc ||| | ::|||||||| ccgGGUUCCAUGUAGAACCAUc 2 20 378 399 [mm9:2:172206497-172206518:+] 0.5436 155 7 -18.34 -0.4748 MIMAT0003735 mmu-miR-672 67337 Cstf1 agUGUGUGUCAUGUGGUUGGAGu | :| ||| | ||||||| uaAAGCUCAGAUCUACAACCUCa 2 22 445 467 [mm9:2:172206564-172206586:+] 0.5566 153 7 -18.12 -1.1855 MIMAT0004825 mmu-miR-423-5p 67337 Cstf1 uuucaGA-GCGAGA-GAC-GGGGAGu || ||:| | ||| |||||| acuucCUGCGUUGUCCUGCCCCCUCu 2 19 297 322 [mm9:2:172206416-172206441:+] 0.5436 124 6 -22.63 -0.7023 MIMAT0004826 mmu-miR-146b* 67337 Cstf1 uggucuUGACUCAG---GGAUCCCg ||||: | ||||||| ------ACUGGCCCCAUCCUAGGGu 2 17 1 19 [mm9:2:172206120-172206138:+] 0.4496 143 7 -20.21 -0.2861 MIMAT0003499 mmu-miR-709 67337 Cstf1 agGAGGACGGAGAC-GGAGg ||| | ||||| |||| guCUCAGGACUCUGCCCUCc 2 18 24 43 [mm9:2:172206143-172206162:+] 0.4851 125 0 -26.75 -0.1053 MIMAT0003507 mmu-miR-500 67337 Cstf1 acuuGGGAACGGGUCCAC-GUAa ||| | |: ||||| ||| caguCCCAUCCUGAGGUGACAUu 2 19 412 434 [mm9:2:172206531-172206553:+] 0.5566 126 0 -18.59 -0.2296 MIMAT0003509 mmu-miR-501-3p 67337 Cstf1 guUUAGGAACGGGC-CCAC-GUAa |:||| ||:| |||| ||| ccAGUCCCAUCCUGAGGUGACAUu 2 21 411 434 [mm9:2:172206530-172206553:+] 0.5566 123 0 -21.31 -0.2296 MIMAT0009399 mmu-miR-1935 67337 Cstf1 ucucuaGGCGGUCGGAGACGGa :| | :| ||||||| uucuugUCUCAGGACUCUGCCc 2 17 19 40 [mm9:2:172206138-172206159:+] 0.4851 148 7 -19.29 -0.1714 MIMAT0009408 mmu-miR-1943 67337 Cstf1 agguccACGGGUCUAGGAGGGAa ||||| |||||||| ggacucUGCCC---UCCUCCCUg 2 18 30 49 [mm9:2:172206149-172206168:+] 0.4851 153 7 -22.91 -0.2862 MIMAT0009416 mmu-miR-1949 67337 Cstf1 uuGAUACGACUGU---AGGACCA-UAUc ||: | ||||| ||||||| ||| ucCUGAGGUGACAUUGUCCUGGUAAUAa 2 23 420 447 [mm9:2:172206539-172206566:+] 0.5566 137 0 -21.96 -0.7607 MIMAT0012772 mmu-miR-599 67337 Cstf1 caaaCUAUUU--GACUGUGUu |||: | :||||||| uccaGAUGCAUUUUGACACAu 2 16 333 353 [mm9:2:172206452-172206472:+] 0.5436 146 7 -13.80 -0.7451 MIMAT0000150 mmu-miR-138 67337 Cstf1 gccggACUAAGUGUUGUGGUCGa ||: || | ||||||| ccaugUGG-UCUC--CACCAGCu 2 19 197 216 [mm9:2:172206316-172206335:+] 0.6266 141 7 -20.10 -0.4885

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G038798 Cstf1 Mus musculus 67337

DNA & RNA Element - RepTar Gene Name miRNA Begin End Profile Cstf1 mmu-miR-207 beg:253 end:266 pic:3' CTCCCTCCTCTCGGTCCTCTTCG 5'& || ||||||| &5' ------------CCTGGAGAAG- 3' Cstf1 mmu-miR-1197 beg:42 end:56 pic:3' TCTTCATCTGGTACACAGGAT 5'& || |||||||| &5' ---------CCCTGTGTCCT- 3' Cstf1 mcmv-miR-M87-1 beg:303 end:325 pic:3' CGACGGCGACGGCTGCCGACGGA 5'& |.||.| ||||| | |||. &5' GTTGTC-CTGCCCCCT-CTGT-- 3' Cstf1 mghv-miR-M1-8 beg:207 end:227 pic:3' CTGGTTTGGGGGTCACTCACGA 5'& ||||. |..||||||||| &5' -ACCAG---CTTAGTGAGTGC- 3' Cstf1 mmu-miR-1186b beg:398 end:414 pic:3' CACCACGTACGGAAATTAGGGT 5'& ||| .|||||| &5' --------TGCAGG-GATCCCA 3' Cstf1 mmu-miR-1188 beg:272 end:293 pic:3' AGGACCGG-GTTGGAGTGTGGT 5'& . ||||| |.. ||||||. &5' -TGTGGCCTCGGGATCACACT- 3' Cstf1 mmu-miR-1188 beg:105 end:128 pic:3' AGGACCG-GGTTGGAGTGTGGT 5'& |||||| || .|||.. |.| &5' -CCTGGCTCCTGCCTTGGATC- 3' Cstf1 mmu-miR-1193 beg:261 end:281 pic:3' CTATCATTTTGCC---CACTGGAT 5'& |..|||| |||.||| &5' ------AGGACGGCGTGTGGCCT- 3' Cstf1 mmu-miR-1224 beg:36 end:59 pic:3' GAGGTGGAGGGGT-CAGGAGTG 5'& || ||||||.. |||||||| &5' --CCTCCTCCCTGTGTCCTCAC 3' Cstf1 mmu-miR-135astar beg:34 end:52 pic:3' GCGGTGCCGAGGTTAGGGATAT 5'& ||| |||| |||||.|. &5' -GCC----CTCC--TCCCTGTG 3' Cstf1 mmu-miR-15astar beg:259 end:281 pic:3' AC-TCC-GTCGTGTCATACCGGAC 5'& | ||| |.|| ||.|||||| &5' -GAAGGACGGC---GTGTGGCCT- 3' Cstf1 mmu-miR-1897-5p beg:312 end:339 pic:3' GGGGGAGA---AAGAGGTAGGTTTC 5'& |||||||| ||.||. ||||.| &5' CCCCCTCTGTATTTTCTTTCCAGA- 3' Cstf1 mmu-miR-18a beg:326 end:348 pic:3' GATAGACGTGATCTACGTGGAAT 5'& ||| | |||||||..||. &5' ---TCTTT-CCAGATGCATTTTG 3' Cstf1 mmu-miR-18b beg:333 end:348 pic:3' GATTGTCGTGATCTACGTGGAAT 5'& |||||||..||. &5' -----------AGATGCATTTTG 3' Cstf1 mmu-miR-1929 beg:244 end:263 pic:3' GAGACGAGATATTTCAGGATCTT 5'& ||||| ||||.||. &5' ----GCTCTCAT---TCCTGGAG 3' Cstf1 mmu-miR-1940 beg:299 end:337 pic:3' TTGACG----AGG-TGGAAGAGTCA------GGAGGTA 5'& |||| ||| .|| ||| || ..|||| &5' --CTGCGTTGTCCTGCCCCCTCTGTATTTTCTTTCCA- 3' Cstf1 mmu-miR-1943 beg:25 end:49 pic:3' AGGTCC----ACGGGTCTAGGAGGGAA 5'& .|||| ||||| |||||||| &5' -TCAGGACTCTGCCC---TCCTCCCT- 3' Cstf1 mmu-miR-1956 beg:102 end:127 pic:3' AGGC-GACTGAGT-CGGGACCTGA 5'& ||| |||.||| |||.||||. &5' -CCGCCTGGCTCCTGCCTTGGAT- 3' Cstf1 mmu-miR-1959 beg:356 end:372 pic:3' GAGGTGACTCGATGTAGGGG 5'& |.||||||||.|. &5' -------GGGCTACATCTCT 3' Cstf1 mmu-miR-1967 beg:320 end:342 pic:3' CGTAGAAGAGGGGTCCTAGGAGT 5'& |.||.|||| ||| ||| | &5' GTATTTTCTTTCCA-GATGC--- 3' Cstf1 mmu-miR-1970 beg:330 end:353 pic:3' GTTTCGGATAGGGGTC--------ACTGTGT 5'& | |||| ||||||| &5' ---------TTTCCAGATGCATTTTGACACA 3' Cstf1 mmu-miR-203star beg:379 end:399 pic:3' ACAACTTGACAGTTCTTGGTGA 5'& ||| ||| |||||||. &5' -GTTCCA-TGT--AGAACCAT- 3' Cstf1 mmu-miR-2141 beg:289 end:304 pic:3' TTGAAAAGACTGTGGAGGA 5'& .|| |||.|||| &5' -------TTGTCACTTCCT 3' Cstf1 mmu-miR-218-2star beg:378 end:399 pic:3' GCGCCACGA---ACTGTCTTGGTAC 5'& ||| |.| || .|||||||| &5' --CGG-GTTCCATG-TAGAACCAT- 3' Cstf1 mmu-miR-291b-3p beg:334 end:347 pic:3' TGTTTGTTTTACCTACGTGAAA 5'& ||||||.||| &5' ------------GATGCATTTT 3' Cstf1 mmu-miR-298 beg:306 end:325 pic:3' CCCTTCTTGTCGGGAGGAGACGG 5'& | | |||| ||||||. &5' -----GTCCTGCCC-CCTCTGT- 3' Cstf1 mmu-miR-30bstar beg:4 end:17 pic:3' CTGCATTTGTAGGTGTAGGGTC 5'& || |||||.|| &5' -----------CC-CATCCTAG 3' Cstf1 mmu-miR-3475 beg:237 end:248 pic:3' AAGTTTGGTACACGGAGGTCT 5'& ||||.||| &5' ------------GCCTTCAG- 3' Cstf1 mmu-miR-34a beg:418 end:438 pic:3' TGTTGGTCGATTCTGTGACGGT 5'& || | ||||.||.| &5' ----CCTGAGGTGACATTGTC- 3' Cstf1 mmu-miR-377 beg:114 end:137 pic:3' TGTTTTCAACGGAA-------ACACACTA 5'& |||||| ||||||. &5' --------TGCCTTGGATCTGTGTGTGG- 3' Cstf1 mmu-miR-378star beg:14 end:33 pic:3' TGTGTCCTGGACCTCAGTCCTC 5'& .|| || | |||||| &5' ----GGGTTCTTGTCTCAGGA- 3' Cstf1 mmu-miR-431 beg:211 end:232 pic:3' ACGTACTGC-CGGACGTTCTGT 5'& || | | ||||.||| &5' -GCTTA--GTGAGTGCAGGAC- 3' Cstf1 mmu-miR-465a-3p beg:432 end:443 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |.||||.| &5' -------------GTCCTGGT- 3' Cstf1 mmu-miR-465b-3p beg:432 end:443 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |.||||.| &5' -------------GTCCTGGT- 3' Cstf1 mmu-miR-465c-3p beg:432 end:443 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |.||||.| &5' -------------GTCCTGGT- 3' Cstf1 mmu-miR-467e beg:278 end:296 pic:3' TGTATATGTACGAGTGTGAATA 5'& |. ||||||||.| &5' -------CGGGATCACACTTGT 3' Cstf1 mmu-miR-485 beg:228 end:245 pic:3' CTTAAGTAGTGCCG-GTCGGAGA 5'& | .||| ||||||. &5' --------CTTGGCACAGCCTT- 3' Cstf1 mmu-miR-491 beg:195 end:212 pic:3' GGAGTACCTTCCCAAGGGGTGA 5'& |||| || ||.|||| &5' ---CATGT---GG-TCTCCAC- 3' Cstf1 mmu-miR-493 beg:228 end:247 pic:3' GGACCGTGTGTCATCCTGGAAGT 5'& |.||||||| .|||||| &5' CTTGGCACA-------GCCTTCA 3' Cstf1 mmu-miR-599 beg:334 end:353 pic:3' CAAACTATTT--GACTGTGTT 5'& |||. .||||||| &5' ----GATGCATTTTGACACA- 3' Cstf1 mmu-miR-615-5p beg:394 end:413 pic:3' CTAGGCTCGTGGCCCCTGGGGG 5'& |||. ||| ||||.||| &5' -ATCTT-GCA---GGGATCCC- 3' Cstf1 mmu-miR-672 beg:446 end:466 pic:3' AGTGTGTGTCATGTGGTTGGAGT 5'& .| ||| ||||||| &5' ----GCTCAGATCTACAACCTC- 3' Cstf1 mmu-miR-673-3p beg:104 end:126 pic:3' CCACGTGTCTTGAGT-CGGGGCCT 5'& || | ..||| |||..||| &5' ---GC-CT-GGCTCCTGCCTTGGA 3' Cstf1 mmu-miR-709 beg:36 end:57 pic:3' AGGAGGACGGAGAC-GGAGG 5'& |||||| ||| || |||| &5' -CCTCCTCCCTGTGTCCTC- 3' Cstf1 mmu-miR-709 beg:102 end:123 pic:3' AGGAGGACGGA-GACGGAGG 5'& || |||| || ||||||. &5' -CCGCCTGGCTCCTGCCTT- 3' Cstf1 mmu-miR-764-3p beg:194 end:210 pic:3' TGTCAACGGTGATACCGGAGGA 5'& ||| |.|||.|||| &5' -------CCA-TGTGGTCTCC- 3'

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Cstf1 RAID00133201 mmu-miR-7033-5p miRNA MIMAT0027970 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID00245262 mmu-miR-6392-3p miRNA MIMAT0025142 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID00606430 mmu-miR-3089-3p miRNA MIMAT0014900 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID00638659 mmu-miR-6938-3p miRNA MIMAT0027777 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID00826723 mmu-miR-3064-3p miRNA MIMAT0014835 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID00860918 mmu-miR-6945-3p miRNA MIMAT0027791 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID01364527 mmu-miR-138-5p miRNA MIMAT0000150 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID02152239 mmu-miR-1224-5p miRNA MIMAT0005460 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID02521989 mmu-miR-182-3p miRNA MIMAT0016995 Cstf1 mRNA 67337 Prediction 0.1828 Cstf1 RAID02723039 mmu-miR-6927-3p miRNA MIMAT0027755 Cstf1 mRNA 67337 Prediction 0.1828