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 MIMAT0004712 rno-miR-23a* 29274 Rnf4 uuuagGGUAGGGGUCCUUGGGg |::|:|:||||||||| accaaCUGUUCUCAGGAACCCu 2 18 736 757 [rn4:14:82091375-82091396:-] 0.6163 169 7 -28.87 -0.8280 MIMAT0004716 rno-miR-28* 29274 Rnf4 agguccucgaguGUUAGAUCAc | ||||||| uggccagacaguCCAUCUAGUc 2 11 424 445 [rn4:14:82091687-82091708:-] 0.6061 142 7 -16.34 -0.1144 MIMAT0000893 rno-miR-290 29274 Rnf4 uuuuucACGGGGGUAUCAAACUc | :|:|| ||||||| uuuuguUAUCUCC--AGUUUGAu 2 18 153 173 [rn4:14:82091959-82091979:-] 0.6273 146 7 -12.60 -0.2902 MIMAT0004743 rno-miR-300-5p 29274 Rnf4 uguuuccuAUUGGA-GAGAAGUu | ||:| ||||||| ccuguucuUCACUUGCUCUUCAg 2 15 630 652 [rn4:14:82091480-82091502:-] 0.6163 149 7 -13.88 -0.3789 MIMAT0003207 rno-miR-369-3p 29274 Rnf4 uuUCUAGUUGGUACA-UAAUAa ||:| :||| ||| ||||| agAGGU-GACC-UGUGAUUAUg 2 20 518 537 [rn4:14:82091595-82091614:-] 0.6061 123 0 -12.59 -0.3097 MIMAT0003212 rno-miR-20b-3p 29274 Rnf4 ggUCUUC-ACGAGUGUGACG-UCa :|||| || | :|||||| || cuGGAAGAUG-UAGCACUGCUAGu 2 21 657 679 [rn4:14:82091453-82091475:-] 0.6163 125 0 -22.25 -0.5602 MIMAT0005280 rno-miR-743b 29274 Rnf4 agauaagUCAU--AC-CACAGAAAg |||| || |||||||| acaagcaAGUAUUUGAGUGUCUUUu 2 16 809 833 [rn4:14:82091299-82091323:-] 0.6163 153 7 -14.68 -0.6532 MIMAT0005290 rno-miR-883 29274 Rnf4 uaUGACUCUCUACAACGUCAAu | | ||: || |||||||| ggAGUCAGGCAUAUUGCAGUUg 2 21 259 280 [rn4:14:82091852-82091873:-] 0.6061 164 7 -15.25 -0.6606 MIMAT0005323 rno-miR-532-3p 29274 Rnf4 acGUUCGGAACCCACACCCUCc | ||: ||| |||||||| gcCCAGUGUUGCCUGUGGGAGc 2 21 687 708 [rn4:14:82091424-82091445:-] 0.6163 164 7 -20.11 -0.1391 MIMAT0005338 rno-miR-770 29274 Rnf4 gcACCGGGUC-UGUGCA-CCACGa || ||||| | :|| ||||| uuUGCCCCAGUUCUUGUGGGUGCa 2 21 347 370 [rn4:14:82091762-82091785:-] 0.6061 127 0 -21.68 -0.3098 MIMAT0012828 rno-miR-362 29274 Rnf4 uaAGUGUGGAUCCAAGGUUCCUAa || ||:|||| ||||||||| agUC-CAUCUAG--UCCAAGGAUa 2 23 433 453 [rn4:14:82091679-82091699:-] 0.6061 169 7 -25.02 -0.4963 MIMAT0012830 rno-miR-504 29274 Rnf4 cuGUCUCACGU-CU-GGUCCC-AGa :| :| ||| || |||||| || gcUAUGGAGCACGAUCCAGGGAUCc 2 21 174 198 [rn4:14:82091934-82091958:-] 0.6273 122 0 -20.16 -0.1759 MIMAT0012831 rno-miR-544 29274 Rnf4 cucgAACGAUUUUUACGUCUUa || :|: :::||||||| ccagUUCUUGUGGGUGCAGAAc 2 19 353 374 [rn4:14:82091758-82091779:-] 0.6061 154 7 -15.37 -0.1492 MIMAT0012833 rno-miR-582 29274 Rnf4 ucauugaccAACUUGUUGACAu || | ||||||| ccaucucuaUUCACCAACUGUu 2 14 724 745 [rn4:14:82091387-82091408:-] 0.6163 149 7 -8.77 -0.4304 MIMAT0012837 rno-miR-632 29274 Rnf4 aggccGUCCUUUGUCUGUg || ::||||||| uagacCAAUGGACAGACAa 2 15 22 40 [rn4:14:82092092-82092110:-] 0.6372 146 7 -13.70 -0.3927 MIMAT0012839 rno-miR-668 29274 Rnf4 ccaucacccggCUCGGCU-CACUGu |||| || ||||| ccuucccaugaGAGCAGAGGUGACc 2 14 503 527 [rn4:14:82091605-82091629:-] 0.6061 121 0 -13.77 -0.4461 MIMAT0012849 rno-miR-295 29274 Rnf4 cuucacacggggUGUAAACUCa ::||||||| uaggacaagcaaGUAUUUGAGu 2 11 805 826 [rn4:14:82091306-82091327:-] 0.6163 142 7 -13.03 -0.6349 MIMAT0000560 rno-miR-326 29274 Rnf4 ugACCUCCU--UCCCGGGUCUCc |||: |: | ||||||| ucUGGGUGGUCUGAACCCAGAGu 2 20 227 249 [rn4:14:82091883-82091905:-] 0.6061 142 7 -23.62 -0.5414 MIMAT0004641 rno-miR-330 29274 Rnf4 cggauucuguguccGGGUCUCu ||||||| cuggguggucugaaCCCAGAGu 2 9 228 249 [rn4:14:82091883-82091904:-] 0.6061 140 7 -18.07 -0.5450 MIMAT0000795 rno-miR-25 29274 Rnf4 agUCUGGCUCUGUUCACGUUAc ||| :|||| ||||||||| uaAGAAUGAGA-AAGUGCAAUa 2 21 606 626 [rn4:14:82091506-82091526:-] 0.6163 174 7 -20.73 -1.1226 MIMAT0000810 rno-miR-31 29274 Rnf4 guCGAUACG-GUCGUAGA-ACGGa | | || |||||||| |||| caGAUCAGCUCAGCAUCUCUGCCc 2 21 202 225 [rn4:14:82091907-82091930:-] 0.6167 131 0 -25.12 -0.3405 MIMAT0000811 rno-miR-32 29274 Rnf4 acgUUGAAUCAUUACACGUUAu :| | || || ||||||| uaaGAAUGAG-AAAGUGCAAUa 2 20 606 626 [rn4:14:82091506-82091526:-] 0.6163 153 7 -10.72 -1.1247 MIMAT0000815 rno-miR-34a 29274 Rnf4 ugUUG-GUCGAUUCUGU-GACGGu ||| : | |||:|| ||||| agAACAUUCCCAAGGCACCUGCCa 2 21 370 393 [rn4:14:82091739-82091762:-] 0.6061 123 0 -20.24 -0.2908 MIMAT0000816 rno-miR-92a 29274 Rnf4 guccgGCCCUGUUCACGUUAu :| || ||||||||| aagaaUGAGA-AAGUGCAAUa 2 17 607 626 [rn4:14:82091506-82091525:-] 0.6163 154 7 -16.88 -1.1269 MIMAT0000829 rno-miR-125a-5p 29274 Rnf4 agUGUCCAAUU-UCCCAGA-GUCCCu :|| | || || ||| ||||| cuGCAAAUCAAGAGACUCUGCAGGGc 2 23 569 594 [rn4:14:82091538-82091563:-] 0.6061 121 0 -15.36 -0.5316 MIMAT0000830 rno-miR-125b-5p 29274 Rnf4 aguGUUCAAUCCCAGA-GUCCCu |||| || ||| ||||| aauCAAG--AGACUCUGCAGGGc 2 20 574 594 [rn4:14:82091538-82091558:-] 0.6061 120 0 -15.97 -0.5316 MIMAT0000843 rno-miR-137 29274 Rnf4 gaUG-CGCAUAAGAAUUCG-UUAUu || | | |||| |||| |||| gcACAGAGCAUUC-AAAGCUAAUAg 2 22 784 807 [rn4:14:82091325-82091348:-] 0.6163 122 0 -8.58 -0.5579 MIMAT0000845 rno-miR-139-5p 29274 Rnf4 gaCCUCUGUGCA-CGUGAC-AUCu ||| | |:|| |||||| ||| cuGGA-AGAUGUAGCACUGCUAGu 2 21 657 679 [rn4:14:82091453-82091475:-] 0.6163 129 0 -23.99 -0.5638 MIMAT0000846 rno-miR-141 29274 Rnf4 ggUAGAAAUGGUCUGUCACAAu ||| ||: :: :||||||| uuAUCAUUGAUGUGCAGUGUUu 2 21 546 567 [rn4:14:82091565-82091586:-] 0.6061 160 7 -14.20 -0.5523 MIMAT0000874 rno-miR-200a 29274 Rnf4 ugUAGCAAUGGUCUGUCACAAu ||| ||: :: :||||||| uuAUCAUUGAUGUGCAGUGUUu 2 21 546 567 [rn4:14:82091565-82091586:-] 0.6061 160 7 -14.76 -0.5559 MIMAT0000879 rno-miR-206 29274 Rnf4 ggugugugaaggaaUGUAAGGu ||||||| cuugugggugcagaACAUUCCc 2 9 359 380 [rn4:14:82091752-82091773:-] 0.6061 140 7 -8.57 -0.2604 MIMAT0000890 rno-miR-221 29274 Rnf4 cuUUGGGUCGUCUGUUACAUCGa ||:|::| || ||||||| gcAAUCUGGAAG---AUGUAGCa 2 22 652 671 [rn4:14:82091461-82091480:-] 0.6163 153 7 -15.78 -0.6204 MIMAT0000891 rno-miR-222 29274 Rnf4 ugggucaucggUCUACAUCGa ||||||||| agcaaucuggaAGAUGUAGCa 2 11 651 671 [rn4:14:82091461-82091481:-] 0.6163 150 7 -17.86 -0.6527 MIMAT0001534 rno-miR-448 29274 Rnf4 uacCCUGUAGGAUGUAU-ACGUu ||| :|| :|||| |||| aaaGGA-GUCAGGCAUAUUGCAg 2 20 256 277 [rn4:14:82091855-82091876:-] 0.6061 121 0 -17.82 -0.5033 MIMAT0003119 rno-miR-224 29274 Rnf4 auUUGCCUUGGUGAUCA-CUGAAc ||| | : :||:|| ||||| gaAACAGCCUAGCUGGUGGACUUa 2 22 474 497 [rn4:14:82091635-82091658:-] 0.6061 125 0 -15.68 -0.5038 MIMAT0003125 rno-miR-1 29274 Rnf4 uaugugugaagaaaUGUAAGGu ||||||| cuugugggugcagaACAUUCCc 2 9 359 380 [rn4:14:82091752-82091773:-] 0.6061 140 7 -9.68 -0.2604 MIMAT0003210 rno-miR-363 29274 Rnf4 augUCUACCUAUGGCACGUUAa ||| || | ||||||| cuaAGAAUGAGAAAGUGCAAUa 2 20 605 626 [rn4:14:82091506-82091527:-] 0.6163 155 7 -12.33 -1.1269 MIMAT0005284 rno-miR-874 29274 Rnf4 agccaggGAGCCCGGUCCCGUc ||| | ||||||| caagagaCUCUG--CAGGGCAa 2 16 577 596 [rn4:14:82091536-82091555:-] 0.6061 144 7 -16.06 -0.5945 MIMAT0005310 rno-miR-384-3p 29274 Rnf4 uaacACUUGUU-A-AAGA-UCCUUa | | ||| | |||| ||||| cuauUCACCAACUGUUCUCAGGAAc 2 19 730 754 [rn4:14:82091378-82091402:-] 0.6163 120 0 -9.49 -0.3279 MIMAT0005340 rno-miR-92b 29274 Rnf4 ccUCCGGCCCUGCUCACGUUAu || :| || |||||||| uaAGAAUGAGA-AAGUGCAAUa 2 21 606 626 [rn4:14:82091506-82091526:-] 0.6163 150 7 -16.50 -1.1269 MIMAT0005341 rno-miR-488 29274 Rnf4 cugguucUUUGUCGGAAAGUu ||| || |||||| ugagcucAAAAAGACUUUCAa 2 15 81 101 [rn4:14:82092031-82092051:-] 0.5986 130 6 -10.99 -0.1463

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G041470 Rnf4 Rattus norvegicus 29274

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Rnf4 RAID00057202 rno-miR-488-3p miRNA MIMAT0005341 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID00505086 rno-miR-384-3p miRNA MIMAT0005310 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID00604442 rno-miR-1-3p miRNA MIMAT0003125 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID00800590 rno-miR-34a-5p miRNA MIMAT0000815 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID00849436 rno-miR-224-5p miRNA MIMAT0003119 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID00888576 rno-miR-3589 miRNA MIMAT0017888 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01062791 rno-miR-632 miRNA MIMAT0012837 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01092709 rno-miR-139-5p miRNA MIMAT0000845 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01309306 rno-miR-200a-3p miRNA MIMAT0000874 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01327340 rno-miR-330-5p miRNA MIMAT0004641 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01367676 rno-miR-141-3p miRNA MIMAT0000846 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01638153 rno-miR-125b-5p miRNA MIMAT0000830 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01666296 rno-miR-222-3p miRNA MIMAT0000891 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01702856 rno-miR-363-3p miRNA MIMAT0003210 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01754784 rno-miR-206-3p miRNA MIMAT0000879 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01805207 rno-miR-125a-5p miRNA MIMAT0000829 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID01919342 rno-miR-137-3p miRNA MIMAT0000843 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID02236558 rno-miR-326-3p miRNA MIMAT0000560 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID02376205 rno-miR-31a-5p miRNA MIMAT0000810 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03154081 rno-miR-32-5p miRNA MIMAT0000811 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03198299 rno-miR-874-3p miRNA MIMAT0005284 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03496279 rno-miR-221-3p miRNA MIMAT0000890 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03554773 rno-miR-92b-3p miRNA MIMAT0005340 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03554993 rno-miR-448-3p miRNA MIMAT0001534 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03840185 rno-miR-92a-3p miRNA MIMAT0000816 Rnf4 mRNA 29274 Prediction 0.1828 Rnf4 RAID03986185 rno-miR-25-3p miRNA MIMAT0000795 Rnf4 mRNA 29274 Prediction 0.1828