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 MIMAT0004523 mmu-miR-29b* 28035 Usp39 auUUGGUGG--UAUACUUUGGUCg | || || | | ||||||| auAUCCUCCUGUUUUUAAACCAGg 2 21 405 428 [mm9:6:72268758-72268781:-] 0.5866 147 7 -14.25 -0.7634 MIMAT0000129 mmu-miR-30a* 28035 Usp39 cgACGUUUGU-AGGCUGACUUUc || | ||| |:|||||||| gcUGAACACAGACUGACUGAAAg 2 21 69 91 [mm9:6:72269095-72269117:-] 0.5218 163 7 -25.99 -0.3261 MIMAT0004527 mmu-miR-124* 28035 Usp39 uagUUCCA-GGCGACACUUGUGc ||| | :||| ||||||| cugAAGCUGUCGC--UGAACACa 2 20 58 78 [mm9:6:72269108-72269128:-] 0.5218 151 7 -15.96 -0.4105 MIMAT0000154 mmu-miR-142-5p 28035 Usp39 ucaucACGAA-AGAUGAAAUAc | ||| |: ||||||| uguuuUCCUUCUUAACUUUAUa 2 17 469 490 [mm9:6:72268696-72268717:-] 0.5386 151 7 -7.59 -1.2375 MIMAT0004541 mmu-miR-188-3p 28035 Usp39 acguuugGGACGUACACCCUc :|| | ||||||| cccuucaUCU-CCUGUGGGAc 2 15 369 388 [mm9:6:72268798-72268817:-] 0.5866 144 7 -16.45 -0.1549 MIMAT0000249 mmu-miR-30e* 28035 Usp39 cgACAUUUGU-AGGCUGACUUUc || | ||| |:|||||||| gcUGAACACAGACUGACUGAAAg 2 21 69 91 [mm9:6:72269095-72269117:-] 0.5218 163 7 -24.94 -0.3261 MIMAT0004625 mmu-miR-16* 28035 Usp39 agucgucgugucagUUAUGACc ||||||| agaugguaaauaaaAAUACUGa 2 9 40 61 [mm9:6:72269125-72269146:-] 0.5263 140 7 -9.42 -1.0788 MIMAT0004630 mmu-miR-26b* 28035 Usp39 cucgGUUCAUUACCUCUUGUCc |||||| ||||||| gcugCAAGUAUCAAAGAACAGa 2 19 255 276 [mm9:6:72268910-72268931:-] 0.6018 158 7 -16.88 -1.0232 MIMAT0004636 mmu-miR-93* 28035 Usp39 gcCCUUCACGAUCGAGUCGUCa | || |: | ||||||| gaGUAAACGUGAAGUCAGCAGc 2 21 312 333 [mm9:6:72268853-72268874:-] 0.5888 148 7 -16.31 -0.2998 MIMAT0004636 mmu-miR-93* 28035 Usp39 gcccuucacgaUCG-AGUCGUCa ||| ||||||| ucuucccuuucAGCAUCAGCAGg 2 12 198 220 [mm9:6:72268966-72268988:-] 0.6018 146 7 -14.66 -0.4094 MIMAT0000544 mmu-miR-129-3p 28035 Usp39 uaCGAAAAACCCCAUUCCCGAa |:|||| ||||||| ggGUUUUUAUUCCCAAGGGCUg 2 21 11 32 [mm9:6:72269154-72269175:-] 0.6028 148 7 -14.31 -0.2464 MIMAT0004217 mmu-miR-465a-3p 28035 Usp39 agaugaaucuuucCGGGACUAg |||||||| aaggagccugucuGCCCUGAUg 2 10 139 160 [mm9:6:72269026-72269047:-] 0.5218 145 7 -14.71 -0.1766 MIMAT0003127 mmu-miR-484 28035 Usp39 uagcccucccCUGACUCGGACu || ||||||| gcaucaccauGAAGGAGCCUGu 2 13 128 149 [mm9:6:72269037-72269058:-] 0.5218 144 7 -16.18 -0.1865 MIMAT0003186 mmu-miR-369-3p 28035 Usp39 uuucuAGUUGGUACAUAAUAa |:|||: | |||||| ccuucUUAACUUUAUAUUAUa 2 17 475 495 [mm9:6:72268691-72268711:-] 0.5386 132 6 -5.09 -0.2124 MIMAT0003733 mmu-miR-665 28035 Usp39 ucccUGGAGUCGGAGGACca |:: :| |||||| uuauAUUAUAUACUCCUGuc 3 17 486 505 [mm9:6:72268681-72268700:-] 0.5386 124 0 -10.38 -0.1378 MIMAT0014815 mmu-miR-3099* 28035 Usp39 guucccgaccuucCUUCGACc ||||||| aaauaaaaauacuGAAGCUGu 2 9 47 67 [mm9:6:72269119-72269139:-] 0.5218 140 7 -9.08 -0.5622 MIMAT0003457 mmu-miR-680 28035 Usp39 gggGGUACAGUC-GUCUACGGg |: | ||| ::|||||| gaaCUCUUACAGAUGGAUGCCu 2 19 223 244 [mm9:6:72268942-72268963:-] 0.6018 133 6 -18.99 -0.1183 MIMAT0003472 mmu-miR-693-5p 28035 Usp39 cuuuugaaagCCUACACCGAc || ||||||| uauucccaagGGCUGUGGCUg 2 12 18 38 [mm9:6:72269148-72269168:-] 0.5308 147 7 -18.88 -0.1700 MIMAT0003502 mmu-miR-712 28035 Usp39 ccauggcgggcccACUUCCUc ||||||| ggcugcaucaccaUGAAGGAg 2 9 124 144 [mm9:6:72269042-72269062:-] 0.5218 140 7 -19.17 -0.1172 MIMAT0003512 mmu-miR-450b-3p 28035 Usp39 uacguacguuuuACAAGGGUUa | ||||||| uuguuggguuuuUAUUCCCAAg 2 11 6 27 [mm9:6:72269159-72269180:-] 0.6028 142 7 -9.69 -0.1788 MIMAT0004237 mmu-miR-742 28035 Usp39 aaAUGG-GUCGUACCACCGAAAg |::| :|| :| |||||||| ucUGUCAUAG-GUAGUGGCUUUc 2 21 339 360 [mm9:6:72268826-72268847:-] 0.5877 153 7 -17.93 -0.2224 MIMAT0004872 mmu-miR-465b-3p 28035 Usp39 agaugaaucuuucCGGGACUAg |||||||| aaggagccugucuGCCCUGAUg 2 10 139 160 [mm9:6:72269026-72269047:-] 0.5218 145 7 -14.71 -0.1766 MIMAT0004874 mmu-miR-465c-3p 28035 Usp39 agaugaaucuuucCGGGACUAg |||||||| aaggagccugucuGCCCUGAUg 2 10 139 160 [mm9:6:72269026-72269047:-] 0.5218 145 7 -14.71 -0.1766 MIMAT0004883 mmu-miR-466g 28035 Usp39 acACACACGUACACAGACAUa | | | | |||||||| auUAUAUACUCCUGUCUGUAg 2 20 490 510 [mm9:6:72268676-72268696:-] 0.5386 147 7 -10.50 -0.6992 MIMAT0005856 mmu-miR-1195 28035 Usp39 acUCGUCCGACCGGAGCU-UGAGu |||| |:|| |||| |||| gcAGCACGUUGUGGUCGACACUCu 2 22 177 200 [mm9:6:72268986-72269009:-] 0.5618 133 0 -17.74 -0.2804 MIMAT0007872 mmu-miR-1906 28035 Usp39 ucgGGACGGAGUCCGACGACGu ||| :|:: :|||||| augCCUUAUUUGAAUUGCUGCa 2 20 239 260 [mm9:6:72268926-72268947:-] 0.6018 135 6 -21.29 -0.2335 MIMAT0007876 mmu-miR-1907 28035 Usp39 uggaggucuaggaGACGACGag :|||||| ugccuuauuugaaUUGCUGCaa 3 10 240 261 [mm9:6:72268925-72268946:-] 0.6018 121 0 -14.16 -0.1737 MIMAT0009404 mmu-miR-1940 28035 Usp39 uugacgagguggaagagucAGGAGGua |||||| gugugcgauggauuaaauaUCCUCCug 3 9 389 415 [mm9:6:72268771-72268797:-] 0.5866 120 0 -12.69 -0.1012 MIMAT0009406 mmu-miR-1941-3p 28035 Usp39 uaccCUCUAUGACGA-UUCUAc |:| |:: ||| ||||| ccaaGGGCUGUGGCUGAAGAUg 2 18 23 44 [mm9:6:72269142-72269163:-] 0.5308 121 0 -16.00 -0.4720 MIMAT0009439 mmu-miR-1966 28035 Usp39 cugaGAGAGGACUCGGUCGAGGGAa ||:||||| :|||||||| guggCUUUCCUG---UAGCUCCCUu 2 22 352 373 [mm9:6:72268813-72268834:-] 0.5866 165 7 -31.04 -0.6962 MIMAT0009457 mmu-miR-1839-3p 28035 Usp39 cgaCAA-CCAUCUAUUCA-UCCAGa ||| |||||| | || ||||| acaGUUCGGUAGAAACGUCAGGUCu 2 21 276 300 [mm9:6:72268886-72268910:-] 0.5888 139 0 -21.06 -0.1859 MIMAT0011215 mmu-miR-2139 28035 Usp39 cgUCAAUGGU-CCUC-GUCG-CGUCGa ||| | |: | || |||| ||||| ggAGUAAACGUGAAGUCAGCAGCAGCc 2 23 311 337 [mm9:6:72268849-72268875:-] 0.5888 128 0 -19.91 -0.5931 MIMAT0000124 mmu-miR-15b 28035 Usp39 acauuugguACUACACGACGau ||| |||||| ugccuuauuUGAAUUGCUGCaa 3 14 240 261 [mm9:6:72268925-72268946:-] 0.6018 129 0 -11.14 -0.1754 MIMAT0000214 mmu-miR-185 28035 Usp39 aguCCUUGACGGAAAG-AGAGGu | |:|| || ||| ||||| ccuGUAGCU-CCCUUCAUCUCCu 2 20 360 381 [mm9:6:72268805-72268826:-] 0.5866 125 0 -17.29 -0.3300 MIMAT0000225 mmu-miR-195 28035 Usp39 cgguuAUAAA-GACACGACGau ||||| |||||| ugccuUAUUUGAAUUGCUGCaa 3 17 240 261 [mm9:6:72268925-72268946:-] 0.6018 127 0 -13.27 -0.1657 MIMAT0000238 mmu-miR-205 28035 Usp39 guCUGAGGCC-ACCU-----UACUUCCu ||:||:|| || | ||||||| ugGAUUCUGGCUGCAUCACCAUGAAGGa 2 21 116 143 [mm9:6:72269043-72269070:-] 0.5218 150 7 -23.49 -0.1767 MIMAT0000247 mmu-miR-143 28035 Usp39 cucGAUGUC-A-CGAAGUAGAGu ||::|| | ||||||||| uucCUGUAGCUCCCUUCAUCUCc 2 19 358 380 [mm9:6:72268806-72268828:-] 0.5866 156 7 -18.61 -0.3503 MIMAT0000526 mmu-miR-15a 28035 Usp39 guguuuGGUAA--UACACGACGau ::||| | |||||| gaugccUUAUUUGAAUUGCUGCaa 3 17 238 261 [mm9:6:72268925-72268948:-] 0.6018 123 0 -11.25 -0.1754 MIMAT0000527 mmu-miR-16 28035 Usp39 gcgguuAUAAA-UGCACGACGau ||||| | |||||| augccuUAUUUGAAUUGCUGCaa 3 17 239 261 [mm9:6:72268925-72268947:-] 0.6018 135 0 -18.69 -0.1657 MIMAT0000546 mmu-miR-103 28035 Usp39 agUAUCGGG-ACAUGUUACGACGa ||: |:: | |: | |||||| ggAUGCCUUAUUUGAAUUGCUGCa 2 22 237 260 [mm9:6:72268926-72268949:-] 0.6018 124 6 -13.88 -0.2272 MIMAT0000548 mmu-miR-322 28035 Usp39 agguuuUGUACUUAACGACGac |: ||||||||||| ugccuuAUUUGAAUUGCUGCaa 3 17 240 261 [mm9:6:72268925-72268946:-] 0.6018 148 0 -19.22 -0.1721 MIMAT0004651 mmu-miR-340-5p 28035 Usp39 uuAGUCAGAGUAACGAAAUAUu || |||:| ||||||| uuUCCUUCUUA--ACUUUAUAu 2 21 472 491 [mm9:6:72268695-72268714:-] 0.5386 149 7 -8.66 -1.1285 MIMAT0000647 mmu-miR-107 28035 Usp39 acUAUCGGG-ACAUGUUACGACGa ||: |:: | |: | |||||| ggAUGCCUUAUUUGAAUUGCUGCa 2 22 237 260 [mm9:6:72268926-72268949:-] 0.6018 124 6 -17.46 -0.2272 MIMAT0003151 mmu-miR-378 28035 Usp39 ggAAGACUGAGGUUCAGGUCa ||| :| || ||||||| gaUUCCUGC-CCCAGUCCAGu 2 20 91 110 [mm9:6:72269076-72269095:-] 0.5218 153 7 -20.44 -0.2589 MIMAT0001095 mmu-miR-370 28035 Usp39 ugguccAAGGUGGGGUCGUCCg ||| :| :||||||| uucccuUUCAGCAUCAGCAGGc 2 17 200 221 [mm9:6:72268965-72268986:-] 0.6018 156 7 -23.88 -0.6581 MIMAT0003727 mmu-miR-374 28035 Usp39 guGAAUCGUCCAACAUAAUAUa |||| | || ||||||| uuCUUA--ACUUUAUAUUAUAu 2 21 477 496 [mm9:6:72268690-72268709:-] 0.5386 153 7 -5.89 -1.1175 MIMAT0003738 mmu-miR-496 28035 Usp39 cucuaaccgguacauUAUGAGu |||||| uuaacuuuauauuauAUACUCc 2 8 480 501 [mm9:6:72268685-72268706:-] 0.5386 120 6 -5.95 -0.1491 MIMAT0003450 mmu-miR-488 28035 Usp39 cugguucuuugucGGAAAGUu ||||||| gucgacacucuucCCUUUCAg 2 9 190 210 [mm9:6:72268976-72268996:-] 0.5618 140 7 -12.07 -0.2130 MIMAT0003453 mmu-miR-497 28035 Usp39 auguuuggugucacACGACGac |||||| ugccuuauuugaauUGCUGCaa 3 9 240 261 [mm9:6:72268925-72268946:-] 0.6018 120 0 -10.93 -0.1771

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G065998 Usp39 Mus musculus 28035 19536157 0 0 R52795; MOUSE$USP39_01; Binding factors: mmu-miR-34a-5p , mmu-miR-34b-5p , mmu-miR-34c-5p , mmu-miR-449a-5p , mmu-miR-449b , mmu-miR-449c-5p // 0 0 R52796; MOUSE$USP39_02; Binding factors: mmu-miR-124-3p

DNA & RNA Element - RepTar Gene Name miRNA Begin End Profile Usp39 mmu-miR-129-3p beg:22 end:32 pic:3' TACGAAAAACCCCATTCCCGAA 5'& ||||||| &5' --------------AAGGGCT- 3' Usp39 mmu-miR-378 beg:93 end:111 pic:3' GGAAGACTGAGGTTCAGGTCA 5'& ||| | || |||||||| &5' ----CTG-C-CCCAGTCCAGT 3' Usp39 mmu-miR-465a-3p beg:149 end:160 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |||||||| &5' -------------GCCCTGAT- 3' Usp39 mmu-miR-465b-3p beg:149 end:160 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |||||||| &5' -------------GCCCTGAT- 3' Usp39 mmu-miR-465c-3p beg:149 end:160 pic:3' AGATGAATCTTTCCGGGACTAG 5'& |||||||| &5' -------------GCCCTGAT- 3' Usp39 mmu-miR-3099star beg:57 end:66 pic:3' GTTCCCGACCTTCCTTCGACC 5'& ||||||| &5' -------------GAAGCTG- 3' Usp39 mmu-miR-484 beg:135 end:149 pic:3' TAGCCCTCCCCTGACTCGGACT 5'& || ||||||| &5' ----------GAAGGAGCCTG- 3' Usp39 mmu-miR-1966 beg:354 end:374 pic:3' CTGAGAGAGGACTCGGTCGAGGGAA 5'& ||.||||| .||||||||| &5' ----CTTTCCTG---TAGCTCCCTT 3' Usp39 mghv-miR-M1-3 beg:362 end:380 pic:3' TTCGCGTTGAGGACGAGTGGAG 5'& |.|.|||| .|||.||| &5' ----GTAGCTCCC-TTCATCTC 3' Usp39 mmu-miR-122 beg:180 end:201 pic:3' GTTTGTGGTAACAG-TGTGAGGT 5'& ||. .| ||| ||||||. &5' ---ACGTTGTGGTCGACACTCT- 3' Usp39 mmu-miR-124star beg:58 end:78 pic:3' TAGTTCCA-GGCGACACTTGTGC 5'& ||| .||| ||||||| &5' ---AAGCTGTCGC--TGAACAC- 3' Usp39 mmu-miR-130a beg:236 end:260 pic:3' TACGGGA-AAATTGTAACG-TGAC 5'& |||||.| |||.| ||||| .| &5' ATGCCTTATTTGA-ATTGCTGC-- 3' Usp39 mmu-miR-143 beg:362 end:380 pic:3' CTCGATGTCACGAAGTAGAGT 5'& |||| | ||||||||| &5' -AGCTCC----CTTCATCTC- 3' Usp39 mmu-miR-151-3p beg:495 end:515 pic:3' GGAGTTCCTCGGA-GTCAGATC 5'& ||| |.|| .|||||. &5' -CTCCT---GTCTGTAGTCTG- 3' Usp39 mmu-miR-151-3p beg:131 end:153 pic:3' GG-AGTTCCTCGGAGTCAGATC 5'& || | ||||||||| ||||. &5' CCATGAAGGAGCCT--GTCTG- 3' Usp39 mmu-miR-16star beg:41 end:61 pic:3' AGTCGTCGTGTCAGTTATGACC 5'& .|.| |.| ||||||| &5' --GGTAA-ATAAA-AATACTG- 3' Usp39 mmu-miR-188-3p beg:366 end:388 pic:3' ACGTTTGGGACGT-----ACACCCTC 5'& |||| || ||||||| &5' ------CCCTTCATCTCCTGTGGGA- 3' Usp39 mmu-miR-193star beg:288 end:309 pic:3' AGTAGAACGGGCGTTTCTGGGT 5'& |.|| |.|.| .|||||| &5' -CGTCAGGTCTG--GAGACCC- 3' Usp39 mmu-miR-1954 beg:495 end:512 pic:3' TTGTCCCAGAGTG-AGACGTCA 5'& ||| ||||.||| &5' --------CTCCTGTCTGTAGT 3' Usp39 mmu-miR-1958 beg:456 end:478 pic:3' TGAATGACGAAGGTGAAAGGAT 5'& ||| | ||. .|||||| &5' --TTAAGGGTTTTGTTTTCCT- 3' Usp39 mmu-miR-1969 beg:356 end:378 pic:3' TGGGTACAATTTCAGAGGTAGAA 5'& .|| ||| ||.||||| &5' -TCC-TGTAGCTCCCTTCATCT- 3' Usp39 mmu-miR-1981 beg:95 end:117 pic:3' CGGTGCAGATTCGGGTCGGAAATG 5'& ||| | ||.||||..||||. &5' GCCCC-----AGTCCAGTTTTTAT 3' Usp39 mmu-miR-19astar beg:207 end:228 pic:3' CATCACGTTGATA--CGTTTTGAT 5'& ||| |||.|||| &5' -----GCATCAGCAGGCAGAACT- 3' Usp39 mmu-miR-2134 beg:17 end:28 pic:3' CGTGGGGCAAAGGGTTCTG 5'& ||||||||. &5' ---------TTCCCAAGG- 3' Usp39 mmu-miR-214 beg:494 end:515 pic:3' TGACGGACAGACA-CGGACGACA 5'& ||| ||||||||| |.|||. &5' ACT-CCTGTCTGTAGTCTGT--- 3' Usp39 mmu-miR-214star beg:205 end:223 pic:3' CGTGTCGTTCACATCTGTCCGT 5'& ||||| .|||||| &5' ---CAGCATCA----GCAGGCA 3' Usp39 mmu-miR-21star beg:421 end:437 pic:3' CTGTCGGGTAGCTGACGACAAC 5'& ||| |.|||.|||| &5' ------CCA--GGCTGTTGTT- 3' Usp39 mmu-miR-223 beg:73 end:86 pic:3' ACCCCATAAACTGTTTGACTGT 5'& |||.|||||| &5' -----------ACAGACTGAC- 3' Usp39 mmu-miR-29bstar beg:406 end:428 pic:3' ATTTGGTGGTATAC--TTTGGTCG 5'& || || ||||||| &5' ----CCTCCTGTTTTTAAACCAG- 3' Usp39 mmu-miR-302bstar beg:448 end:465 pic:3' TCTTTCGTAAGGGTACAATTTCA 5'& .|.|| ||||||.| &5' --GAGGCT------TGTTAAGG- 3' Usp39 mmu-miR-3099star beg:21 end:46 pic:3' GTTCCCGAC-CTTCCTTCGACC 5'& ||||||||| |. |||| ||| &5' CAAGGGCTGTGGCTGAAGATGG 3' Usp39 mmu-miR-30astar beg:26 end:42 pic:3' CGACGTTTGTAGGCTGACTTTC 5'& ||||. |.|||||. &5' GCTGT--------GGCTGAAG- 3' Usp39 mmu-miR-30astar beg:42 end:64 pic:3' CGACGTTTGTAGGC-TGACTTTC 5'& |.|||.| ||||||. &5' ---GTAAATAAAAATACTGAAG- 3' Usp39 mmu-miR-30astar beg:68 end:92 pic:3' CGACGTTTGTA-GGCTGACTTTC 5'& |||| ||| |.||||||||| &5' GCTGAACACAGACTGACTGAAAG 3' Usp39 mmu-miR-30estar beg:60 end:92 pic:3' CGACA----TTTGTA---GGCTGACTTTC 5'& ||||| .|||| |.||||||||| &5' GCTGTCGCTGAACACAGACTGACTGAAAG 3' Usp39 mmu-miR-30estar beg:42 end:64 pic:3' CGACATTTGTAGGC-TGACTTTC 5'& |||||.| ||||||. &5' ---GTAAATAAAAATACTGAAG- 3' Usp39 mmu-miR-320 beg:95 end:115 pic:3' AGCGGGAGAGTTGGGTCGAAAA 5'& .|||| || ||||.|||| &5' -TGCCC---CAGTCCAGTTTTT 3' Usp39 mmu-miR-338-3p beg:45 end:67 pic:3' GTTGTTTTAGTGACTACGACCT 5'& ||.|||| .||||| |||| &5' -AATAAAAATACTGAAGCTG-- 3' Usp39 mmu-miR-370 beg:200 end:222 pic:3' TGGTCCAAGGTGG-GGTCGTCCG 5'& || ||.|| | .|||||||| &5' -CCC--TTTCAGCATCAGCAGGC 3' Usp39 mmu-miR-375 beg:255 end:275 pic:3' AGTGCGCTCGGCTTG-CTTGTTT 5'& || ||. |||||.| &5' ----GCAAGTATCAAAGAACAGA 3' Usp39 mmu-miR-423-5p beg:186 end:210 pic:3' TTTCAGA-GCGAGAGACGGGGAGT 5'& .||| | ||||. ||..||| &5' --GGTCGACACTCTTC-CCTTTCA 3' Usp39 mmu-miR-450b-5p beg:242 end:263 pic:3' ATAAGTCCTTGTATGACGTTTT 5'& ||||. |||. |.||||||. &5' TATTT--GAAT-TGCTGCAAG- 3' Usp39 mmu-miR-463 beg:493 end:515 pic:3' GATGGA-ATATACCACAGATAGT 5'& |||. |.| || ||||.|| &5' -TACTCCTGTCTGTAGTCTGTC- 3' Usp39 mmu-miR-540-3p beg:114 end:128 pic:3' GGTCCTAGCTGGAGACTGGA 5'& |||| ||||.|. &5' ---GGAT-----TCTGGCT- 3' Usp39 mmu-miR-542-3p beg:327 end:348 pic:3' AAAGTCAATAGTTAGACAGTGT 5'& ||| | |||||||.| &5' ---CAGCAG-CCTTCTGTCATA 3' Usp39 mmu-miR-544 beg:207 end:226 pic:3' CTCGAACGATTTTTA-CGTCTTA 5'& || |||||| &5' ------GCATCAGCAGGCAGAA- 3' Usp39 mmu-miR-683 beg:321 end:336 pic:3' CTCCTGTGTCGAATGTCGTCC 5'& ||. .|||||| &5' --------AGTCAGCAGCAG- 3' Usp39 mmu-miR-693-5p beg:24 end:39 pic:3' CTTTTGAAAGCCT-ACACCGAC 5'& ||. |||||||| &5' ----------GGGCTGTGGCTG 3' Usp39 mmu-miR-720 beg:298 end:315 pic:3' ACCTCCGGGGTCGCTCTA 5'& |||| |||.|| ||| &5' -GGAGACCCTAG-GAG-- 3' Usp39 mmu-miR-742 beg:338 end:361 pic:3' AAATGGG--TCGTACCACCGAAAG 5'& | | .|.| ||||||||| &5' --TGTCATAGGTA--GTGGCTTTC 3' Usp39 mmu-miR-743b-5p beg:57 end:77 pic:3' ACTACCTGTGGTCA-GACTTGT 5'& || .|.. ||||||| &5' -----GAAGCTGTCGCTGAACA 3' Usp39 mmu-miR-871 beg:232 end:254 pic:3' GTACTGACCGTGATTAGACTTAT 5'& |||. || || ||.||||| &5' -ATGGAT-GC-CTTATTTGAAT- 3' Usp39 mmu-miR-9 beg:251 end:272 pic:3' AGTATGTCGATCTATTGGTTTCT 5'& |.| || || |.|||||| &5' ---TGCTGCAAGT--ATCAAAGA 3' Usp39 mmu-miR-93star beg:206 end:220 pic:3' GCCCTTCACGATCG-AGTCGTCA 5'& ||| ||||||| &5' -----------AGCATCAGCAG- 3' Usp39 mmu-miR-93star beg:317 end:333 pic:3' GCCCTTCACGATCGAGTCGTCA 5'& ||| || ||||||| &5' ------GTGA-AG-TCAGCAG- 3' Usp39 mmu-miR-712 beg:127 end:145 pic:3' CCATGGCGGGCCCACTTCCTC 5'& |.| || |||||||| &5' ---ATCACCA---TGAAGGAG 3'

DNA & RNA Element - miRNAMap Gene Name Mature miRNA Target Start Target End miRNA 3-5 Alignment Target 5-3 Usp39 mmu-let-7g 62 105 -UGACA--------UGUUUGAU------------GAUGGAGU :|||| |||:|||: ||:|| || AGCUGUCGCUGAACACAGACUGACUGAAAGAUUCCUGCCCCAG Usp39 mmu-miR-106a 161 189 AUGGACGUGACAA------UCGUGAAAC- :||||:|||| ||||| ||| -UUCUGCGCUGUCUCCGGCAGCACGUUGU Usp39 mmu-miR-122a 176 202 -UGUUUGUGGUAA--CAG-UGUGAGGU :| |:||| | ||| ||||||: GGC-AGCACGUUGUGGUCGACACUCUU Usp39 mmu-miR-127 216 245 CGGUUCGA---------GUCUGCCUA-GGCU ||:|| ||||:|||| || -GCAGGCAGAACUCUUACAGAUGGAUGCCU- Usp39 mmu-miR-129-3p 2 33 UACGAAAAACCCCA----------UUCCCGAA || || |||| ||||||| -CGCCUUGUUGGGUUUUUAUUCCCAAGGGCUG Usp39 mmu-miR-130b 150 172 UACGGGAAAGU-AGUAACGUGAC- |||||| || |||:||| CUGCCCUGAUGUUC--UGCGCUGU Usp39 mmu-miR-133a 275 309 -UGUCGA-CCAACUU-----------CCCCUGGUU ||||:| ||| ||| || |||| GACAGUUCGGUAGAAACGUCAGGUCUGGAGACCC- Usp39 mmu-miR-135a 297 330 -AGUGU------AUCCUUAUU----UUUCGGUAU || : |||||:||| :|||:|| GUCUGGAGACCCUAGGAGUAAACGUGAAGUCAG- Usp39 mmu-miR-138 199 219 CUAAGU----GUUGUGGUCGA ||| ||:||:|||| -CUUCCCUUUCAGCAUCAGCA Usp39 mmu-miR-140* 351 387 AGGCACCAA---GAU--------------GGGACACCAU |||| ||: :||||||| --AGUGGCUUUCCUGUAGCUCCCUUCAUCUCCUGUGGG- Usp39 mmu-miR-143 353 381 ACUCGAU--GUCA-CGA----AGUAGAGU :||| | || ||| ||||||| -UGGCUUUCCUGUAGCUCCCUUCAUCUCC Usp39 mmu-miR-148b 135 172 -UGUUUCA------AGAC---ACU-----ACGUGACU |::||| |||| ||| |||:||| CAUGAAGGAGCCUGUCUGCCCUGAUGUUCUGCGCUGU Usp39 mmu-miR-149 295 317 -CCUCACUUCUGUG--CCUCGGUCU || ||:|||| ||||: AGGUCUGGAGACCCUAGGAGUA--- Usp39 mmu-miR-151 133 154 -GG-AGUUCCUCGGAGUCAGAUC || | ||||||||| ||||: ACCAUGAAGGAGCCU--GUCUGC Usp39 mmu-miR-15b 146 168 -ACAUUUGGUACUACACGACGAU ||| :|| |||||| |||| CUGUCUGCCCUGAUGUUCUGCG- Usp39 mmu-miR-16 239 261 -GCGGUUAUAAAUGC-ACGACGAU :||| |||||: |||||| AUGCCU-UAUUUGAAUUGCUGCA- Usp39 mmu-miR-17-5p 149 189 UGAUGG---------ACGUGACAU------UCGUGAAAC- ||:|| |||:|||| ||||| ||| UCUGCCCUGAUGUUCUGCGCUGUCUCCGGCAGCACGUUGU Usp39 mmu-miR-18 161 189 AUAGACGUGAUCUA------CGUGGAAU- |||||:||: |||| ||: -UUCUGCGCUGUCUCCGGCAGCACGUUGU Usp39 mmu-miR-181a* 385 401 CCAUGUUAGUUGC-CA-GCUACCA :||| || |||||| --------GGACGUGUGCGAUGGA Usp39 mmu-miR-185 364 382 CUUGACGGAAAGAGAGGU |:|| |||| ||||| UAGCUCCCUUCAUCUCCU Usp39 mmu-miR-205 116 145 GUCUGAGGCC-ACCU-----UACUUCCU- :||:||:|| || |||||||| UGGAUUCUGGCUGCAUCACCAUGAAGGAG Usp39 mmu-miR-206 74 110 GGUGUGUGA-----------AGGAAU--GUAAGGU- |||| ||| |||| || |||| ACACAGACUGACUGAAAGAUUCCUGCCCCAGUCCAG Usp39 mmu-miR-207 294 332 CUCCCU-CCUCUCGG-UCCUCU------------UCG- ||| ||||| || ||||| ||| CAGGUCUGGAGACCCUAGGAGUAAACGUGAAGUCAGCA Usp39 mmu-miR-20a 161 185 GAUGGACGUGAUAU------UCGUGAAAU :||||:||:| ||||| --UUCUGCGCUGUCUCCGGCAGCACG--- Usp39 mmu-miR-20b 161 189 AUGGACGUGAUA-----C-UCGUGAAAC- :||||:||:| | ||||| ||| -UUCUGCGCUGUCUCCGGCAGCACGUUGU Usp39 mmu-miR-214 143 163 GACGGACAGACACGGACGACA- ||||||||| |||| ||| -AGCCUGUCUGC-CCUGAUGUU Usp39 mmu-miR-216b 444 478 AGUGUAAA--CGGACG--UCUC----UAAAGGG- | |||| ||:||: ||:| :|||:|| CCCCAUUGAGGCUUGUUAAGGGUUUUGUUUUCCU Usp39 mmu-miR-22 106 131 UGUCAAGAAGUU----GACCGUCGAA |||||:|| ||||| || CCAGUUUUUAUGGAUUCUGGCUGCA- Usp39 mmu-miR-222 301 359 -CUCUGGG---------------UCA-------UCGG--- UCUA CAUCGA ||||||| ||| |||| ||:| ||:||| GGAGACCCUAGGAGUAAACGUGAAGUCAGCAGCAGCCUUCUGUCAUAGGUAGUGGCUU Usp39 mmu-miR-223 75 87 CCCCAUAAACUGUUUGACUGU |||:|||||| ---------CACAGACUGACU Usp39 mmu-miR-23a 300 325 -CCUUUAGGGA-CCG---UUACACUA |||:| |||| || || |||| UGGAGA-CCCUAGGAGUAAACGUGAA Usp39 mmu-miR-24* 206 224 UGACUAUAGUCG-AGUCAUCCGUG ||||| |||| ||||| ------UUCAGCAUCAGCAGGCAG Usp39 mmu-miR-25 372 400 -AGUCU-GG---CUCUGUUCACGUUAC- ||| || |:|||: ||||:||| UUCAUCUCCUGUGGGACGUGUGCGAUGG Usp39 mmu-miR-28 349 372 GAGUUAUCU----GACACUCGAGGAA :|:|:| |||| |||||| -GUAGUGGCUUUCCUGU-AGCUCCC- Usp39 mmu-miR-292-3p 166 185 -UGUGAGUUUUGGACCGCCGUGAA :| || || ||| |||| CGCUGUCU---CC-GGCAGCACG- Usp39 mmu-miR-293 164 185 -UGUGAUGUUUGAGA-CGCCGUGA :|:||: ||| || |||| UGCGCUGU---CUCCGGCAGCACG Usp39 mmu-miR-298 321 346 CCUUC--UUGUCGGGAGGAGACGG- |||| |:|||| |:||||:| UGAAGUCAGCAGCAGCCUUCUGUCA Usp39 mmu-miR-29a 223 244 -UUGGCUAAAGUCUACC-ACGAU |||: ||||||| ||| GAACUCUUA-CAGAUGGAUGCC- Usp39 mmu-miR-30a-3p 62 93 -CGACG----UUUGUA---GGCUGACUUUC- ||||: :|||| |:||||||||| AGCUGUCGCUGAACACAGACUGACUGAAAGA Usp39 mmu-miR-30e* 63 93 -GACA----UUUGUA---GGCUGACUUUC- |||| :|||| |:||||||||| GCUGUCGCUGAACACAGACUGACUGAAAGA Usp39 mmu-miR-320 197 219 AAGC-GGGAGAGUUG-GGUCGAAAA || ||||:|||:| :|||| CUCUUCCCUUUCAGCAUCAGCA--- Usp39 mmu-miR-324-3p 325 357 -GGUCGUCGU----GGACC----CCGUCACC- :|||||||| :||| ||:||||| GUCAGCAGCAGCCUUCUGUCAUAGGUAGUGGC Usp39 mmu-miR-330 145 168 AGAGACGUCCGGGAC-ACGAAACG- |||: |||||| ||:| ||| --CCUGUCUGCCCUGAUGUUCUGCG Usp39 mmu-miR-331 8 32 AAGAUCCU---AUCCGGGUCCCCG- :|:|| || |||| |||| -GUUGGGUUUUUAUUCCCAAGGGCU Usp39 mmu-miR-337 127 150 UUUCCGUAGU---AUAUCCUC-GACUU |||||| |: ||||| ||| ---UGCAUCACCAUGAAGGAGCCUGU- Usp39 mmu-miR-338 47 68 AGUUGUUUUAGUGACUACGACCU ||:|||| :||||| |||| -AAAUAAAAAUACUGAAGCUGU- Usp39 mmu-miR-340 27 47 -CCGAUAUUUCAUUGAC-UCUGCCU |||| ||::||| |||:|| GGGCU-----GUGGCUGAAGAUGGU Usp39 mmu-miR-342 385 418 -CUGCCCACGCUAAA-------------GACACACUCU |||| ||||||| |||| GGACGUGUGCGAUGGAUUAAAUAUCCUCCUGUU----- Usp39 mmu-miR-345 295 333 -CGUGACCU----GAUCC-C----------CAGUCGU- | ||||| ||||| | ||||||| AGGUCUGGAGACCCUAGGAGUAAACGUGAAGUCAGCAG Usp39 mmu-miR-346 175 198 UCUCCGUCCGUG-AGC-CCGUCUGU- |||| |||| |:| ||: |||| --CGGCA-GCACGUUGUGGUCGACAC Usp39 mmu-miR-34b 147 175 GUUAGUCG--AUUA----AUGUGACGGAU :|| || |:|| |:|:|||:|| -UGUCUGCCCUGAUGUUCUGCGCUGUCUC Usp39 mmu-miR-34c 143 175 -CGU-UAGUCGAUU------GAUGUGACGGA- || :|| || ||:|:|||:|| AGCCUGUCUGCCCUGAUGUUCUGCGCUGUCUC Usp39 mmu-miR-362 1 31 AAGUGUGGA----UCCAA-------GGUUCCUAA ||:||| :|||| ||||||: ---ACGCCUUGUUGGGUUUUUAUUCCCAAGGGC- Usp39 mmu-miR-363 228 263 -AAUGUCUACCUAUGGC------------ACGUUA ||||||||||||:|| ||||| CUUACAGAUGGAUGCCUUAUUUGAAUUGCUGCAAG Usp39 mmu-miR-378 289 316 -UGU-GUCCUGGACCUCA---GUCCUC- ||: |||| :|||||| :||||| AACGUCAGG-UCUGGAGACCCUAGGAGU Usp39 mmu-miR-379 125 156 GGAUGCAA-GGUAU---------CAGAUGGU ||:| ||||: ||||:|| GCUGCAUCACCAUGAAGGAGCCUGUCUGCCC Usp39 mmu-miR-380-5p 164 197 -CGCGUACAAGA-------------UACCAGUUGGU |||| || ||| :|||||:|| UGCGC-UG-UCUCCGGCAGCACGUUGUGGUCGACA- Usp39 mmu-miR-383 323 346 -UCGGU-GUCAGUGGAAGACUAGA ||:|| ||| :||||||| || AAGUCAGCAGCAGCCUUCUG-UCA Usp39 mmu-miR-384 299 317 ACACUUGUUAAAGAUCCUUA- ||:| | ||||||:| -CUGGAGACC--CUAGGAGUA Usp39 mmu-miR-412 295 328 UGCC-GAUCACCUGG--UCC--------ACUUCA- || ||:| |||| ||| |||||| -AGGUCUGGA-GACCCUAGGAGUAAACGUGAAGUC Usp39 mmu-miR-422b 68 111 CCGGAA-------GACUGA-------------GGUUCAGGUC ||: |||||| || ||||||| CGCUGAACACAGACUGACUGAAAGAUUCCUGCCCCAGUCCAGU Usp39 mmu-miR-424 231 261 AGGUUUUGU----------ACUUAACGACGAC ||:| : ||||||||||| -ACAGAUGGAUGCCUUAUUUGAAUUGCUGCA- Usp39 mmu-miR-425 186 206 CCGCCUGUGCUGU---AAGGGCUA |:|| ||||| ||||| UGUGGU--CGACACUCUUCCCU-- Usp39 mmu-miR-455-3p 11 35 -UCACAUAUACGGGCACCUGACGUA :|| ||| ||| ||:|||: GGGUUUUUAUUCCCAAGGGCUGUG- Usp39 mmu-miR-465-3p 125 161 AGAUGAAU-----CUUUC---------CGGGACUAG ||:| |||:| |||||||| GCUGCAUCACCAUGAAGGAGCCUGUCUGCCCUGAUG Usp39 mmu-miR-483 293 317 UGUUCUGCCCUCCCC--UCCUCACU ||:| | |||| |||||| UCAGGUCUGGAGACCCUAGGAGUA- Usp39 mmu-miR-487b 381 399 UCACCUACUGGGACAUGCUAA ||||: | |||:|||| UGUGGGA---CGUGUGCGAUG Usp39 mmu-miR-488* 132 152 CUGGUUCUUUGUCGGAAAGUU |||| |||: ||||| || CACCAUGAAGGAGCCUGUCU- Usp39 mmu-miR-541 185 208 -ACACUGGUUGU-AGUCUUAGGGAA- ||||::|:||| || |||||| UUGUGGUCGACACUCU---UCCCUUU Usp39 mmu-miR-542-3p 325 349 AAAGUCAAUAGUU---AGACAGUGU- |||| ||: |||||||:| -GUCAGCAG-CAGCCUUCUGUCAUAG Usp39 mmu-miR-546 90 105 -CUGAGGCACGGUGGUA ||:||| |||| ||| AGAUUCC-UGCC-CCAG Usp39 mmu-miR-665 383 417 AUUCCCUGGAGUCG---------------GAGGACCA ||||| | || |||||| --UGGGACGUGUGCGAUGGAUUAAAUAUCCUCCUGU- Usp39 mmu-miR-669b 209 229 UGUACGUGUACGUGUGUUUUGA- |||: ||| :||:|||| ---AGCAUCAGCAGGCAGAACUC Usp39 mmu-miR-671 92 137 GGAGGUCGGGG--AGGUC--------------CCGAA-----GGA :||| ||||| ||||| |||| || AUUCCUGCCCCAGUCCAGUUUUUAUGGAUUCUGGCUGCAUCACCA Usp39 mmu-miR-672 317 341 GUGUGUGUCA--UGUGGUUGGAGU ||: ||| :|| ||:|||: AACGUGAAGUCAGCAGCAGCCUUC Usp39 mmu-miR-673 22 40 GAGGUUCCUGGUCUCGACACUC ||||||:|: :|||| -CCCAAGGGCUGUGGCUGA--- Usp39 mmu-miR-675-5p 145 171 UGACACCCGGGA----AAGGCGUGGU |||| ||||| |||:||:|: CCUGUCUGCCCUGAUGUUCUGCGCUG Usp39 mmu-miR-676 364 391 -UCGAGUU--GUU--GGA-GUCCUGCC ||||| || ||| ::||||| UAGCUCCCUUCAUCUCCUGUGGGACGU Usp39 mmu-miR-677 57 76 AGUCUUCGAUUAGUAGUGACUU- | |||||| :||:||||| ACUGAAGCU----GUCGCUGAAC Usp39 mmu-miR-679 83 109 -UGG--UUCUCAG--UGGAGUGUCAGG- ||: |||| || :|| | |||||| GACUGAAAGAUUCCUGCC-C-CAGUCCA Usp39 mmu-miR-680 305 340 GGGGGUA-------------CAGUCGUCUACGGG- |||:| |||||||| |||: ACCCUAGGAGUAAACGUGAAGUCAGCAGCAGCCUU Usp39 mmu-miR-683 192 222 CUCCUGUG-----------UCGAAUGUCGUCC- ||||| ||| ||||||| --CGACACUCUUCCCUUUCAGCAU-CAGCAGGC Usp39 mmu-miR-685 168 189 CACGGAGUGGAGUCG-GUAACU ||:||| | |||| |:||| CUGUCUC-CGGCAGCACGUUGU Usp39 mmu-miR-693-5p 26 40 CUUUUGAAAGCCU-ACACCGAC- ||: |||||||| ---------AGGGCUGUGGCUGA Usp39 mmu-miR-699 141 175 GCUCGGUCCAG--------------CGUGACGGA- ||||| ||| ||:|||:|| GGAGCCU-GUCUGCCCUGAUGUUCUGCGCUGUCUC Usp39 mmu-miR-701 335 359 AGGUAGAUAAA----GUCGCCGAUU || |||:| :||:|||| GCCUUCUGUCAUAGGUAGUGGCUU- Usp39 mmu-miR-705 365 383 ACGGGUGGGGUGGAGGGUGG ||:| |::||:||||: AGCUCCCUUCAUCUCCUG-- Usp39 mmu-miR-709 144 177 AGGA-GGACGGA------------GACGGAGG- ||| :||||| |||:|||| GCCUGUCUGCCCUGAUGUUCUGCGCUGUCUCCG Usp39 mmu-miR-710 436 460 GAGUUGAGAGGGGU---UCUGAACC ||| ||||| ||:|||| UUCAUAUA-CCCCAUUGAGGCUUGU Usp39 mmu-miR-712 124 146 CCAUGGCGGGCCC--ACUUCCUC- :|:|| |||||||| --GGCUGCAUCACCAUGAAGGAGC Usp39 mmu-miR-715 380 402 GUGCGCCCC-CACACG-UGCCUC :|:||| |||||| |:||| -CUGUGGGACGUGUGCGAUGGAU Usp39 mmu-miR-717 137 154 UCUCUUCCAUAGAGACAGACUC ||||| | ||||||| --UGAAGGAG-C-CUGUCUGC- Usp39 mmu-miR-718 21 43 GCUGUGGG---CCGGC-CCGCCUUC- ||| |||:| ||| |||| ----UCCCAAGGGCUGUGGCUGAAGA Usp39 mmu-miR-742 334 362 AAAUGGG---------UCGUACCACCGAAAG- :||: :|:| ||||||||| --AGCCUUCUGUCAUAGGUA--GUGGCUUUCC Usp39 mmu-miR-744 145 169 CGACAAUCGGGAU--CGGGGCGU- |||| |||||: |::|:||: CCUGUCUGCCCUGAUGUUCUGCGC Usp39 mmu-miR-762 84 109 CGAGAC-----AGGGCCGGGGUCGGGG ||| |:|| |||||||:|| --ACUGAAAGAUUCCUGCCCCAGUCCA Usp39 mmu-miR-763 2 34 -CGGUGA---CCAAG---AAGGGU---CGACC ||| ||||: |||||| |||| CGCCUUGUUGGGUUUUUAUUCCCAAGGGCUGU Usp39 mmu-miR-764-3p 328 364 -UGUCAACGGU-GA----------UACCGG-AGGA- :||| ||| || :||||: |||| AGCAGCAGCCUUCUGUCAUAGGUAGUGGCUUUCCUG Usp39 mmu-miR-770-3p 173 197 -GGUCGAGGUGCAGU-CCGGGUGC ||:|| |||||:: ||:| || UCCGGCAGCACGUUGUGGUCGACA Usp39 mmu-miR-801 155 194 CAGCUA--AGGCGUG-CG-----UGUCGU-------UAG- :||| ||:||:| |: :||||| :|| -CUGAUGUUCUGCGCUGUCUCCGGCAGCACGUUGUGGUCG Usp39 mmu-miR-92 382 400 GUCCGGCCCUGUUCACGUUAU- :|||||: ||||:||: ----GUGGGACGUGUGCGAUGG Usp39 mmu-miR-93 161 189 GAUGGACGUGC------UUGUCGUGAAAC- :||||:| ::|||||| ||| --UUCUGCGCUGUCUCCGGCAGCACGUUGU Usp39 mmu-miR-143 373 380 ------------------------AC-UCGAUGUCACGAAGUAGAGU || |||| | ||||||||| UUCUGUCAUAGGUAGUGGCUUUCCUGUAGCU-CC---CUUCAUCUCC Usp39 mmu-miR-205 136 143 G---------------UCUGAGGCC-ACCU-----UACUUCCU :||:||:|| || |||||||| CCAGUCCAGUUUUUAUGGAUUCUGGCUGCAUCACCAUGAAGGAG Usp39 mmu-miR-30a-3p 84 91 --------------------CGACGUUUGUA-GGCUGACUUUC |||| ||| |:||||||||| AUAAAAAUACUGAAGCUGUCGCUGAACACAGACUGACUGAAAGA Usp39 mmu-miR-30e* 84 91 ---------------GACA----UUUGUA---GGCUGACUUUC |||| :|||| |:||||||||| AUAAAAAUACUGAAGCUGUCGCUGAACACAGACUGACUGAAAGA Usp39 mmu-miR-370 214 221 UU---------------------GGUCCAAGGUGG-GGUCGUCCG || ||:|| | :|||||||| AGCACGUUGUGGUCGACACUCUUCCC--UUUCAGCAUCAGCAGGCA Usp39 mmu-miR-465-3p 153 160 A-------GAUGAAU-----CUUUC---------CGGGACUAG ||:| |||:| |||||||| GAUUCUGGCUGCAUCACCAUGAAGGAGCCUGUCUGCCCUGAUG Usp39 mmu-miR-484 142 149 UAGC------CCUCCC-CUGA--------------CUCGGACU ||| |:|| ||||||| CAGUUUUUAUGGAUUCUGGCUGCAUCACCAUGAAGGAGCCUGU Usp39 mmu-miR-712 137 144 CCA--------------------UGGCGGGCCC--ACUUCCUC :|:|| |||||||| CAGUCCAGUUUUUAUGGAUUCUGGCUGCAUCACCAUGAAGGAGC Usp39 mmu-miR-742 353 360 AAA---UGGGUCGUAC------------------CACCGAAAG | :||||| ||||||||| ACGUGAAGUCAGCAGCAGCCUUCUGUCAUAGGUAGUGGCUUUCC Usp39 mmu-let-7g 84 103 UGACAUGUUUGAUGAUGGAGU |||| | |:|:| ||:|| || ACTG-AAAGATTCCTGCCCCA Usp39 mmu-miR-106a 160 187 augGACGUGACA-A-----UCGUGAAAC ||||:|||| | ||||| ||| gttCTGCGCTGTCTCCGGCAGCACGTTG Usp39 mmu-miR-106b 161 187 uAGACGUGACA------GUCGUGAAAu |||||:|||| |||||| || tTCTGCGCTGTCTCCGGCAGCACGTTg Usp39 mmu-miR-122a 177 201 uGUU-UGUGGUAACAG-UGUGAGgu ||: ||::::| ||| |||||| gCAGCACGTTGTGGTCGACACTCtt Usp39 mmu-miR-127 220 245 CGGUUCGA----GUCUGCCUA-GGcu || :| || ||||:|||| || GCAGAACTCTTACAGATGGATGCCtt Usp39 mmu-miR-133a 276 309 UGUCGA-CCAACUU-----------CCCCUGGuu ||||:| ||| ||| || |||| ACAGTTCGGTAGAAACGTCAGGTCTGGAGACCct Usp39 mmu-miR-135a 304 330 aguGUAUCCUUAUUU----UUCGGUau | |||||:|||| |||:|| gacCCTAGGAGTAAACGTGAAGTCAgc Usp39 mmu-miR-138 202 218 cuaAGUGUUGUGGUCGa |: ||:||:|||| cccTTTCAGCATCAGCa Usp39 mmu-miR-140* 359 387 AGG-CACC-----AAG-AUGGGACACCau ||| || | ||| | :||||||| TCCTGTAGCTCCCTTCATCTCCTGTGGga Usp39 mmu-miR-143 362 380 AC-UCGAUGUCACGAAGUAGAGu || |||| | ||||||||| TGTAGCTCC----CTTCATCTCc Usp39 mmu-miR-148b 150 171 uguuucaagACACUACGUGACu ||| |||:||| ctgccctgaTGTTCTGCGCTGt Usp39 mmu-miR-149 311 330 CCUCACUUCUGUGCCUCGGUCu ||||| || ||::| ||:||| GGAGT-AA-ACGTGAAGTCAGc Usp39 mmu-miR-151 134 153 GG-AGUUCCUCGGAGUCAGAuc || | ||||||| | |||| CCATGAAGGAGC--CTGTCTgc Usp39 mmu-miR-15b 147 168 ACAUUUGGUACUACACGACGau ||| :|| |||||| |||| TGTCTGCCCTGATGTTCTGCgc Usp39 mmu-miR-16 240 261 gCGGUUAUAAA-UGCACGACGau ||| ||||| | |||||| tGCC-TTATTTGAATTGCTGCaa Usp39 mmu-miR-17-5p 162 187 uGAUG-GAC-GUGACAUUCGUGAAAC ||:| ||| | | | ||||| ||| tCTGCGCTGTCTCCGGCAGCACGTTG Usp39 mmu-miR-18 160 187 auAGACGUGA------UCUACGUGGAAu |||||:|| :| |||| || gtTCTGCGCTGTCTCCGGCAGCACGTTg Usp39 mmu-miR-181a* 379 400 ccauguuaguugccaGCUACCa |||||| cctgtgggacgtgtgCGATGGa Usp39 mmu-miR-205 116 143 guCUGAGGCC-ACCU-----UACUUCCU ||:||:|| || | |||||||| tgGATTCTGGCTGCATCACCATGAAGGA Usp39 mmu-miR-20a 163 187 GAUG-GAC-GUGAUAUUCGUGAAAu ||:| ||| | | : ||||| || CTGCGCTGTCTCCGGCAGCACGTTg Usp39 mmu-miR-20b 160 187 augGACGUGAUA-----C-UCGUGAAAC ||||:||:| | ||||| ||| gttCTGCGCTGTCTCCGGCAGCACGTTG Usp39 mmu-miR-214 142 161 gaCGGACAGACACGGACGACA ||||||||| |||| ||| gaGCCTGTCTG-CCCTGATGT Usp39 mmu-miR-22 106 131 uGUCAAGA--AGUU--GACCGUCGaa |||||:| | :| ||||| || cCAGTTTTTATGGATTCTGGCTGCat Usp39 mmu-miR-222 344 368 cucugggUCAUCG---GUCUACAUCGA |||:|| | ||||||| cataggtAGTGGCTTTCC--TGTAGCT Usp39 mmu-miR-223 66 86 ccccauaaacUGUUUGACUGu |||:|||||| gtcgctgaacACAGACTGACt Usp39 mmu-miR-23a 301 324 CCUUUAGGGACC---GUUACACUa |||:| ||: || || |||| GGAGACCCTAGGAGTAAACGTGAa Usp39 mmu-miR-24* 200 223 ugacuAUAGUCG-AGUCAUCCGUg | ||||| |||| ||||| ttcccTTTCAGCATCAGCAGGCAg Usp39 mmu-miR-25 377 398 agucuggCUCUGUUCACGUUAC |:|||: ||||:||| ctcctgtGGGACGTGTGCGATG Usp39 mmu-miR-28 352 372 gaguuaucuGACACUCGAGGaa |||| |||||| gtggctttcCTGT-AGCTCCct Usp39 mmu-miR-292-3p 173 199 ugugaGUUUUG---GACC-GCCGUGAa ||: || ||| || |||| tccggCAGCACGTTGTGGTCGACACTc Usp39 mmu-miR-293 165 184 uGUGAUGUUUGA-GACGCCGUGa |:||:: || | || |||| gCGCTGT---CTCCGGCAGCACg Usp39 mmu-miR-29a 224 244 UUGGCUAAAGUCUACC-ACGau |||: || ||||||| ||| AACT-CTTACAGATGGATGCct Usp39 mmu-miR-30a-3p 69 91 CGACGUUUGU-AGGCUGACUUUC |||| | ||| |:||||||||| GCTGAACACAGACTGACTGAAAG Usp39 mmu-miR-30e* 70 91 GACAUUUGU-AGGCUGACUUUC ||| | ||| |:||||||||| CTGAACACAGACTGACTGAAAG Usp39 mmu-miR-320 198 221 aagcGGGAGAGUUG-GGUCGaaaa ||||:|||:| :|||| tcttCCCTTTCAGCATCAGCaggc Usp39 mmu-miR-324-3p 326 355 gGUCGUCGU----GGAC----CCCGUCACC |||||||| :||| ||:||||| tCAGCAGCAGCCTTCTGTCATAGGTAGTGG Usp39 mmu-miR-330 143 166 agaGACGUCCGGGAC-ACGAAACG |||: |||||| ||:| ||| agcCTGTCTGCCCTGATGTTCTGC Usp39 mmu-miR-331 6 30 AAGAUCCU----AUCCGGGUCCCCG || | ||: || |||| |||| TTGTTGGGTTTTTATTCCCAAGGGC Usp39 mmu-miR-337 124 150 uuucCGUA---GUAUAUCCUC-GACuu |||| |||: ||||| ||| ggctGCATCACCATGAAGGAGCCTGtc Usp39 mmu-miR-338 46 68 AGUUGUUUUAGUGACUACGACcu | ||:|||| :||||| |||| TAAATAAAAATACTGAAGCTGtc Usp39 mmu-miR-340 28 46 CCGAUAUUUCAUUGAC-UCUGCCu |||| ||::||| |||:|| GGCT-----GTGGCTGAAGATGGt Usp39 mmu-miR-342 377 396 cugccCACGCUAAAGACACACUCU ||| || | ||||| || ctcctGTGGGA---C-GTGTGCGA Usp39 mmu-miR-345 305 331 cGUGA-CCUGAU-----CCCCAGUCGU | || ||| || | ||||||| aCCCTAGGAGTAAACGTGAAGTCAGCA Usp39 mmu-miR-346 156 184 uCUCC--GUC-CG--UGAGCCCGUC-UGu || | | | || ||| ||||| || tGATGTTCTGCGCTGTCTCCGGCAGCACg Usp39 mmu-miR-34b 146 174 GUUAGUC--GAUUA----AUGUGACGGAu | :|| | ||:|| |:|:|||:|| CTGTCTGCCCTGATGTTCTGCGCTGTCTc Usp39 mmu-miR-34c 145 173 cGUUAGUC--GAUU----GAUGUGACGGA | :|| | ||:| ||:|:|||:|| cCTGTCTGCCCTGATGTTCTGCGCTGTCT Usp39 mmu-miR-362 1 31 aagUGUGG----AUCCAA-------GGUUCCuaa ||:|| |:|||| |||||| ---ACGCCTTGTTGGGTTTTTATTCCCAAGGgct Usp39 mmu-miR-363 229 262 AAUGUCUACCUAUG-----------GC-ACGUUa ||||||||||||:| :| ||||| TTACAGATGGATGCCTTATTTGAATTGCTGCAAg Usp39 mmu-miR-370 199 221 uugguccAAGGUGGGGUCGUCCG ||| :| :|||||||| cttccctTTCAGCATCAGCAGGC Usp39 mmu-miR-378 274 299 UGUGUCCUG-GACCU---CAGUCCuc | |||| | | || |||||| AGACAGTTCGGTAGAAACGTCAGGtc Usp39 mmu-miR-378 305 332 UGUG-UCC-----UGGACCUCAGUCCUC || | ||| || || |||||| || ACCCTAGGAGTAAACGTGAAGTCAGCAG Usp39 mmu-miR-380-5p 177 197 CG-CGUACAAGAUACCAGUUGgu || ||| || |:|||||:|| GCAGCACGT--TGTGGTCGACac Usp39 mmu-miR-383 324 345 UCGGU-GUCAGUGGAAGACUAGa ||:|| ||| :||||||| || AGTCAGCAGCAGCCTTCTG-TCa Usp39 mmu-miR-384 296 315 acacuuguuaaaGAUCCUUA ||||||:| ggtctggagaccCTAGGAGT Usp39 mmu-miR-412 304 326 ugccGAUCACCUGGUCCACUUCA |||| | | ||||||| gaccCTAGGAGTAAACGTGAAGT Usp39 mmu-miR-422b 90 109 cCGGAAGACUGAGGUUCAGGUC | :| ||| | || ||||||| aGATTCCTG-C-CCCAGTCCAG Usp39 mmu-miR-424 240 261 agguuuUGUACUUAACGACGac |: ||||||||||| tgccttATTTGAATTGCTGCaa Usp39 mmu-miR-425 189 207 CCGCCUGUGCUGUAAGGGcua ||: ||||| : ||||| GGTCGACAC--TCTTCCCttt Usp39 mmu-miR-455-3p 12 35 uCACAUAUACGGGCACCUGACgua || | ||| ||| ||:||| gGTTTTTATTCCCAAGGGCTGtgg Usp39 mmu-miR-483 293 317 uGUUCUGCCCUC--CCCUCCUCAcu ||:| | |||| |||||| tCAGGTCTGGAGACCCTAGGAGTaa Usp39 mmu-miR-484 128 149 uagcccucccCUGACUCGGACu || ||||||| gcatcaccatGAAGGAGCCTGt Usp39 mmu-miR-488* 132 152 cUGGUUCUUUGUCGGAAAGuu |||| |||: ||||| || cACCATGAAGGAGCCTGTCtg Usp39 mmu-miR-541 186 206 ACACUGGUUGU-AGUCUUAGGGAA ||||::|:||| || |||||| TGTGGTCGACACTCT---TCCCTT Usp39 mmu-miR-542-3p 324 347 aaAGUCAAUAGUU---AGACAGUGU |||| | ||: |||||||:| agTCAG-CAGCAGCCTTCTGTCATA Usp39 mmu-miR-546 91 104 CUGAGGCACGGUGGUa ||:||| |||| ||| GATTCC-TGCC-CCAg Usp39 mmu-miR-665 364 384 auucccuGGAGUCGGAGGACca |:||| :|||||| tagctccCTTCA-TCTCCTGtg Usp39 mmu-miR-665 394 417 auUCCCUGG--AGUCGGAGGACca | |||:: :| ||||||| cgATGGATTAAATATCCTCCTGtt Usp39 mmu-miR-669b 207 227 uGUACGUGUACGUGUGUUUUGA || |||: ||| :||:|||| tCA-GCATCAGCAGGCAGAACT Usp39 mmu-miR-673 14 36 gagguuccuGG-UCUCGACACuc || ||:|||||| tttttattcCCAAGGGCTGTGgc Usp39 mmu-miR-676 365 390 UCGAG----UUGUUGGA-GUCCUGCc ||||| |: ||| ::||||| AGCTCCCTTCATCTCCTGTGGGACGt Usp39 mmu-miR-679 84 107 UGGUUCUCAGUGGA--GUGUCAGG ||::| || : ||| | |||||| ACTGAAAGATTCCTGCCCCAGTCC Usp39 mmu-miR-680 318 338 gggggUACAGUCGUCUACGGg | |||||||| ||| acgtgAAGTCAGCAGCAGCCt Usp39 mmu-miR-683 201 220 cuccuguGUCG-AAUGUCGUCC |||| | ||||||| tccctttCAGCAT--CAGCAGG Usp39 mmu-miR-693-5p 18 38 cuuuugaaagCCUACACCGAC || |||||||| tattcccaagGGCTGTGGCTG Usp39 mmu-miR-699 149 173 gcuCGG---UCCA--GCGUGACGGA ||| | || :||:|||:|| tctGCCCTGATGTTCTGCGCTGTCT Usp39 mmu-miR-701 339 359 AGGUAG-AUAAAGUCGCCGAuu ||::|| || | ||:|||| TCTGTCATAGGT-AGTGGCTtt Usp39 mmu-miR-705 354 374 aCGGGUGGG-GUGGAGGGugg ||:: ||: :| ||||| gGCTTTCCTGTAGCTCCCttc Usp39 mmu-miR-709 158 175 aggAGGACGGAGACGGAGG |:||| | |||:|||| atgTTCTG-CGCTGTCTCC Usp39 mmu-miR-709 141 157 aggaGGACGGAGACGGagg |||| |||||| ggagCCTG--TCTGCCctg Usp39 mmu-miR-712 127 144 cCAUGGCGGGCCCACUUCCUC | |:| || |||||||| tGCATCACC---ATGAAGGAG Usp39 mmu-miR-715 379 401 GUGCGCCC-CCACACG-UGCCUc | :|:||| |||||| |:||| CCTGTGGGACGTGTGCGATGGAt Usp39 mmu-miR-717 135 154 ucuCUUCCAUAGAGACAGACuc ||||| | | ||||||| catGAAGG-AGC-CTGTCTGcc Usp39 mmu-miR-718 17 41 gcUGUGGG---CCGGC-CCGCCUUC |: ||| |||:| ||| |||| ttATTCCCAAGGGCTGTGGCTGAAG Usp39 mmu-miR-742 340 360 aaauGGGUCGUACCACCGAAAG | :|| :| ||||||||| ctgtCATAG-GTAGTGGCTTTC Usp39 mmu-miR-744 137 159 cgacaaUCGG---GAUCGGGGCgu |||| || ||||:| tgaaggAGCCTGTCT-GCCCTGat Usp39 mmu-miR-762 87 108 cgagacAGGGCCGGGGUCGGGg |:|| |||||||:|| gaaagaTTCCTGCCCCAGTCCa Usp39 mmu-miR-763 3 33 CGG--UGACC----AAGAAGGGU---CGACc ||| ::||| || |||||| |||| GCCTTGTTGGGTTTTTATTCCCAAGGGCTGt Usp39 mmu-miR-764-3p 336 361 ugucaACGGUG---AU-ACCGGAGGa ||:||: || ||||:|:| ccttcTGTCATAGGTAGTGGCTTTCc Usp39 mmu-miR-770-3p 174 196 GGUCGAGGUGCAGU-CCGGGUGc ||:|| |||||:: ||:| || CCGGCAGCACGTTGTGGTCGACa Usp39 mmu-miR-801 190 221 CAGCU-----AAGG---CGUGCGU-GUCGUuag ||||| |||| || ||| ||||| GTCGACACTCTTCCCTTTCA-GCATCAGCAggc Usp39 mmu-miR-92 378 398 guccggCCCUGUUCACGUUAu |||||: ||||:|| tcctgtGGGACGTGTGCGATg Usp39 mmu-miR-93 163 187 GAUG-GAC-GUGCUUGUCGUGAAAC ||:| ||| | | ::|||||| ||| CTGCGCTGTCTCCGGCAGCACGTTG

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Usp39 RAID00064400 mmu-miR-370-3p miRNA MIMAT0001095 Usp39 mRNA 28035 Prediction 0.2202 Usp39 RAID00303343 mmu-miR-7665-5p miRNA MIMAT0029836 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID00559505 mmu-miR-322-5p miRNA MIMAT0000548 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID00797185 mmu-miR-16-5p miRNA MIMAT0000527 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01053214 mmu-miR-7119-3p miRNA MIMAT0028136 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01513880 mmu-miR-15b-5p miRNA MIMAT0000124 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01630430 mmu-miR-26a-2-3p miRNA MIMAT0017058 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01659758 mmu-miR-142a-5p miRNA MIMAT0000154 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01729947 mmu-miR-693-5p miRNA MIMAT0003472 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01790651 mmu-miR-496a-3p miRNA MIMAT0003738 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID01950259 mmu-miR-340-5p miRNA MIMAT0004651 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02020058 mmu-miR-103-3p miRNA MIMAT0000546 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02232865 mmu-miR-378a-3p miRNA MIMAT0003151 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02278135 mmu-miR-185-5p miRNA MIMAT0000214 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02512737 mmu-miR-15a-5p miRNA MIMAT0000526 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02547557 mmu-miR-26b-3p miRNA MIMAT0004630 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02563441 mmu-miR-93-3p miRNA MIMAT0004636 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02634898 mmu-miR-143-3p miRNA MIMAT0000247 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID02784688 mmu-miR-195a-5p miRNA MIMAT0000225 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03050535 mmu-miR-497a-5p miRNA MIMAT0003453 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03157810 mmu-miR-6976-5p miRNA MIMAT0027854 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03304443 mmu-miR-7681-3p miRNA MIMAT0029883 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03314259 mmu-miR-107-3p miRNA MIMAT0000647 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03355617 mmu-miR-488-3p miRNA MIMAT0003450 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03370822 mmu-miR-6932-3p miRNA MIMAT0027765 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03412381 mmu-miR-374b-5p miRNA MIMAT0003727 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03571704 mmu-miR-29b-1-5p miRNA MIMAT0004523 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03672647 mmu-miR-7039-3p miRNA MIMAT0027983 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03728050 mmu-miR-205-5p miRNA MIMAT0000238 Usp39 mRNA 28035 Prediction 0.1828 Usp39 RAID03965173 mmu-miR-8092 miRNA MIMAT0031393 Usp39 mRNA 28035 Prediction 0.1828