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 MIMAT0000576 rno-miR-336 365751 Trim55 ucugaUCUAUACCUUCCCACu | || |||||||| gagaaACAUUCUGAAGGGUGu 2 17 246 266 [rn4:2:104762490-104762510:+] 0.5582 148 7 -15.94 -0.2141 MIMAT0003152 rno-miR-22* 365751 Trim55 auuucgaacggugacUUCUUGa |||||| aaaccaaaacaaaacAAGAACa 2 8 110 131 [rn4:2:104762354-104762375:+] 0.5582 120 6 -6.56 -0.1819 MIMAT0004714 rno-miR-26b* 365751 Trim55 cucgguucAUUAC--CUCUUGUcc | ||| |||||| gaaaaugaUUAUGCUCAGAACAaa 3 15 170 193 [rn4:2:104762414-104762437:+] 0.5582 121 0 -5.98 -0.1133 MIMAT0004732 rno-miR-135a* 365751 Trim55 aaaguaCCGAAG-GUAGGGAUGu ||:| | | ||||||| uauagaGGUUCCUCUUCCCUACa 2 17 485 507 [rn4:2:104762729-104762751:+] 0.5582 151 7 -21.94 -0.7247 MIMAT0003175 rno-miR-543* 365751 Trim55 ucuucacguggcgcUUACAAa |||||| ugaacuccuaaauaAAUGUUu 2 8 865 885 [rn4:2:104763109-104763129:+] 0.5581 120 6 -5.50 -0.2090 MIMAT0004791 rno-miR-379* 365751 Trim55 caaucaccUGGUACAAUGUAUc ||:|| ||||||| uuucuaauACUAU-UUACAUAu 2 15 603 623 [rn4:2:104762847-104762867:+] 0.5582 152 7 -7.88 -1.0701 MIMAT0003195 rno-miR-376b-5p 365751 Trim55 auuGGUAUCUUCCUUAUAGGUg :|||| | ||||||| aucUCAUA-AUCUUAUAUCCAu 2 20 622 642 [rn4:2:104762866-104762886:+] 0.5582 145 7 -11.85 -1.0503 MIMAT0005289 rno-miR-881 365751 Trim55 agAUAAGUCUUUACG-GUGUCAa ||||:| | || | |||||| ugUAUUUAAAUAUACACACAGUc 2 21 740 762 [rn4:2:104762984-104763006:+] 0.5192 136 6 -10.71 -0.2037 MIMAT0005328 rno-miR-673 365751 Trim55 gagguuccUGGCCUCGACACUc || |||||||| gcguguacACAUCAGCUGUGAg 2 15 278 299 [rn4:2:104762522-104762543:+] 0.5582 146 7 -18.89 -0.1062 MIMAT0005338 rno-miR-770 365751 Trim55 gcaCCGGGUCUGUGCACCACGa ||: :: | ::||||||| aagGGUGUGUAGGUGUGGUGCg 2 20 259 280 [rn4:2:104762503-104762524:+] 0.5582 151 7 -20.52 -0.3042 MIMAT0012828 rno-miR-362 365751 Trim55 uaAGUGUGGA--UCCAAGGU-UCCUAa || : ||| || | :|| ||||| ccUCUUCCCUACAGAUGUCACAGGAUg 2 23 495 521 [rn4:2:104762739-104762765:+] 0.5582 121 0 -11.21 -0.4628 MIMAT0012844 rno-miR-665 365751 Trim55 uccCUGGAGUCGGA-GGACCa | || | |:|| ||||| gcuGCCCCCUGUCUGCCUGGc 2 18 15 35 [rn4:2:104762259-104762279:+] 0.5582 121 0 -17.37 -0.3141 MIMAT0012850 rno-miR-465 365751 Trim55 guguggucguggcaaGAUUUAu |||||| acuuuaaaugaacucCUAAAUa 2 8 857 878 [rn4:2:104763101-104763122:+] 0.5581 120 6 -5.85 -0.1660 MIMAT0012856 rno-miR-759 365751 Trim55 cagUUUUAA---CAAACGUGAGACg |||||| | :|||||| acaAAAAUUACAGAAAAUACUCUGa 2 20 189 213 [rn4:2:104762433-104762457:+] 0.5582 130 6 -11.76 -0.1134 MIMAT0012860 rno-miR-496 365751 Trim55 cucuaaccgGUACAUUAUGAGu || ||||||| caaaaauuaCAGAAAAUACUCu 2 14 190 211 [rn4:2:104762434-104762455:+] 0.5582 141 7 -8.69 -1.0374 MIMAT0012860 rno-miR-496 365751 Trim55 cucuaaccgguACAUUAUGAgu | ||||||| uuagacauuuuUCUAAUACUau 3 12 594 615 [rn4:2:104762838-104762859:+] 0.5582 127 0 -5.37 -0.1277 MIMAT0000566 rno-miR-329 365751 Trim55 uuUUUCCAA-UCGACCCACACAa ||| || | |||||||| agAAACAUUCUGAAGGGUGUGUa 2 21 247 269 [rn4:2:104762491-104762513:+] 0.5582 151 7 -14.60 -0.4209 MIMAT0000602 rno-miR-20a 365751 Trim55 gaUGGACGUGAUAUUCGUGAAAu |:| ::: | |: |||||| auAUCCAUGUAACAGCCACUUUa 2 22 635 657 [rn4:2:104762879-104762901:+] 0.5582 121 6 -12.72 -0.1029 MIMAT0000611 rno-miR-135b 365751 Trim55 aguguaucCUUACUUUUCG-GUAu |: |||:|||| ||| gucugccuGGCUGAGAAGCACAUa 2 16 25 48 [rn4:2:104762269-104762292:+] 0.5582 123 0 -15.74 -0.2196 MIMAT0000781 rno-miR-9 365751 Trim55 agUAUGUC-GAUC--U-AUUGGUUUCu ||: || :|:| | |:||||||| auAUGGAGAUUGGUCACUGACCAAAGc 2 22 446 472 [rn4:2:104762690-104762716:+] 0.5582 150 7 -18.12 -0.1164 MIMAT0000786 rno-miR-17-5p 365751 Trim55 gaUGGACGUGACAUU---CGUGAAAc |: | || ||||| |||||| uuAUAUCCA-UGUAACAGCCACUUUa 2 22 633 657 [rn4:2:104762877-104762901:+] 0.5582 122 6 -10.22 -0.1029 MIMAT0000817 rno-miR-93 365751 Trim55 gaUGGACGUGC-UUGUC-GUGAAAc |: | ||:| ||||| |||||| uuAUAUCCAUGUAACAGCCACUUUa 2 22 633 657 [rn4:2:104762877-104762901:+] 0.5582 136 6 -17.96 -1.0776 MIMAT0000825 rno-miR-106b 365751 Trim55 uagacgugacagucGUGAAAu |||||| auccauguaacagcCACUUUa 2 8 637 657 [rn4:2:104762881-104762901:+] 0.5582 120 6 -13.29 -0.1029 MIMAT0000828 rno-miR-124 365751 Trim55 ccguaaGUGGCGCACGGAAu |||: |||||||| uucggaCACU-CGUGCCUUu 2 15 356 374 [rn4:2:104762600-104762618:+] 0.5582 152 7 -21.72 -0.4597 MIMAT0000842 rno-miR-136 365751 Trim55 agGU-AGUAGUUUUGUUUACCUCa || |:|||||| | |||||| ccCAUUUAUCAAA--AUAUGGAGa 2 22 433 454 [rn4:2:104762677-104762698:+] 0.5582 137 6 -21.39 -0.1009 MIMAT0000862 rno-miR-185 365751 Trim55 aguccuuGACGGAAAGAGAGGu || ||| ||||||| ucucccuCU-CCUCUCUCUCCc 2 16 788 808 [rn4:2:104763032-104763052:+] 0.4801 153 7 -17.45 -0.1257 MIMAT0000862 rno-miR-185 365751 Trim55 aguccuugaCGGAA-AGAGAGGu ||:|| ||||||| ccccugugcGCUUUCUCUCUCCc 2 14 765 787 [rn4:2:104763009-104763031:+] 0.4801 152 7 -17.79 -0.1818 MIMAT0000862 rno-miR-185 365751 Trim55 aguccuuGACGGAA---AGAGAGGu || |||| ||||||| ccccucuCUCCCUUCUCUCUCUCCa 2 16 806 830 [rn4:2:104763050-104763074:+] 0.4801 150 7 -19.06 -0.5934 MIMAT0000862 rno-miR-185 365751 Trim55 aguccuuGACGGAAAGAGAGGu || || ||||||| ccucucuCU-CCCCUCUCUCCc 2 16 797 817 [rn4:2:104763041-104763061:+] 0.4801 145 7 -15.42 -0.1499 MIMAT0000863 rno-miR-186 365751 Trim55 ucggguuuUCCUCUUAAGAAAc |||: |||||||| aaaggucuAGGGCAAUUCUUUa 2 15 575 596 [rn4:2:104762819-104762840:+] 0.5582 158 7 -15.72 -0.6986 MIMAT0000865 rno-miR-190 365751 Trim55 ugGAUUAU-AUAGUUUGUAUAGu |||||| |||: ||||||| uuCUAAUACUAUU-UACAUAUCu 2 21 604 625 [rn4:2:104762848-104762869:+] 0.5582 165 7 -14.86 -1.1838 MIMAT0000885 rno-miR-214 365751 Trim55 gacGGACAGACACGGA-CGACa |||||| ||||| |||| cccCCUGUC--UGCCUGGCUGa 2 19 19 38 [rn4:2:104762263-104762282:+] 0.5582 131 0 -24.40 -0.3979 MIMAT0000888 rno-miR-218 365751 Trim55 uguACCAAUCUAGUUCGUGUu ||| | || ||||||| gccUGGCU-GA-GAAGCACAu 2 19 29 47 [rn4:2:104762273-104762291:+] 0.5582 146 7 -13.75 -0.1575 MIMAT0000892 rno-miR-223 365751 Trim55 cccCA-UAAACUGUUUGACUGu || | || | :||||||| aguGUCAGUUCA-GAACUGACc 2 19 414 434 [rn4:2:104762658-104762678:+] 0.5582 147 7 -11.58 -0.1517 MIMAT0000903 rno-miR-320 365751 Trim55 agcGGGAGAGUUGGGU-CGAAAa ::||||| :||| ||||| cccUUCUCUCUCUCCAUGCUUUc 2 20 815 837 [rn4:2:104763059-104763081:+] 0.4801 131 0 -21.55 -0.4005 MIMAT0003211 rno-miR-20b-5p 365751 Trim55 uggacgugauacucGUGAAAc |||||| auccauguaacagcCACUUUa 2 8 637 657 [rn4:2:104762881-104762901:+] 0.5582 120 6 -10.22 -0.1029 MIMAT0003379 rno-miR-378 365751 Trim55 ggaagacuGAGGU-UCAGGUCa :|||| ||||||| ggccacacUUCCAUAGUCCAGa 2 14 548 569 [rn4:2:104762792-104762813:+] 0.5582 152 7 -19.74 -0.9015 MIMAT0005302 rno-miR-190b 365751 Trim55 uuGGAUUAUAGU--UUGUAUAGu :|||||| :| ||||||| uuUCUAAUACUAUUUACAUAUCu 2 20 603 625 [rn4:2:104762847-104762869:+] 0.5582 158 7 -13.66 -1.1821 MIMAT0005307 rno-miR-375 365751 Trim55 agugcgcucggcuugCUUGUUu |||||| aaaugauuaugcucaGAACAAa 2 8 172 193 [rn4:2:104762416-104762437:+] 0.5582 120 6 -11.21 -0.1272 MIMAT0005311 rno-miR-410 365751 Trim55 uguccgguagacacAAUAUAa |||||| cauaucucauaaucUUAUAUc 2 8 619 639 [rn4:2:104762863-104762883:+] 0.5582 120 6 -4.48 -0.1115 MIMAT0005312 rno-miR-411 365751 Trim55 gcaugcgauaUGCCAGAUGAu || ||||||| ucugggaggaACUGUCUACUu 2 12 669 689 [rn4:2:104762913-104762933:+] 0.5582 147 7 -11.74 -0.6357

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G101515 Trim55 Rattus norvegicus 365751

DNA & RNA Element - miRNAMap Gene Name Mature miRNA Target Start Target End miRNA 3-5 Alignment Target 5-3 Trim55; Murf2; Rnf29 rno-let-7a 892 923 -UUGAU--AUGUU----GGA-UGAUGGAGU- |:||: |:||: || :||:||||| GAGCUGGCUGCAGAGAUCCAGGCUGCCUCAG Trim55; Murf2; Rnf29 rno-let-7d 893 922 -UGAU--ACGUU----GGA-UGAUGGAGA :||: ||||: || :||:|||| AGCUGGCUGCAGAGAUCCAGGCUGCCUCA Trim55; Murf2; Rnf29 rno-let-7f 892 923 -UUGAU--AUGU---UAGA--UGAUGGAGU- |:||: |:|| ||| :||:||||| GAGCUGGCUGCAGAGAUCCAGGCUGCCUCAG Trim55; Murf2; Rnf29 rno-let-7i 897 923 -UGUCGUGUUUGA---UGAUGGAGU- :| ||| |:|: :||:||||| GGCUGCAGAGAUCCAGGCUGCCUCAG Trim55; Murf2; Rnf29 rno-miR-100 224 255 -GUGUUCAAG---------CCUAGAUGCCCAA- ||| ||| ||| |:|||||| ACAC-AGUGACCAUUGAGAGGAG-UGCGGGUUA Trim55; Murf2; Rnf29 rno-miR-101a 358 379 GAAGUCAA---UAGUGUCAUGACAU |||| |||: |||:||| --ACAGUGACCAUCG-AGUGCUGC- Trim55; Murf2; Rnf29 rno-miR-103 880 904 AGUAUCGGGA--CAUGUUACGACGA || |||||| | :| ||||| GCAGAGCCCUCUGAGCUG-GCUGCA Trim55; Murf2; Rnf29 rno-miR-106b 1290 1307 -UAGACGUGACAGUCGUGAAAU |||||| || ||||||| AAUCUGC-CU---AGCACUUC- Trim55; Murf2; Rnf29 rno-miR-10a 972 997 GUGUUUAA---GCCUAGAUGUCCCAU :||:|| :|| |||||| UGCAGAUGUCCUGGUGACACAGGGG- Trim55; Murf2; Rnf29 rno-miR-122a 1121 1141 UGUUU-GUGGUAACAGUGUGAGGU ||| |||| ||||||||| CCAACCCACC----UCACACUCCU Trim55; Murf2; Rnf29 rno-miR-125b 540 562 -AGUGUUCAAUC-CCAGAGUCCCU ||| |||||:| || ||||| AUCA-AAGUUGGUGGAGUCAGGA- Trim55; Murf2; Rnf29 rno-miR-127 1463 1482 -UCGGUUCGAGUCUGCCUAGGCU |||||||: || |||||| UAGCCAAGUCCA---GGAUCCU- Trim55; Murf2; Rnf29 rno-miR-128a 337 366 -UUUUCUCUGG-CCAA----GUGACACU- |:|:||| | |||| ||| |||| GAGAGGAGUGCAGGUUACUACACAGUGAC Trim55; Murf2; Rnf29 rno-miR-128b 338 366 CUUUCUCUGG-CCAA----GUGACACU- :|:||| | |||| ||| |||| AGAGGAGUGCAGGUUACUACACAGUGAC Trim55; Murf2; Rnf29 rno-miR-129 879 909 UCGU-UCGGGU-------CUGGCGUUUUUC ||| ||||| |:|:|||:|:| UGCAGAGCCCUCUGAGCUGGCUGCAGAGAU Trim55; Murf2; Rnf29 rno-miR-129* 1141 1154 UACGAAAAACCCCAUUCCCGAA |||||:| ||: --------GGGGGUGAAGGUC- Trim55; Murf2; Rnf29 rno-miR-136 844 866 AGGUAGUAGUUUUGUUUACCUCA ||||||||::| ||: |||| -GCAUCAUCAGGAGAAGAGGAGA Trim55; Murf2; Rnf29 rno-miR-138 1492 1504 CUAAGUGUUGUGGUCGA- ::|||||||| ------AGGCACCAGCUA Trim55; Murf2; Rnf29 rno-miR-140* 1070 1096 ACAGGCACCAAGAUGGGA-CA-CCAU- ||| |||:|||||| || |||| -AUCCCUUGUUUUACCCUAGUUGGUAU Trim55; Murf2; Rnf29 rno-miR-141 331 365 -GGUAGA-------------AAUGGUCUGUCACAAU ||||| ||||:| |||||| ACCAUCGAGAGGAGUGCAGGUUACUACACAGUGA-- Trim55; Murf2; Rnf29 rno-miR-146 552 572 -UUGGGUACCUUAAGUCAAGAGU :| :|| ||||| |||||| GGAGUCA-GGAAUCCAGUUCA-- Trim55; Murf2; Rnf29 rno-miR-148b 989 1015 -UGUUUCAAGACACUACG--UGACU- |||::| |||:||| ||||| CACAGGGGGAGGUGGUGCCCACUGAC Trim55; Murf2; Rnf29 rno-miR-150 981 1005 GUGACCA---UGUUCCCAACC-CUCU ||||| |||:||| || |: -CCUGGUGACACAGGGGGAGGUGGU- Trim55; Murf2; Rnf29 rno-miR-15b 360 380 ACAUUUGGUA-CUACACGACGAU || :||||| || ||||||| AGU-GACCAUCGA-GUGCUGCA- Trim55; Murf2; Rnf29 rno-miR-16 1166 1182 GCGGUUAUAAAUGCACGACGAU- ||| || ||||||: GGCCUU------CG-GCUGCUGA Trim55; Murf2; Rnf29 rno-miR-17 1269 1310 -UGAUGGA-----------CGU--GACAU-UCGUGAA-AC :|||||| ||| ||| ||||||| || AGCUACCUCUCAGGAGUUAGCAAUCUGCCUAGCACUUCUGG Trim55; Murf2; Rnf29 rno-miR-18 1290 1307 AUAGACGUGAUCUACGUGGAAU |||||| ||| ||||:| AAUCUGC-CUA---GCACUUC- Trim55; Murf2; Rnf29 rno-miR-181a 1229 1248 UGAGUGGCUGUCGCAACUUACAA :| |:|||| |||:|| ---AGCAGGCAGCAGUGAGUGG- Trim55; Murf2; Rnf29 rno-miR-181b 1216 1248 GGGUGG-----------CUGUCGUUACUUACAA ||:| |:|||||:|||:|| GCCGCAGCCAAUGAGCAGGCAGCAGUGAGUGG- Trim55; Murf2; Rnf29 rno-miR-183 342 370 GUCAC--UUAA-GAUG-GUCAC-GGUAU |||| ::|| |||| ||||| |||| GAGUGCAGGUUACUACACAGUGACCAUC Trim55; Murf2; Rnf29 rno-miR-185 911 947 CUUGACGGA-------------AA----GAGAGGU- ::|||||| | ||||||| AGGCUGCCUCAGGGCCACUACUUGCUUCCUCUCCAG Trim55; Murf2; Rnf29 rno-miR-191 1172 1190 -UCGACGAAAACCCUAAGGCAAC :|||||| ||||||| CGGCUGCUGA--GGAUUCCA--- Trim55; Murf2; Rnf29 rno-miR-200a 310 332 -UGUAG-CAAUGGUCUGUCACAAU :||| |||||:| |||||| AGCAUAGGUUACUAUACAGUGA-- Trim55; Murf2; Rnf29 rno-miR-200b 554 598 -CAGU----------AGUAA-----UGGU-----CCGUCAUAAU |||| |||| :||| ||||||:|| AGUCAGGAAUCCAGUUCAUGGAUGAGCCAGAAAUGGCAGUGUUU Trim55; Murf2; Rnf29 rno-miR-200c 563 598 -GGU--AGUAA-----UGGG-----CCGUCAUAAU ||| |||| :|| ||||||:|| UCCAGUUCAUGGAUGAGCCAGAAAUGGCAGUGUUU Trim55; Murf2; Rnf29 rno-miR-205 1131 1153 -GUCUGAGGCCACCUUACUUCCU || ||||| | || |||||| UCACACUCCUG-GGGGUGAAGGU Trim55; Murf2; Rnf29 rno-miR-207 790 820 -UUCC-C-UCCUCUCG---GUCCUCUUCG- |||| | ||||||| ||| |||||: GAAGGAGAAGGAGAGGAUGCAGUAGAAGUA Trim55; Murf2; Rnf29 rno-miR-20a 1292 1319 -GAUGGA-CGUGAUAUUCGU---GAAAU ||:||| ||||| :|| ||| UCUGCCUAGCACUUCUGGCUUUUCUUA- Trim55; Murf2; Rnf29 rno-miR-20b 1290 1310 -UGGACGUGAUACUCGUGAA-AC- |:|||| || ||||||| || AAUCUGC-CU---AGCACUUCUGG Trim55; Murf2; Rnf29 rno-miR-20b* 1249 1272 GUCUUCA---CGAGUGUGACGUCA ||:||| |:||| ||||||| AAGGAGUCUAGUUCA-ACUGCAGC Trim55; Murf2; Rnf29 rno-miR-211 972 1001 UCCGUUUC-----CUACUGU--UUCCCUU- |||:| |:||||| ::||||: -UGCAGAUGUCCUGGUGACACAGGGGGAGG Trim55; Murf2; Rnf29 rno-miR-214 884 903 GACGGACAGACACGGACGACA ||| |||| ||: |||| -AGCCC-UCUGAGCUGGCUGC Trim55; Murf2; Rnf29 rno-miR-216 26 45 -GUGUCAACGGUCGACUCUAAU ||::|| |||| :||||| ACAUGGUGGCCA-UUGAGAG-- Trim55; Murf2; Rnf29 rno-miR-217 941 978 UAGGUC--AGUCAA------------GGACUACGUCAU ||||| |||||| |||| ||||| CUCCAGAUUCAGUUUCAUCCCUGCCACCUGCUGCAGA- Trim55; Murf2; Rnf29 rno-miR-218 25 54 -UGUACCAA-------UCUAGUUCGUGUU- ||||||| ||| :||||||: UACAUGGUGGCCAUUGAGAG-GAGCACAGG Trim55; Murf2; Rnf29 rno-miR-22 1236 1274 -UGUCA-------------AGA---AGUUGACCGUCGAA :|||| ||| ||||||| ||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUG-CAGCUA Trim55; Murf2; Rnf29 rno-miR-221 1212 1233 -CUUUGGGUCGUCUGUUACAUCGA |||:|| |||| ||||| ||| AGAAGCC--GCAGCCAAUG-AGCA Trim55; Murf2; Rnf29 rno-miR-223 992 1016 -CCCCAUAAAC--UGUUUGACUGU |||| || :| |||||| AGGGGGAGGUGGUGCCCACUGACU Trim55; Murf2; Rnf29 rno-miR-25 325 351 AGUC-----UGGCUCUGUUCACGUUAC ||| |:||||| :||||||: ACAGUGACCAUCGAGAGGAGUGCAGG- Trim55; Murf2; Rnf29 rno-miR-291-3p 1406 1432 CCGUGUGU-----UUCACCUUCGUGAAA ||||||| :||| |||||||| UGCACACACUUGUGAGU-GAAGCACUC- Trim55; Murf2; Rnf29 rno-miR-296 989 1010 -UGUCCUAACUCCCCCCCGGGA ||||| |||| || |||| CACAGGGG-GAGGUGGUGCCCA Trim55; Murf2; Rnf29 rno-miR-298 860 904 CCUUCU--------------UG--UCGGGAGGA------GACGG |:||| :| |||||||: |||| AGGAGACUCUGGAAAAAGCUGCAGAGCCCUCUGAGCUGGCUGCA Trim55; Murf2; Rnf29 rno-miR-29b 986 1008 -UUGUGACUAAAGUUUACCACGAU :|||| |: |::|||||| UGACACAGGGGG-AGGUGGUGCC- Trim55; Murf2; Rnf29 rno-miR-31 1267 1300 -GUCGAUA---------CGGUCGU-AGAACGGA- |||||| |::|||| ||| |||| GCAGCUACCUCUCAGGAGUUAGCAAUCU-GCCUA Trim55; Murf2; Rnf29 rno-miR-324-3p 980 1005 -GGUCGUC-GUGGACCCCGUCACC- || | | ||| |||| :|||| UCCUGGUGACACAGGGGGAGGUGGU Trim55; Murf2; Rnf29 rno-miR-324-5p 969 1004 -UGUGGU-UACGGGA---------UCCCCUACGC- :| || |||:||| :||||| |:| UGCUGCAGAUGUCCUGGUGACACAGGGGGAGGUGG Trim55; Murf2; Rnf29 rno-miR-325 1410 1439 -UGUGAA---UGAC-UCGUG-GAUGAUCC |||||| | || ||||| |||||:| CACACUUGUGAGUGAAGCACUCUACUGGC Trim55; Murf2; Rnf29 rno-miR-328 27 54 -UGCCUUCCCGU---CUCUCC-CG-GUC- |:|| ||| |||||| || ||| CAUGGU--GGCCAUUGAGAGGAGCACAGG Trim55; Murf2; Rnf29 rno-miR-331 1138 1170 AAGAUCCUA---UCCGGG-UC-------CCCG- ||:||: |||:|: || |||| -CCUGGGGGUGAAGGUCUGAGUCAAAUAGGGCC Trim55; Murf2; Rnf29 rno-miR-333 995 1030 -UUUUCA----------UUGA---UCGUGUGGUG- ::|:|| :||| |||| ||||| GGGAGGUGGUGCCCACUGACUCUCAGCAGACCACA Trim55; Murf2; Rnf29 rno-miR-338 879 900 AGUUGUUUUAGU-GACUACGACCU :||:|: |||| ||||| --UGCAGAGCCCUCUGA-GCUGGC Trim55; Murf2; Rnf29 rno-miR-339 423 443 ACUCG-AGGACCUCCUGUCCCU ||| |||||||||| ||| -UAGCAUCCUGGAGGAGAGGA- Trim55; Murf2; Rnf29 rno-miR-340 320 345 CCGAUAUUUCAUUGA---CUCUGCCU- ||||| |||:|| |||| ||| -ACUAUACAGUGACCAUCGAGA-GGAG Trim55; Murf2; Rnf29 rno-miR-342 368 408 CUGCCCACG-----------CUAAA-----GACACACUCU || |||| || |||||||||| -UCGAGUGCUGCAGAAAGCAGAAACAGGACCUGUGUGAGAA Trim55; Murf2; Rnf29 rno-miR-343 981 1002 AGACC-CGUGUGCCUCCCUCU- |||| | |||| |:|||||: CCUGGUG-ACACAGGGGGAGGU Trim55; Murf2; Rnf29 rno-miR-346 991 1027 -UCUCCGUCCG-----------UGAGUC-CGUCUGU ||:|| |||: |||| |||||| CAGGGGGAGGUGGUGCCCACUGACUCUCAGCAGACC Trim55; Murf2; Rnf29 rno-miR-347 983 1000 ACCCGCUGGGUCUCCCUGU ||:||| |||:|||| -UGGUGACACAGGGGGAG- Trim55; Murf2; Rnf29 rno-miR-349 1140 1170 -UCUCCA-------AUUCUGUC-GUCCCGAC :|:||| |:|| || :||||| UGGGGGUGAAGGUCUGAGUCAAAUAGGGCC- Trim55; Murf2; Rnf29 rno-miR-34a 892 920 UUGUUGGUCGA---UUCUG----UGACGGU |:|::||| :|||: :||||| --GAGCUGGCUGCAGAGAUCCAGGCUGCCU Trim55; Murf2; Rnf29 rno-miR-34b 1267 1301 GUUAGUCGAU----------UAAU-GU--GACGGAU- |||||| :||| || ||||||| ---GCAGCUACCUCUCAGGAGUUAGCAAUCUGCCUAG Trim55; Murf2; Rnf29 rno-miR-34c 879 921 -CGUU-------AGUCGAUUGAUG----------UGACGGA |||: | ||||::||:| :|||||| UGCAGAGCCCUCUGAGCUGGCUGCAGAGAUCCAGGCUGCCUC Trim55; Murf2; Rnf29 rno-miR-351 896 926 GUCCGA-GUUUC-----CCGA-GGAGUCCCU |||| ||:|| |||| |||||||| -UGGCUGCAGAGAUCCAGGCUGCCUCAGGGC Trim55; Murf2; Rnf29 rno-miR-361 1134 1158 CAUGGGGACCUCUA-----AGACUAUU ||:|||||:|:| ||||| -CACUCCUGGGGGUGAAGGUCUGAG-- Trim55; Murf2; Rnf29 rno-miR-377 384 406 GGUUUUCAA-C-GGAAACACACUA ||:|| | || ||||||| GCAGAAACAGGACC--UGUGUGAG Trim55; Murf2; Rnf29 rno-miR-382 681 698 CUUAGGUGGUGCUUGUUGAAG- |:||:|||||||||| -----GAUCAUGAACAACUUCA Trim55; Murf2; Rnf29 rno-miR-382* 727 744 UUCACAACAGGCACUU--ACUAA- |||||||| ||||| -------AUCCGUGAAAUUGAUUU Trim55; Murf2; Rnf29 rno-miR-383 875 898 -UCGGUGUCAGUGGAAGACUAGA- |||::||| :|| ||||| || AAGCUGCAGA-GCCCUCUGAGCUG Trim55; Murf2; Rnf29 rno-miR-412 1171 1200 UGCCGAUCA--CCU--GGUC-CACUUCA- |||||: ||| |||| ||| ||| UCGGCUGCUGAGGAUUCCAGUGUGCAGUC Trim55; Murf2; Rnf29 rno-miR-422b 1166 1193 -CGGAAGACUGA-GGUUC---AGGUCA- |||||| |:|| |::|| |||||| GGCCUUC-GGCUGCUGAGGAUUCCAGUG Trim55; Murf2; Rnf29 rno-miR-429 570 598 -UGCCGUAAUGGUC-----UGUCAUAAU |:|| :|||| :||||:|| CAUGGAUGAGCCAGAAAUGGCAGUGUUU Trim55; Murf2; Rnf29 rno-miR-483 972 1007 -UGUUCUGC----CC-------UCCCCUCC-UCACU :| |||:| || :||||||| :||| UGC-AGAUGUCCUGGUGACACAGGGGGAGGUGGUGC Trim55; Murf2; Rnf29 rno-miR-485 918 940 CUUAAGUAGUGCCGGU------CGGAGA ||| ||||| ||:|| ------CUCAGGGCCACUACUUGCUUCC Trim55; Murf2; Rnf29 rno-miR-493 348 372 GACCG----UGUGUCAUCUGGAAGU- ||: ||||||| |||| ||: -AGGUUACUACACAGU-GACCAUCGA Trim55; Murf2; Rnf29 rno-miR-497 357 380 AUGU--UUGGUGUCACACGACGAC ||| :||||: | ||||||| CACAGUGACCAUCGAGUGCUGCA- Trim55; Murf2; Rnf29 rno-miR-503 949 976 -GUCAU------GACAA-GGGCGACGAU |||| ||| ||:||||| UCAGUUUCAUCCCUGCCACCUGCUGCA- Trim55; Murf2; Rnf29 rno-miR-92 1172 1200 GUCCGGC----CCUGUU----CACGUUAU |||:| |||: |||||:| -CGGCUGCUGAGGAUUCCAGUGUGCAGUC Trim55; Murf2; Rnf29 rno-miR-93 1270 1310 -GAUGGAC-GUGCUU-------------GUCGUGAA-AC- |||||| || ||: :||||||| || GCUACCUCUCAGGAGUUAGCAAUCUGCCUAGCACUUCUGG Trim55; Murf2; Rnf29 rno-miR-96 972 996 UCGUUUUUACACGAUCACG--GUUU- ||| :|||| ||:||| ||:: UGCA--GAUGUCCUGGUGACACAGGG Trim55; Murf2; Rnf29 rno-miR-98 1256 1279 UUGUUAUGUUGAA--UGAUGGAGU :|:| ||||| :||||||| -CUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-miR-99a 224 255 -GUGUU-CUAG-------CCUAGAUGCCCAA- ||||: || ||| |:|||||| ACACAGUGACCAUUGAGAGGAG-UGCGGGUUA Trim55; Murf2; Rnf29 rno-let-7a 1254 1278 uuGAU-AUGUUG--GAUGAUGGAGu ||| | |||| | :||||||| gtCTAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7a 893 921 UUGAU--AUGU---UGGAU--GAUGGAGU |:||: |:|| |:| | ||:||||| AGCTGGCTGCAGAGATCCAGGCTGCCTCA Trim55; Murf2; Rnf29 rno-let-7a 921 944 uugauaUGUUGGAUGAUGGAGU-- || ||:|:|| |||| agggccACTACTTGCTTCCTCTCC Trim55; Murf2; Rnf29 rno-let-7b 1255 1278 uugguguGUUG--GAUGAUGGAGu |||| | :||||||| tctagttCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7c 1254 1278 uuGGU-AUGUUG--GAUGAUGGAGu |:| | |||| | :||||||| gtCTAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7d 1255 1278 uGAU-ACGUUG--GAUGAUGGAGA ||| | |||| | :|||||||| tCTAGTTCAACTGCAGCTACCTCT Trim55; Murf2; Rnf29 rno-let-7d 896 921 ugauACGU---UGGAU--GAUGGAGa |||| |:| | ||:|||| tggcTGCAGAGATCCAGGCTGCCTCa Trim55; Murf2; Rnf29 rno-let-7e 1255 1278 uGAU-AUGUUGGAG--GAUGGAGu ||| | ||||: | ||||||| tCTAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7f 1254 1278 uuGAU-AUGUU-A-GAUGAUGGAGu ||| | ||| | | :||||||| gtCTAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7f 893 921 UUGAU--AUGU---UAGAU--GAUGGAGU |:||: |:|| ||| | ||:||||| AGCTGGCTGCAGAGATCCAGGCTGCCTCA Trim55; Murf2; Rnf29 rno-let-7i 1256 1278 ugUCGUGUU--UGAUGAUGGAGu ||: ||| :| :||||||| ctAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-let-7i 898 921 uGUCGUGUUU-GAU--GAUGGAGU | ||| |:| | | ||:||||| gCTGCAGAGATCCAGGCTGCCTCA Trim55; Murf2; Rnf29 rno-let-7i 919 943 uGUC---GUGUUUGAUGAUGGAGU- ||| ||| | :|:|| |||| tCAGGGCCACTACTTGCTTCCTCTC Trim55; Murf2; Rnf29 rno-miR-100 233 253 guguucaagCCUAGAUGCCCAA ||| |:|||||| ccattgagaGGA-GTGCGGGTT Trim55; Murf2; Rnf29 rno-miR-101a 356 379 gaaGUCAAUAGU-G-UCAUGACau |||| | || | |||:||| acaCAGTGACCATCGAGTGCTGca Trim55; Murf2; Rnf29 rno-miR-103 859 882 aguaUC-GGGACAUGUUACGACGa || |:||| | || ||||| gaggAGACTCTGGAAAAAGCTGCa Trim55; Murf2; Rnf29 rno-miR-103 889 918 AGUAUCGG--GACAU-----GUUACGACGa || |||: ||| | | | ||||| TCTGAGCTGGCTGCAGAGATCCAGGCTGCc Trim55; Murf2; Rnf29 rno-miR-106b 1291 1307 UAGACGUGACAGUCGUGAAau |||||| || ||||||| ATCTGC-CT---AGCACTTct Trim55; Murf2; Rnf29 rno-miR-10a 972 997 guGUUUA-AG--CCUAGAUGUCCCau ||:|| || || |||||| tgCAGATGTCCTGGTGACACAGGGgg Trim55; Murf2; Rnf29 rno-miR-122a 1120 1140 uGUUUGUGGUAACAGUGUGAGGu | ||| ||| ||||||||| tCCAAC-CCA-CCTCACACTCCt Trim55; Murf2; Rnf29 rno-miR-125a 900 925 guGUC-CAAUUUCC--CAGAGUCCCu ||| | | ||| | ||||||| tgCAGAGATCCAGGCTGCCTCAGGGc Trim55; Murf2; Rnf29 rno-miR-125b 901 925 aGUGUUCAA--UCC--CAGAGUCCCu || :|| | ||| | ||||||| gCA-GAGATCCAGGCTGCCTCAGGGc Trim55; Murf2; Rnf29 rno-miR-125b 541 562 AGUGUUCAAUC-CCAGAGUCCcu ||| |||||:| || ||||| TCA-AAGTTGGTGGAGTCAGGaa Trim55; Murf2; Rnf29 rno-miR-127 1464 1482 UCGGUUCGAGUCUGCCUAGGcu |||||||: || |||||| AGCCAAGTCCA---GGATCCtt Trim55; Murf2; Rnf29 rno-miR-128a 338 364 UUUUCUC-UGGCCAA----GUGACACU |:|:||| :| |||| ||| |||| AGAGGAGTGCAGGTTACTACACAGTGA Trim55; Murf2; Rnf29 rno-miR-128b 337 364 CU-UUCUC-UGGCCAA----GUGACACU || |:||| :| |||| ||| |||| GAGAGGAGTGCAGGTTACTACACAGTGA Trim55; Murf2; Rnf29 rno-miR-129* 1133 1155 uacGAAAAACCCCA-UUCCCGAa || | ||||| |||| || acaCTCCTGGGGGTGAAGGTCTg Trim55; Murf2; Rnf29 rno-miR-136 843 865 agGUAGUAGUUUUGUUUACCUCa ||||||||::| ||: |||| agCATCATCAGGAGAAGAGGAGa Trim55; Murf2; Rnf29 rno-miR-138 1484 1502 CUAAGUGUU--GUGGUCGA || :| || |||||||| GAGCTAAAAGGCACCAGCT Trim55; Murf2; Rnf29 rno-miR-140* 1069 1094 acAGGCACCAAGAUGGGA-C-ACCAU ||| | |||:|||||| | ||||| gaTCCCTTGTTTTACCCTAGTTGGTA Trim55; Murf2; Rnf29 rno-miR-141 571 597 gguagaaauGGUCU-----GUCACAAu ||||| ||||||| atggatgagCCAGAAATGGCAGTGTTt Trim55; Murf2; Rnf29 rno-miR-141 312 333 gguagaAAUGGUCUGUCACaau ||||:| |||||| cataggTTACTATACAGTGacc Trim55; Murf2; Rnf29 rno-miR-141 345 366 gguagaAAUGGUCUGUCACaau ||||:| |||||| tgcaggTTACTACACAGTGacc Trim55; Murf2; Rnf29 rno-miR-146 553 573 uUGGGUACCUUAAGUCAAGagu | :|| ||||| |||||| gAGTCA-GGAATCCAGTTCatg Trim55; Murf2; Rnf29 rno-miR-148b 990 1013 UGUUUCAAGACACUAC--GUGACU |||::| |||:|| |||||| ACAGGGGGAGGTGGTGCCCACTGA Trim55; Murf2; Rnf29 rno-miR-150 980 1000 guGACCA-UGU-UCCCAACCCUCu ||||| ||| ||| ||||| tcCTGGTGACACAGG---GGGAGg Trim55; Murf2; Rnf29 rno-miR-151 1235 1260 ggaGUUCCUCGGAG----UCAGAUCA ||: |||: : |||||||| cagCAGTGAGTGGTAAGGAGTCTAGT Trim55; Murf2; Rnf29 rno-miR-15b 360 380 aCAUUUGGUACUACACGACGau || :||||| : ||||||| aGT-GACCATCGAGTGCTGCag Trim55; Murf2; Rnf29 rno-miR-16 1159 1180 gcgguuauaaaugcaCGACGAu |||||| caaatagggccttcgGCTGCTg Trim55; Murf2; Rnf29 rno-miR-17 1288 1307 uGAUGGACGUGACAUUCGUGAAac | |:|||| || ||||||| gCAATCTGC-CT---AGCACTTct Trim55; Murf2; Rnf29 rno-miR-18 1290 1307 aUAGACGUGAUCUACGUGGAau |||||| ||| ||||:| aATCTGC-CTA---GCACTTct Trim55; Murf2; Rnf29 rno-miR-181a 1226 1248 ugaguGGCUGUCGCAACUUACaa | |:|||| |||:|| atgagCAGGCAGCAGTGAGTGgt Trim55; Murf2; Rnf29 rno-miR-181b 1227 1248 ggguGGCUGUCGUUACUUACaa | |:|||||:|||:|| tgagCAGGCAGCAGTGAGTGgt Trim55; Murf2; Rnf29 rno-miR-185 928 945 cuUGACGGAAAGAGAGGU ||| ||| ||||||| ctACTTGCTTCCTCTCCA Trim55; Murf2; Rnf29 rno-miR-191 1173 1193 uCGACGAAAAC-CCUAAGG-CAac ||||| || ||||||| || gGCTGC---TGAGGATTCCAGTgt Trim55; Murf2; Rnf29 rno-miR-200a 569 597 uGUAGCAA--UGGUCU-----GUCACAAu ||| | | :||||| ||||||| tCATGGATGAGCCAGAAATGGCAGTGTTt Trim55; Murf2; Rnf29 rno-miR-200a 311 333 uGUA-GCAAUGGUCUGUCACaau ||| |||||:| |||||| gCATAGGTTACTATACAGTGacc Trim55; Murf2; Rnf29 rno-miR-200b 568 597 cAGUA-GUAAU-GGU-----CCGUCAUAAu |||| || | ||| ||||||:|| tTCATGGATGAGCCAGAAATGGCAGTGTTt Trim55; Murf2; Rnf29 rno-miR-200c 569 597 gGUA-GUAAUGGG------CCGUCAUAAu ||| || | || ||||||:|| tCATGGATGAGCCAGAAATGGCAGTGTTt Trim55; Murf2; Rnf29 rno-miR-205 1132 1152 GUCUGAGGCCACCUUACUUCCu || ||||| | ||::|||||| CACACTCCTG-GGGGTGAAGGt Trim55; Murf2; Rnf29 rno-miR-207 752 782 UUC-CCUCCU-C-UCGG-----UCCUCUUCg ||| ||| || | || | |||||||| AAGAGGAAGATGAAGACGATGAAGGAGAAGt Trim55; Murf2; Rnf29 rno-miR-207 838 860 uUCCCUCCUCUCGGUCCUCUUCg | | || | :||||||||| cAAGTAGCATCATCAGGAGAAGa Trim55; Murf2; Rnf29 rno-miR-207 787 806 uUCCCUCCUCUCGGUCCUCUUCg | | |||||| ||||||:| gAAGAAGGAGA---AGGAGAGGa Trim55; Murf2; Rnf29 rno-miR-20a 1289 1307 GAUGGACGUGAUAUUCGUGAAau | |:|||| || ||||||| CAATCTGC-CT---AGCACTTct Trim55; Murf2; Rnf29 rno-miR-20b 1291 1307 UGGACGUGAUACUCGUGAAac |:|||| || ||||||| ATCTGC-CT---AGCACTTct Trim55; Murf2; Rnf29 rno-miR-20b* 1249 1271 gUCUUCA---CGAGUGUGACGUCa ||:||| |:||| ||||||| aAGGAGTCTAGTTCA-ACTGCAGc Trim55; Murf2; Rnf29 rno-miR-211 971 999 ucCGUUU-C----CUAC--UGUUUCCCUu |||:| | |:|| |||::|||| ctGCAGATGTCCTGGTGACACAGGGGGAg Trim55; Murf2; Rnf29 rno-miR-214 957 974 gACGGACAGACACGGACGACa | |||| | ||||||| aTCCCTGCC---ACCTGCTGc Trim55; Murf2; Rnf29 rno-miR-214 878 902 GACG----GACAGACACGGACGACa |||| | |||| ||: |||| CTGCAGAGCCCTCTGAGCTGGCTGc Trim55; Murf2; Rnf29 rno-miR-216 27 46 GUGUCAACGGUCGACUCUaau ||::|| |||| :||||| CATGGTGGCCA-TTGAGAgga Trim55; Murf2; Rnf29 rno-miR-217 790 813 uaggucagucaaggaCUACGUCAU ||||||||| gaaggagaaggagagGATGCAGTA Trim55; Murf2; Rnf29 rno-miR-217 941 978 uAGGUC--AGUCAA------------GGACUACGUCau ||||| |||||| |||| ||||| cTCCAGATTCAGTTTCATCCCTGCCACCTGCTGCAGat Trim55; Murf2; Rnf29 rno-miR-218 26 52 UGUACCA-----AUCU-AGUUCGUGUu ||||||| | || :|||||| ACATGGTGGCCATTGAGAGGAGCACAg Trim55; Murf2; Rnf29 rno-miR-22 1219 1240 uGUCAAGAAGUUGACCGUCGaa ||| | |:| |||||| gCAGCCAATGAGCAGGCAGCag Trim55; Murf2; Rnf29 rno-miR-22 1251 1273 ugUCAAG--AAGUUGACCGUCGAa ||| : |||||| |||||| ggAGTCTAGTTCAAC-TGCAGCTa Trim55; Murf2; Rnf29 rno-miR-221 1213 1232 CUUUGGGUCGUCUGUUACAUCGa |||:|| |||| ||||| ||| GAAGCC--GCAGCCAATG-AGCa Trim55; Murf2; Rnf29 rno-miR-223 993 1015 CCCCAUAAAC--UGUUUGACUGu |||| | || :| |||||| GGGGGAGGTGGTGCCCACTGACt Trim55; Murf2; Rnf29 rno-miR-25 330 351 agucUGGCUCUGUUCACGUuac |:||||| :|||||| gaccATCGAGAGGAGTGCAggt Trim55; Murf2; Rnf29 rno-miR-291-3p 1406 1432 cCGUGUGU-UUCAC---CUUCGUGAaa ||||||| ||| |||||||| tGCACACACTTGTGAGTGAAGCACTct Trim55; Murf2; Rnf29 rno-miR-296 990 1009 UGUCCUAACUCCCCCCCGGGa |||||: |||| || |||| ACAGGG-GGAGGTGGTGCCCa Trim55; Murf2; Rnf29 rno-miR-298 870 894 CCUUCUU----GUCGGGAGGAGACgg |||| || ||| | |||||| GGAAAAAGCTGCAGAGC-CCTCTGag Trim55; Murf2; Rnf29 rno-miR-29b 987 1008 uUGUGACUAAAGUUUACCACGau |||| |: |::|||||| gACACAGG-GGGAGGTGGTGCcc Trim55; Murf2; Rnf29 rno-miR-31 1286 1312 gUCG--AUACGG-UCGU--AGAACGGA ||| | |||| |||| ||| ||:| tAGCAATCTGCCTAGCACTTCTGGCTT Trim55; Murf2; Rnf29 rno-miR-324-3p 564 595 GGUC--GU-----CGUGGAC---CCCGUCACc |||| || | :|| | ||||||| CCAGTTCATGGATGAGCCAGAAATGGCAGTGt Trim55; Murf2; Rnf29 rno-miR-324-3p 982 1003 GGUCGUCGUGGACCCCGUCACC |::|:: ||| |||| :|||| CTGGTGACACAGGGGGAGGTGG Trim55; Murf2; Rnf29 rno-miR-324-5p 979 1002 uguGGUUAC-GGGAUCCCCUACGC |:::|| | | :||||| |:| gtcCTGGTGACACAGGGGGAGGTG Trim55; Murf2; Rnf29 rno-miR-325 1411 1438 UGUGAA---UGAC-UCGUG-GAUGAUCc |||||| | || ||||| |||||:| ACACTTGTGAGTGAAGCACTCTACTGGc Trim55; Murf2; Rnf29 rno-miR-328 905 928 ugccuucCCGUC--UCUCCCGGUc ||| | ||||||| agatccaGGCTGCCTCAGGGCCAc Trim55; Murf2; Rnf29 rno-miR-328 28 52 UGCCUUCCCGU--CUCUCC-CG-GUC |:|| || || |||||| || ||| ATGG-TGGCCATTGAGAGGAGCACAG Trim55; Murf2; Rnf29 rno-miR-331 1125 1145 aagauccuauccgGGUCCCCg || |||| cccacctcacactCCTGGGGg Trim55; Murf2; Rnf29 rno-miR-333 1006 1028 uuuUCAUUGA---UCGUGUGGUG | |:||| |||| ||||| cccACTGACTCTCAGCAGACCAC Trim55; Murf2; Rnf29 rno-miR-338 877 899 aGUUGUUUU-AGUGACUACGACCu | :||:|: | |||| ||||| gCTGCAGAGCCCTCTGA-GCTGGc Trim55; Murf2; Rnf29 rno-miR-339 422 443 acUCG-AGGACCUCCUGUCCcu ||| |||||||||| ||| atAGCATCCTGGAGGAGAGGaa Trim55; Murf2; Rnf29 rno-miR-340 319 343 ccGAUAUUUCAUUG--A-CUCUGCCU ||||| |||:|| | |||| ||| taCTATACAGTGACCATCGAGA-GGA Trim55; Murf2; Rnf29 rno-miR-342 383 406 cugcccacgcuaaaGACACACUCU |||||||||| agcagaaacaggacCTGTGTGAGA Trim55; Murf2; Rnf29 rno-miR-346 996 1026 uCUCCGUC-CG------UGAG-UCCGUCUGu ||||::| || |||| |||||| gGAGGTGGTGCCCACTGACTCTCAGCAGACc Trim55; Murf2; Rnf29 rno-miR-347 982 1000 acCCGCUGGGUCUCCCUgu ||:||| |||:|||| ctGGTGACACAGGGGGAgg Trim55; Murf2; Rnf29 rno-miR-349 1147 1170 ucUCCA-AUUCUG-UCGUCCCGac |||| |:|| | | :||||| gaAGGTCTGAGTCAAATAGGGCct Trim55; Murf2; Rnf29 rno-miR-34a 893 919 UUGUUGGUCGAUUCU--GU--GACGGu |:| : | || :||| || ||||| AGCTGGCTGCAGAGATCCAGGCTGCCt Trim55; Murf2; Rnf29 rno-miR-34b 1282 1299 gUUAGUCGAUUAAUGUGACGGAU |:|:||| ||| ||||||| gAGTTAGC-AAT----CTGCCTA Trim55; Murf2; Rnf29 rno-miR-34c 885 919 CGUUAG--UCGAUUGAU--------GU--GACGGA || || ||||::||: || |||||| GCCCTCTGAGCTGGCTGCAGAGATCCAGGCTGCCT Trim55; Murf2; Rnf29 rno-miR-351 895 925 GUCCGA-GUUUC-----CCGA-GGAGUCCCu | |||| ||:|| |||| |||||||| CTGGCTGCAGAGATCCAGGCTGCCTCAGGGc Trim55; Murf2; Rnf29 rno-miR-361 1133 1159 caUGGGGACCUCUA-----AGACUauu ||:|||||:|:| ||||| acACTCCTGGGGGTGAAGGTCTGAgtc Trim55; Murf2; Rnf29 rno-miR-378 541 562 uGUGUCCUGGACCUCAGUCCUc || || ||||||||||| tCAAAGTTGGTGGAGTCAGGAa Trim55; Murf2; Rnf29 rno-miR-382 676 696 cuuaggUGGUGCUUGUUGAAG |:||:|||||||||| tatgagATCATGAACAACTTC Trim55; Murf2; Rnf29 rno-miR-382* 720 742 uucacAACAGGCACUU--ACUAA || |||||||| ||||| aaaaaTTATCCGTGAAATTGATT Trim55; Murf2; Rnf29 rno-miR-383 876 896 UCGGUGUCAGUGGAAGACUAGA |||::||| :|| ||||| || AGCTGCAG-AGCCCTCTGAGCT Trim55; Murf2; Rnf29 rno-miR-412 1132 1151 ugccGAUCACCUGGUCCACUUCa || ||| :||||||| cacaCTCCTGG---GGGTGAAGg Trim55; Murf2; Rnf29 rno-miR-422b 1458 1476 cGGAAGACUGAGGUUCAGGUCa || |: | |||||||||| aCCCTTAG---CCAAGTCCAGg Trim55; Murf2; Rnf29 rno-miR-422b 1167 1191 CGGAAGACUGAGG----UUCAGGUCA |||||| |:|| | :| |||||| GCCTTC-GGCTGCTGAGGATTCCAGT Trim55; Murf2; Rnf29 rno-miR-429 571 597 UGCCGUAAU-GGUCU-----GUCAUAAu |:|| || | ||||| ||||:|| ATGG-ATGAGCCAGAAATGGCAGTGTTt Trim55; Murf2; Rnf29 rno-miR-483 221 248 UGUUCUG-CCCU----CCCCUCCUCACu || | || | || | |||||||| ACTACACAGTGACCATTGAGAGGAGTGc Trim55; Murf2; Rnf29 rno-miR-483 320 347 UGUUCUG-CCCU----CCCCUCCUCACu || | || | || | |||||||| ACTATACAGTGACCATCGAGAGGAGTGc Trim55; Murf2; Rnf29 rno-miR-483 983 1006 uguuCUGCCCUCCCCUCC-UCACu ||| :||||||| :||| tggtGACACAGGGGGAGGTGGTGc Trim55; Murf2; Rnf29 rno-miR-485 904 921 CUUAAGUAGUGCCGGUCGGAGa ||: || || || | ||||| GAGATC--CA-GG-CTGCCTCa Trim55; Murf2; Rnf29 rno-miR-489 960 984 cGACGGUAUAU-AC-ACUACAGUAa |||||| |: || |||||| | cCTGCCACCTGCTGCAGATGTCCTg Trim55; Murf2; Rnf29 rno-miR-493 347 370 GACC----GUGUGUCAUCUGGAAGu | || :||||||| |||| || CAGGTTACTACACAGT-GACCATCg Trim55; Murf2; Rnf29 rno-miR-497 357 380 aUGU--UUGGUGUCACACGACGac ||| :||||: | ||||||| cACAGTGACCATCGAGTGCTGCag Trim55; Murf2; Rnf29 rno-miR-503 956 976 GUCAUGAC-AAGGGCGACGau || ||| ||:||||| CATCCCTGCCACCTGCTGCag Trim55; Murf2; Rnf29 rno-miR-93 1289 1307 GAUGGACGUGCUUGUCGUGAAac | |:|||| | :||||||| CAATCTGC-C---TAGCACTTct Trim55; Murf2; Rnf29 rno-miR-96 987 1010 ucGU-UUUUACACGAUCACGGUUu || |::: | | |:||||| | gaCACAGGGGGAGGTGGTGCCCAc Trim55; Murf2; Rnf29 rno-miR-98 1255 1278 uugUUAUGUUGA--AUGAUGGAGu |:| ||||| :||||||| tctAGTTCAACTGCAGCTACCTCt Trim55; Murf2; Rnf29 rno-miR-99a 234 253 GU-GUUCUAGCCUAGAUGCCCAA || ::||| ||| |:|||||| CATTGAGA--GGA-GTGCGGGTT Trim55; Murf2; Rnf29 rno-let-7a 1271 1278 UU------------------GAUAU-GUUGGA--UGAUGGAGU ||| ||||: :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-let-7b 1271 1278 UU------------------GGUGU-GUUGGA--UGAUGGAGU |:| ||||: :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-let-7c 1271 1278 UU------------------GGUAU-GUUGGA--UGAUGGAGU |:| ||||: :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-let-7d 1271 1278 U-------------------GAUAC-GUUGGA--UGAUGGAGA ||| ||||: :|||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCUC Trim55; Murf2; Rnf29 rno-let-7e 1271 1278 U-------------------GAUAU-GUUGGAG--GAUGGAGU ||| ||||: ||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-let-7f 1271 1278 UU------------------GAUAU-GUUA--GAUGAUGGAGU ||| ||| | :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-let-7i 1271 1278 U--------------------GUCGUGUU--UGAUGAUGGAGU :||: ||| :| :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU Trim55; Murf2; Rnf29 rno-miR-122a 1133 1140 UGU----------------------UUGUGGUAACAGUGUGAGGU ||| ||| ||||||||| AGGCCAAAGCCGGAAAAUGAUCUCCAAC-CCACC-UCACACUCCU Trim55; Murf2; Rnf29 rno-miR-125a 918 925 G-----------------UGUC-CAAUUUCCCA--GAGUCCCU :||| | ||| ||||||| GAGCCCUCUGAGCUGGCUGCAGAGAUCCAGGCUGCCUCAGGGC Trim55; Murf2; Rnf29 rno-miR-125b 918 925 -------------------------AGUGUUCAAUCCCAGAGUCCCU || ||:| |: ||||||| GAGCCCUCUGAGCUGGCUGCAGAGAUC-CAGGCUGC---CUCAGGGC Trim55; Murf2; Rnf29 rno-miR-138 1495 1502 ------------------------CUAAGUG--UUGUGGUCGA || :| ::|||||||| CCUUAGCCAAGUCCAGGAUCCUUGGAGCUAAAAGGCACCAGCUA Trim55; Murf2; Rnf29 rno-miR-141 590 597 GGUAGAAA----------------UGGU-----CUGUCACAAU :||| |:||||||| GUCAGGAAUCCAGUUCAUGGAUGAGCCAGAAAUGGCAGUGUUU Trim55; Murf2; Rnf29 rno-miR-151 1253 1260 --------------------GGAGUUCCUCGGAG-UCAGAUCA | ::|| |: |||||||| CGCAGCCAAUGAGCAGGCAGCAGUGAGUGGUAAGGAGUCUAGUU Trim55; Murf2; Rnf29 rno-miR-200a 590 597 U--------------GUAGCAA--UGGU-----CUGUCACAAU ||| | :||| |:||||||| GUCAGGAAUCCAGUUCAUGGAUGAGCCAGAAAUGGCAGUGUUU Trim55; Murf2; Rnf29 rno-miR-207 775 782 ---------UUCC-CUCCU-CU-CGG--------UCCUCUUCG :|| ||||| || | ||||||||: AUUUUUCUAGAGAAGAGGAAGAUGAAGACGAUGAAGGAGAAGUA Trim55; Murf2; Rnf29 rno-miR-207 793 800 UUCCC-----------UCCUCU-CGG--------UCCUCUUCG |||||| |: |||||||| AAGAUGAAGACGAUGAAGGAGAAGUAGAUGAAGAAGGAGAAGG Trim55; Murf2; Rnf29 rno-miR-207 853 860 UUCC-CUCC-UCUC------------------GGUCCUCUUCG |||| ||| :||||||||| UAGAAGAGGCAGAAAAUGUUCAAGUAGCAUCAUCAGGAGAAGA Trim55; Murf2; Rnf29 rno-miR-20b* 1264 1271 G--------------------UCUUCA---CGAGUGUGACGUCA ||:||| |:||| ||||||| AGCAGGCAGCAGUGAGUGGUAAGGAGUCUAGUUCA-ACUGCAGC Trim55; Murf2; Rnf29 rno-miR-214 967 974 -----------------------------GACGGACAGACACGGACGACA ||||| ||||||| UUGCUUCCUCUCCAGAUUCAGUUUCAUCCCUGCCA-------CCUGCUGC Trim55; Murf2; Rnf29 rno-miR-217 806 813 UAGG-----------------UCAG--UCAAGGACUACGUCAU || || ||||||||| UGAAGGAGAAGUAGAUGAAGAAGGAGAAGGAGAGGAUGCAGUAG Trim55; Murf2; Rnf29 rno-miR-324-3p 588 595 -----------GGUCG----UCG---UGGACC---CCGUCACC ||||: :| :|| ||||||| GAGUCAGGAAUCCAGUUCAUGGAUGAGCCAGAAAUGGCAGUGU Trim55; Murf2; Rnf29 rno-miR-328 921 928 U---------GCCUUCCCGUCUC--------------UCCCGGUC :|| |||||| ||||||| CCCUCUGAGCUGGCU--GCAGAGAUCCAGGCUGCCUCAGGGCCAC Trim55; Murf2; Rnf29 rno-miR-342 399 406 CU---GCCCACGCUAAA----------------GACACACUCU || |||| |||||||||| ACCAUCGAGUGCUGCAGAAAGCAGAAACAGGACCUGUGUGAGAA Trim55; Murf2; Rnf29 rno-miR-351 918 925 GU------------CCGA-GUUUC-----CCGA-GGAGUCCCU |||| ||:|| |||| |||||||| GAGCCCUCUGAGCUGGCUGCAGAGAUCCAGGCUGCCUCAGGGC Trim55; Murf2; Rnf29 rno-miR-377 398 405 --GGUU-UUCAACGGAA-------------------ACACACUA ||| :||| ||: ||||||| GACCAUCGAGU-GCUGCAGAAAGCAGAAACAGGACCUGUGUGAG Trim55; Murf2; Rnf29 rno-miR-378 555 562 U-----GUGU-CCUGG---------------ACCUCAGUCCUC ||| ||| ||||||||||| UCUGAUCACCUGGAGAAUGUAUCAAAGUUGGUGGAGUCAGGAA Trim55; Murf2; Rnf29 rno-miR-382 689 696 CUUAGG----------------------UGGUGCUUGUUGAAG |:||:|||||||||| GAUGGAGAAAAUAGAACAAGGUUAUGAGAUCAUGAACAACUUCA Trim55; Murf2; Rnf29 rno-miR-412 1144 1151 UGCC-----------------------GAUCACCUGGUCCACUUCA || ||| :||||||| GGAAAAUGAUCUCCAACCCACCUCACACUCCUGG---GGGUGAAGG Trim55; Murf2; Rnf29 rno-miR-422b 1469 1476 C-------------------------GGAAGACUGAGGUUCAGGUCA |||| |||||||||| CUGGCCAAAGCCCUUGCUCCAUGUACCCUUAG----CCAAGUCCAGG Trim55; Murf2; Rnf29 rno-miR-483 241 248 --------------------UGUU-CUGCCCUCCCCUCCUCACU |||: ||| | |||||||| AGAGGAGCACAGAUUACUACACAGUGACCAUU-GAGAGGAGUGC Trim55; Murf2; Rnf29 rno-miR-483 340 347 --------------------UGUU-CUGCCCUCCCCUCCUCACU |||: ||| | |||||||| AGAGGAGCAUAGGUUACUAUACAGUGACCAUC-GAGAGGAGUGC Trim55; Murf2; Rnf29 rno-miR-98 1271 1278 UUGUUAU-------------------GUUGAA--UGAUGGAGU |:||:|: ||||| :||||||| AGCAGUGAGUGGUAAGGAGUCUAGUUCAACUGCAGCUACCUCU

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Trim55 RAID00199964 rno-miR-20a-5p miRNA MIMAT0000602 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00216159 rno-miR-376c-5p miRNA MIMAT0017219 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00263115 rno-miR-17-5p miRNA MIMAT0000786 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00507133 rno-miR-135b-5p miRNA MIMAT0000611 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00509483 rno-miR-376b-5p miRNA MIMAT0003195 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00531087 rno-miR-106b-5p miRNA MIMAT0000825 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00639941 rno-miR-378a-3p miRNA MIMAT0003379 Trim55 mRNA 365751 Prediction 0.2202 Trim55 RAID00833163 rno-miR-375-3p miRNA MIMAT0005307 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID00896209 rno-miR-133b-3p miRNA MIMAT0003126 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01023685 rno-miR-124-3p miRNA MIMAT0000828 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01255131 rno-miR-3064-5p miRNA MIMAT0035737 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01414072 rno-miR-93-5p miRNA MIMAT0000817 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01549661 rno-miR-489-3p miRNA MIMAT0003113 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01613862 rno-miR-3084b-3p miRNA MIMAT0035742 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID01850525 rno-miR-9a-5p miRNA MIMAT0000781 Trim55 mRNA 365751 Prediction 0.2202 Trim55 RAID01897335 rno-miR-214-3p miRNA MIMAT0000885 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID02083574 rno-miR-320-3p miRNA MIMAT0000903 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID02090899 rno-miR-190a-5p miRNA MIMAT0000865 Trim55 mRNA 365751 Prediction 0.2202 Trim55 RAID02363675 rno-miR-410-3p miRNA MIMAT0005311 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID02770945 rno-miR-186-5p miRNA MIMAT0000863 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID02924608 rno-miR-20b-5p miRNA MIMAT0003211 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03043382 rno-miR-411-5p miRNA MIMAT0005312 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03148439 rno-miR-490-5p miRNA MIMAT0017356 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03221153 rno-miR-3084a-3p miRNA MIMAT0035740 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03277497 rno-miR-133a-3p miRNA MIMAT0000839 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03390559 rno-miR-329-3p miRNA MIMAT0000566 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03617517 rno-miR-136-5p miRNA MIMAT0000842 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03659833 rno-miR-3084d miRNA MIMAT0035745 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03810820 rno-miR-190b-5p miRNA MIMAT0005302 Trim55 mRNA 365751 Prediction 0.2202 Trim55 RAID03821074 rno-miR-185-5p miRNA MIMAT0000862 Trim55 mRNA 365751 Prediction 0.2202 Trim55 RAID03902500 rno-miR-218a-5p miRNA MIMAT0000888 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03940975 rno-miR-223-3p miRNA MIMAT0000892 Trim55 mRNA 365751 Prediction 0.1828 Trim55 RAID03982011 rno-miR-379-3p miRNA MIMAT0004791 Trim55 mRNA 365751 Prediction 0.1828