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 MIMAT0000568 rno-miR-330* 289508 Rchy1 agagacguccgGGACACGAAAcg | |||||||| aaaucuaauuaCAUGUGCUUUuu 3 13 406 428 [rn4:14:17698893-17698915:+] 0.6285 132 0 -10.33 -0.1662 MIMAT0004645 rno-miR-148b-5p 289508 Rchy1 ggacUCACAUAUUGUCUUGAag ||| |:|:|||||| uucuAGUUCUUGAUAGAACUac 3 19 321 342 [rn4:14:17698808-17698829:+] 0.6285 138 0 -14.96 -0.1180 MIMAT0004645 rno-miR-148b-5p 289508 Rchy1 ggacucacAUAUUGUCUUGAAg | | |::|||||| uuuuauauUUUCAUGGAACUUu 2 15 272 293 [rn4:14:17698759-17698780:+] 0.6285 134 6 -7.24 -0.1336 MIMAT0004646 rno-miR-338* 289508 Rchy1 gugagucgugguccuAUAACAa |||||| uaauuuuuaaguucuUAUUGUu 2 8 383 404 [rn4:14:17698870-17698891:+] 0.6285 120 6 -5.80 -0.2678 MIMAT0004646 rno-miR-338* 289508 Rchy1 gugagUCGUGG-UCCUAUAACAa | :||: | || ||||| aauaaACUACUAAUGAAAUUGU- 2 18 473 494 [rn4:14:17698960-17698981:+] 0.5870 120 0 -5.46 -0.1334 MIMAT0000599 rno-miR-349 289508 Rchy1 ucuccaauucugucgUCCCGAc |||||| uagucuuugauuuuaAGGGCUg 2 8 356 377 [rn4:14:17698843-17698864:+] 0.6285 120 6 -16.28 -0.2465 MIMAT0000601 rno-miR-129* 289508 Rchy1 uacgAAAAAC-CCCAUUCCCGAa | |||| |||||||| cuagUCUUUGAUUUUAAGGGCUg 2 19 355 377 [rn4:14:17698842-17698864:+] 0.6285 149 7 -14.48 -1.1812 MIMAT0000610 rno-miR-352 289508 Rchy1 auGAUACGUUGGAUGAUGAga :||||:||: |||||| uuUUAUGUAAUAAACUACUaa 3 20 465 485 [rn4:14:17698952-17698972:+] 0.5870 147 0 -16.19 -0.1088 MIMAT0003152 rno-miR-22* 289508 Rchy1 auuucGAACGGUGACU-UCUUGa || |:: :||| ||||| aauuuCUAGUUCUUGAUAGAACu 2 18 318 340 [rn4:14:17698805-17698827:+] 0.6285 121 0 -12.75 -0.8365 MIMAT0004714 rno-miR-26b* 289508 Rchy1 cucgguucauuACCUCUUGUCc |||||||||| cuguccuuggcUGGAGAACAGc 2 12 6 27 [rn4:14:17698493-17698514:+] 0.6500 155 7 -20.46 -0.6341 MIMAT0004716 rno-miR-28* 289508 Rchy1 agGU-CCUC-GAGUGUUAGAUCAc || | || ||:| |||||| ugCACGCAGACUUAAUUUCUAGUu 2 21 305 328 [rn4:14:17698792-17698815:+] 0.6285 122 6 -13.12 -0.1135 MIMAT0004718 rno-miR-29a* 289508 Rchy1 gacUUGUGGUUUUCUUUAGUCa :|: :||:| |:|||||| caaGAUCUCAGAUGGAAUCAGa 2 20 139 160 [rn4:14:17698626-17698647:+] 0.6285 147 6 -15.32 -0.1095 MIMAT0000831 rno-miR-126* 289508 Rchy1 gcgcaUGGUUUUCAUUAUUac |:: | ||||||| auaaaAUUUUAUGUAAUAAac 3 17 459 479 [rn4:14:17698946-17698966:+] 0.5870 128 0 -3.71 -0.1990 MIMAT0004736 rno-miR-193* 289508 Rchy1 agUAGA-ACGGGCGUUUCUGGGu | || ||: :| :||||||| gaAGCUCUGUGUG-GAAGACCCc 2 21 42 63 [rn4:14:17698529-17698550:+] 0.6285 149 7 -18.53 -0.1835 MIMAT0004738 rno-miR-199a-3p 289508 Rchy1 auugguUACA-CGUCUGAUGAca |||| :| |||||| aauuuuAUGUAAUAAACUACUaa 3 17 463 485 [rn4:14:17698950-17698972:+] 0.5870 131 0 -7.66 -0.1088 MIMAT0004739 rno-miR-204* 289508 Rchy1 uugcagggaaacggaAGGGUCg |||||| agccaaugauguuugUCCCAGa 2 8 228 249 [rn4:14:17698715-17698736:+] 0.6285 120 6 -17.04 -0.3524 MIMAT0000894 rno-miR-291a-5p 289508 Rchy1 ucucucccgGAGGUGAAACUAc || ||||||| caauuuuaaCUAGUCUUUGAUu 2 14 346 367 [rn4:14:17698833-17698854:+] 0.6285 141 7 -9.28 -1.1491 MIMAT0003174 rno-miR-540 289508 Rchy1 gguccuagcuGGAGACUGga ::|||||| gcuuuuuaauUUUCUGACag 3 11 422 441 [rn4:14:17698909-17698928:+] 0.6078 122 0 -10.55 -0.1279 MIMAT0004791 rno-miR-379* 289508 Rchy1 caaucaccUGGUACAAUGUAUc |:| ||||||: uuguuaaaAUCUAAUUACAUGu 2 15 400 421 [rn4:14:17698887-17698908:+] 0.6285 126 0 -6.83 -0.1595 MIMAT0004791 rno-miR-379* 289508 Rchy1 caaucaCCUGGUACAAUGUAUc |||:| | |||||| uccuuaGGAUCCU-AUACAUAa 2 17 442 462 [rn4:14:17698929-17698949:+] 0.5870 122 6 -10.64 -0.1824 MIMAT0003197 rno-miR-376a* 289508 Rchy1 gaGUAUCUUCCUCUUAGAUgg | || : | |||||| uuCUUAUUGUUAAAAUCUAau 3 20 394 414 [rn4:14:17698881-17698901:+] 0.6285 123 0 -7.22 -0.2278 MIMAT0003380 rno-miR-505 289508 Rchy1 ccuuuggUCGUUCACAACUg |||: ||||||| gccucugAGCGUGUGUUGAu 2 14 180 199 [rn4:14:17698667-17698686:+] 0.6285 153 7 -16.69 -0.6793 MIMAT0005280 rno-miR-743b 289508 Rchy1 agauaagucauaccaCAGAAAg |||||| auucaauuuuaacuaGUCUUUg 2 8 343 364 [rn4:14:17698830-17698851:+] 0.6285 120 6 -5.38 -0.3032 MIMAT0005283 rno-miR-872* 289508 Rchy1 uccuccgaugacguuAUCAAGu |||||| cgcagacuuaauuucUAGUUCu 2 8 309 330 [rn4:14:17698796-17698817:+] 0.6285 120 6 -6.59 -0.1014 MIMAT0005287 rno-miR-879 289508 Rchy1 ccgaaucucgaUA-UUCGGAGa || ||||||| ucacucacuggAUGAAGCCUCu 2 11 164 185 [rn4:14:17698651-17698672:+] 0.6285 141 7 -16.04 -0.3874 MIMAT0005332 rno-miR-708* 289508 Rchy1 gaucUUCGAGUGUCAGAUCAAc |: ||:| ||||||| acgcAGACUUAAUUUCUAGUUc 2 19 308 329 [rn4:14:17698795-17698816:+] 0.6285 150 7 -12.33 -1.1054 MIMAT0005334 rno-miR-743a 289508 Rchy1 agaugggucaaaccgCAGAAAg |||||| auucaauuuuaacuaGUCUUUg 2 8 343 364 [rn4:14:17698830-17698851:+] 0.6285 120 6 -7.53 -0.3032 MIMAT0012832 rno-miR-568 289508 Rchy1 cacacauauguaaAUAUGUa |||||| guccuuaggauccUAUACAu 2 8 441 460 [rn4:14:17698928-17698947:+] 0.5870 120 6 -6.35 -0.1223 MIMAT0012839 rno-miR-668 289508 Rchy1 ccaucacccggcucggcUCACUGu |||||| auuuucauggaacuuuaAGUGACa 2 8 278 301 [rn4:14:17698765-17698788:+] 0.6285 120 6 -12.74 -0.1211 MIMAT0000560 rno-miR-326 289508 Rchy1 ugacCUCCUUCCCGGGUCUcc || | | |||||| caauGAUGUUUGUCCCAGAua 3 18 231 251 [rn4:14:17698718-17698738:+] 0.6285 125 0 -9.54 -0.1357 MIMAT0004641 rno-miR-330 289508 Rchy1 cgGAUUCUGU-GUCCGGGUCUcu | | ||:: : | |||||| gcCAAUGAUGUUUGUCCCAGAua 3 21 229 251 [rn4:14:17698716-17698738:+] 0.6285 127 0 -15.15 -0.1370 MIMAT0000573 rno-miR-140 289508 Rchy1 gaUGGUAUCCCAU-UUUGGUGAc |:: || | | ||||:||| aaAUUUUAUGUAAUAAACUACUa 2 21 462 484 [rn4:14:17698949-17698971:+] 0.5870 135 0 -9.46 -0.2127 MIMAT0004650 rno-miR-340-5p 289508 Rchy1 uuaGUCAG-AG--UAACGAAAUAUu ||||| || | | :|||||| ucaCAGUCAUCGAAAUAUUUUAUAu 2 20 255 279 [rn4:14:17698742-17698766:+] 0.6285 141 6 -13.53 -0.1529 MIMAT0000596 rno-miR-346 289508 Rchy1 ucuccguCCGUGA---GUCCGUCUGu | |||| || |||||| uuuaaguGACACUAUGCACGCAGACu 2 17 291 316 [rn4:14:17698778-17698803:+] 0.6285 123 6 -14.64 -0.1393 MIMAT0000833 rno-miR-127 289508 Rchy1 ucgguUCGAGUCUGCCUAGGcu ||: | | |||||| cugacAGUCCUUA-GGAUCCua 3 18 435 455 [rn4:14:17698922-17698942:+] 0.6078 123 0 -12.18 -0.3098 MIMAT0000852 rno-miR-146a 289508 Rchy1 uuggguaccUUAA--GUCAAGAGu |||| :||||||: cgcagacuuAAUUUCUAGUUCUUg 2 14 309 332 [rn4:14:17698796-17698819:+] 0.6285 132 0 -10.86 -0.1430 MIMAT0000852 rno-miR-146a 289508 Rchy1 uuggguaccuuAAGUCAAGAGu || ||||||: uacuauaauuuUUAAGUUCUUa 2 12 378 399 [rn4:14:17698865-17698886:+] 0.6285 131 0 -11.47 -0.3875 MIMAT0000855 rno-miR-153 289508 Rchy1 cuagUGAAA-ACAC--UGAUACGUu ||||| ||| |||||||| uggaACUUUAAGUGACACUAUGCAc 2 19 285 309 [rn4:14:17698772-17698796:+] 0.6285 160 7 -14.96 -0.9031 MIMAT0000872 rno-miR-199a-5p 289508 Rchy1 cuuguccaucagacuuGUGACCc |||||| gaaucagaauaucacuCACUGGa 2 8 153 175 [rn4:14:17698640-17698662:+] 0.6285 120 6 -12.92 -0.1017 MIMAT0000879 rno-miR-206 289508 Rchy1 ggugugugaaggaAUGUAAGgu ||||||| uucuugauagaacUACAUUCaa 3 10 327 348 [rn4:14:17698814-17698835:+] 0.6285 125 0 -7.93 -0.3018 MIMAT0000895 rno-miR-291a-3p 289508 Rchy1 ccGUGUGUUUCACC-UUC-GUGAAa ::::: :| ||| ||| ||||| cgUGUGUUGAUUGGAAAGUCACUUa 2 22 189 213 [rn4:14:17698676-17698700:+] 0.6285 120 0 -11.28 -0.9820 MIMAT0003118 rno-miR-215 289508 Rchy1 caGACAGUUUAGU--AUC-CAGUa :|| ||:||| ||| |||| gaUUGGAAAGUCACUUAGUGUCAa 2 20 197 220 [rn4:14:17698684-17698707:+] 0.6285 122 0 -14.76 -1.1374 MIMAT0003125 rno-miR-1 289508 Rchy1 uaugugugaagaaAUGUAAGgu ||||||| uucuugauagaacUACAUUCaa 3 10 327 348 [rn4:14:17698814-17698835:+] 0.6285 125 0 -8.00 -0.3018 MIMAT0003381 rno-miR-499 289508 Rchy1 uuugUAGUGACGUUCAGAAuu ||: : | |||||| uucaAUUUUAACUAGUCUUug 3 18 344 364 [rn4:14:17698831-17698851:+] 0.6285 125 0 -6.89 -0.2459 MIMAT0005311 rno-miR-410 289508 Rchy1 uguccgguagacacAAUAUAa |||||| gucaucgaaauauuUUAUAUu 2 8 260 280 [rn4:14:17698747-17698767:+] 0.6285 120 6 -8.23 -0.1238 MIMAT0005314 rno-miR-425 289508 Rchy1 agUUGCC-CUCACU--AGCACAGUaa | :|| ||| | | |||||| ugAUUGGAAAGUCACUUAGUGUCAag 3 22 196 221 [rn4:14:17698683-17698708:+] 0.6285 127 0 -11.12 -0.1014 MIMAT0005335 rno-miR-758 289508 Rchy1 ccaaucacCUGGUCCAGUGUUu ||: ||||||: uugucccaGAUAUAGUCACAGu 2 15 240 261 [rn4:14:17698727-17698748:+] 0.6285 126 0 -13.66 -0.1057 MIMAT0005595 rno-miR-146b 289508 Rchy1 ugucgGAUACCUUAAG---UCAAGAGu |||| ||||: ||||||: cuguaCUAU--AAUUUUUAAGUUCUUa 2 20 375 399 [rn4:14:17698862-17698886:+] 0.6285 135 0 -12.16 -0.3875 MIMAT0005595 rno-miR-146b 289508 Rchy1 ugUCGGAUACCUUAAG-UCAAGAGu || || | | ||| ||||||: gcAGACU-U-AAUUUCUAGUUCUUg 2 23 310 332 [rn4:14:17698797-17698819:+] 0.6285 133 0 -13.76 -0.1430

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Rchy1 RAID00258546 rno-miR-410-3p miRNA MIMAT0005311 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00352621 rno-miR-146b-5p miRNA MIMAT0005595 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00390867 rno-miR-449c-3p miRNA MIMAT0017804 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00797553 rno-miR-146a-5p miRNA MIMAT0000852 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00838703 rno-miR-129-1-3p miRNA MIMAT0017120 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00871270 rno-miR-291a-5p miRNA MIMAT0000894 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID00945287 rno-miR-199a-5p miRNA MIMAT0000872 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID01134072 rno-miR-326-3p miRNA MIMAT0000560 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID01171370 rno-miR-499-5p miRNA MIMAT0003381 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID01422152 rno-miR-330-5p miRNA MIMAT0004641 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID01650499 rno-miR-215 miRNA MIMAT0003118 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02090097 rno-miR-140-5p miRNA MIMAT0000573 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02207980 rno-miR-127-3p miRNA MIMAT0000833 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02237915 rno-miR-206-3p miRNA MIMAT0000879 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02349141 rno-miR-340-5p miRNA MIMAT0004650 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02513920 rno-miR-1-3p miRNA MIMAT0003125 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02535240 rno-miR-291a-3p miRNA MIMAT0000895 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02560454 rno-miR-129-2-3p miRNA MIMAT0000601 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02595383 rno-miR-551b-5p miRNA MIMAT0017335 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID02767404 rno-miR-153-3p miRNA MIMAT0000855 Rchy1 mRNA 289508 Prediction 0.2202 Rchy1 RAID02789774 rno-miR-346 miRNA MIMAT0000596 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID03370642 rno-miR-6327 miRNA MIMAT0025066 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID03409043 rno-miR-758-3p miRNA MIMAT0005335 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID03627248 rno-miR-425-5p miRNA MIMAT0005314 Rchy1 mRNA 289508 Prediction 0.1828 Rchy1 RAID03645429 rno-miR-708-3p miRNA MIMAT0005332 Rchy1 mRNA 289508 Prediction 0.1828