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 MIMAT0004639 rno-miR-325-3p 171415 Atg3 aacuauccuccacgaGUUAUUu |||||| auugaccauauuuacCAAUAAg 2 8 70 91 [rn4:11:57162280-57162301:-] 0.6999 120 6 -5.92 -0.4529 MIMAT0000607 rno-miR-7a* 171415 Atg3 uaccGUCUGACACUAAACAAca ||| || | ||||||| cuacCAGCCU-U-AUUUGUUu- 3 19 148 166 [rn4:11:57162205-57162223:-] 0.6999 134 0 -7.54 -0.1764 MIMAT0000813 rno-miR-34b 171415 Atg3 guUAGUCGAUUAAUGUGACGGAu ||| |||||| |||||:| cuAUC--CUAAUU--ACUGCUUc 2 22 18 36 [rn4:11:57162335-57162353:-] 0.6999 143 0 -12.71 -0.1608 MIMAT0000831 rno-miR-126* 171415 Atg3 gcgcaugguuuucAUUAUUAc ||||||| agaauaauuucucUAAUAAUg 2 9 90 110 [rn4:11:57162261-57162281:-] 0.6999 140 7 -6.53 -0.8469 MIMAT0000831 rno-miR-126* 171415 Atg3 gcgcAUGGUUUUCAUUAUUAc |||||| | |||||| uauuUACCAAUAAGAAUAAUu 2 18 78 98 [rn4:11:57162273-57162293:-] 0.6999 137 6 -10.14 -0.2301 MIMAT0004738 rno-miR-199a-3p 171415 Atg3 auugguuACACGUCUGAUGACa | | | |:||||| uagagucUAUCCUAAUUACUGc 2 16 12 33 [rn4:11:57162338-57162359:-] 0.6999 127 0 -7.98 -0.1038 MIMAT0004791 rno-miR-379* 171415 Atg3 caaucaccugguacaAUGUAUc |||||| uuuuuaaagaauuaaUACAUAg 2 8 40 61 [rn4:11:57162310-57162331:-] 0.6999 120 6 -8.16 -0.2396 MIMAT0003206 rno-miR-369-5p 171415 Atg3 cgCUUAUAUUGUGCCAGCUAGa |:|||||: | ||| ||| gaGGAUAUAG-A--GUCUAUCc 2 21 5 23 [rn4:11:57162348-57162366:-] 0.6999 123 0 -11.52 -0.1379 MIMAT0005285 rno-miR-877 171415 Atg3 gggacgcgGUAGAGGAGAUg :| :|:||||| aauaagaaUAAUUUCUCUAa 2 13 86 105 [rn4:11:57162266-57162285:-] 0.6999 128 0 -9.85 -0.1663 MIMAT0005317 rno-miR-463 171415 Atg3 gaugggUUUA-ACCGCAGAUAGu ::|| | | ||||||| uggagaGGAUAUAGAGUCUAUCc 2 17 1 23 [rn4:11:57162348-57162370:-] 0.6999 147 7 -10.86 -1.2844 MIMAT0012840 rno-miR-802 171415 Atg3 uuCCUACUUAGAAACAAUGACu | :| ||| | |||||| uaGAGUCUAUCCUAAUUACUGc 2 21 12 33 [rn4:11:57162338-57162359:-] 0.6999 124 6 -11.05 -0.4280 MIMAT0012848 rno-miR-294 171415 Atg3 ucuAUCCCGGAGG-UAAAACUc || ||:||: ||||| | aauUACUGCUUCUGAUUUUUAa 2 19 25 46 [rn4:11:57162325-57162346:-] 0.6999 125 0 -6.58 -0.1078 MIMAT0000780 rno-miR-7b 171415 Atg3 ugUUGUUUUAGUGU-UCAGA-AGGu :| |::|| |:| ||||| ||| ugGAGAGGAU-AUAGAGUCUAUCCu 2 22 1 24 [rn4:11:57162347-57162370:-] 0.6999 122 0 -14.00 -1.3159 MIMAT0000792 rno-miR-23a 171415 Atg3 ccuUUAGGGACCGUUACACUa ||| | | :|||||| auuAAUACAU--AGAUGUGAc 2 19 50 68 [rn4:11:57162303-57162321:-] 0.6999 127 6 -7.51 -0.2997 MIMAT0000793 rno-miR-23b 171415 Atg3 ccAUUAGGGACCGUUACACUa |||| | | :|||||| auUAAUACAU--AGAUGUGAc 2 20 50 68 [rn4:11:57162303-57162321:-] 0.6999 132 6 -7.36 -0.2997 MIMAT0000804 rno-miR-30c 171415 Atg3 cgACUCUCACAUCCUACAAAUGu ||:|| || | |||||||: aaUGGGACUG-A-UAUGUUUAUg 2 22 107 127 [rn4:11:57162244-57162264:-] 0.6999 141 0 -11.59 -0.2373 MIMAT0000805 rno-miR-30e 171415 Atg3 gaaggucaguuccUACAAAUGu |||||||: uaaugggacugauAUGUUUAUg 2 10 106 127 [rn4:11:57162244-57162265:-] 0.6999 129 0 -5.81 -0.2373 MIMAT0000806 rno-miR-30b-5p 171415 Atg3 ucgACUCACAUCCUACAAAUGu ||:| |: |||||||: uaaUGGGACUGAUAUGUUUAUg 2 20 106 127 [rn4:11:57162244-57162265:-] 0.6999 139 0 -9.45 -0.2373 MIMAT0000807 rno-miR-30d 171415 Atg3 gaaggUCAGCCCCUACAAAUGu :| | | |||||||: uaaugGGACUGAUAUGUUUAUg 2 18 106 127 [rn4:11:57162244-57162265:-] 0.6999 133 0 -10.12 -0.2373 MIMAT0000808 rno-miR-30a 171415 Atg3 gaaggucagcuccUACAAAUGu |||||||: uaaugggacugauAUGUUUAUg 2 10 106 127 [rn4:11:57162244-57162265:-] 0.6999 129 0 -7.05 -0.2395 MIMAT0000844 rno-miR-138 171415 Atg3 gccggacuAAGUGUUGUGGUCGa ||: :: :|||||| auaaaaacUUUCUGCUACCAGCc 2 16 134 156 [rn4:11:57162215-57162237:-] 0.6999 131 6 -12.15 -0.4530 MIMAT0000855 rno-miR-153 171415 Atg3 cuagUGAAAACACUGAUACGUu ||| | || :|||||| ugggACUGAUAUGUUUAUGCAu 2 19 109 130 [rn4:11:57162241-57162262:-] 0.6999 142 6 -11.29 -0.4165 MIMAT0000859 rno-miR-181b 171415 Atg3 ugGGUGGCUGUCGUUACU-UACAa |:| : |::| | ||| |||| cuCUAAUAAUGGGACUGAUAUGUu 2 22 100 123 [rn4:11:57162248-57162271:-] 0.6999 121 0 -8.80 -1.2351 MIMAT0000903 rno-miR-320 171415 Atg3 agcggGAGAGUUG--GGUCGAAAa ||:|| :| ||||| || aaaaaCUUUCUGCUACCAGCCUUa 2 18 136 159 [rn4:11:57162212-57162235:-] 0.6999 124 0 -15.56 -0.1233 MIMAT0001534 rno-miR-448 171415 Atg3 uaCCCUG-UAGGAUGUAUACGUu ||||| : : |:: |||||| auGGGACUGAUAUGUUUAUGCAu 2 21 108 130 [rn4:11:57162241-57162263:-] 0.6999 127 6 -18.00 -0.4165 MIMAT0003114 rno-miR-383 171415 Atg3 ucGGUGUCAGUG--GAAGACUAGa :| :| |:|| ||||||||: uaUCCUAAUUACUGCUUCUGAUUu 2 21 19 42 [rn4:11:57162329-57162352:-] 0.6999 143 0 -16.19 -0.2778 MIMAT0003117 rno-miR-361 171415 Atg3 cauggggaccuCUAAGACUAuu | ||||||| uccuaauuacuGCUUCUGAUuu 3 12 21 42 [rn4:11:57162329-57162350:-] 0.6999 127 0 -10.14 -0.2730 MIMAT0003117 rno-miR-361 171415 Atg3 cauggggaccucuaaGACUAUu |||||| ucucuaauaaugggaCUGAUAu 2 8 99 120 [rn4:11:57162251-57162272:-] 0.6999 120 6 -11.42 -0.1220 MIMAT0003176 rno-miR-539 171415 Atg3 uguGUGGUUCCUAUUAAAGAGg || :||| |||||||||| uacCAAUAAGAAUAAUUUCUCu 2 20 82 103 [rn4:11:57162268-57162289:-] 0.6999 175 7 -17.86 -1.3108 MIMAT0003192 rno-miR-379 171415 Atg3 ggaUGCAAGGUAUCAGAUGGu | | | :| ||||||:| gagAGGAUAUAGAGUCUAUCc 2 19 3 23 [rn4:11:57162348-57162368:-] 0.6999 138 0 -10.66 -0.1992 MIMAT0003203 rno-miR-485 171415 Atg3 cuuAAGUAGUGCCGGUCGGAGa ||: | :| |||||||: aacUUUCU-GCUACCAGCCUUa 2 20 139 159 [rn4:11:57162212-57162232:-] 0.6999 133 0 -13.70 -0.5507 MIMAT0005309 rno-miR-384-5p 171415 Atg3 uguaacggAUCCU---UA-ACAAAUGu |:||| || ||||||: ucuaauaaUGGGACUGAUAUGUUUAUg 2 16 101 127 [rn4:11:57162244-57162270:-] 0.6999 129 0 -7.69 -0.2395 MIMAT0005320 rno-miR-495 171415 Atg3 uucuucacgUGGUACAAACAAa :|| | |||||| cugcuaccaGCCUUAUUUGUUu 2 14 145 166 [rn4:11:57162205-57162226:-] 0.6999 121 6 -11.00 -0.2186

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G058653 Atg3 Rattus norvegicus 171415

DNA & RNA Element - miRNAMap Gene Name Mature miRNA Target Start Target End miRNA 3-5 Alignment Target 5-3 Atg3; Apg3l rno-let-7a 122 154 UUGAUAUGUU-------------GGAUGAUGGAGU :|||:|| :||:||||| -UUUAUGCAUUAAAUAAAAACUUUCUGCUACCA-- Atg3; Apg3l rno-let-7f 122 154 UUGAUAUGUU-------------AGAUGAUGGAGU :|||:|| |||:||||| -UUUAUGCAUUAAAUAAAAACUUUCUGCUACCA-- Atg3; Apg3l rno-miR-126* 81 112 GCGCAUGGUU-UUC-----------AUUAUUAC- |||||| ||| |||||||| ---UUACCAAUAAGAAUAAUUUCUCUAAUAAUGG Atg3; Apg3l rno-miR-320 125 157 AAGCGG-----------GAGAGUUG--GGUCGAAAA :|| ||:|| ||||| -AUGCAUUAAAUAAAAACUUUCUGCUACCAGCC--- Atg3; Apg3l rno-miR-383 14 44 -UCGGUGUCA------GUGGAAGACUAGA- ||:| | ||||||||:| GAGUCUAUCCUAAUUACUGCUUCUGAUUUU Atg3; Apg3l rno-miR-448 107 131 -UACCCUGUAGGAUGU--AUACGUU ||||||| ||: |||||| AAUGGGACUGA-UAUGUUUAUGCAU Atg3; Apg3l rno-miR-539 69 105 -UGUGUGGU------------UCCUAUUAAAGAGG- |: |||| || ||||||||||: CAUUGACCAUAUUUACCAAUAAGAAUAAUUUCUCUA Atg3; Apg3l rno-let-7a 132 155 UUGAUAUGUUG---GAUGAUGGagu || || | ||| ||:||||| AAATA-AAAACTTTCTGCTACCagc Atg3; Apg3l rno-let-7f 134 155 uugaUAUGUUAGAUGAUGGagu | || |||:||||| ataaAAACTTTCTGCTACCagc Atg3; Apg3l rno-miR-320 135 159 aagcggGAGAGUUG--GGUCGAAAa ||:|| :| ||||| || taaaaaCTTTCTGCTACCAGCCTTa Atg3; Apg3l rno-miR-383 20 42 UCGGUGUCAGUG--GAAGACUAGA | || :| |:|| ||||||||:| ATCC-TAATTACTGCTTCTGATTT Atg3; Apg3l rno-miR-448 108 130 UACCCUG--UAGGAUGUAUACGUu ||||||| || |:: |||||| ATGGGACTGAT-ATGTTTATGCAt Atg3; Apg3l rno-miR-539 83 103 UGUGUGGUUCCUAUUAAAGAGg || || :||| |||||||||| AC-CAATAAGAATAATTTCTCt Atg3; Apg3l rno-miR-126* 103 110 GCGC----------AUGGUU-UUC-----------AUUAUUAC |||||| ||| |||||||| CCAUUGACCAUAUUUACCAAUAAGAAUAAUUUCUCUAAUAAUGG Atg3; Apg3l rno-miR-539 96 103 UGU------------------GUGGU---UCCUAUUAAAGAGG :|||| || ||||||||||: GAUGUGACCAUUGACCAUAUUUACCAAUAAGAAUAAUUUCUCUA

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Atg3 RAID00372227 rno-miR-383-5p miRNA MIMAT0003114 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00567256 rno-miR-384-5p miRNA MIMAT0005309 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00578383 rno-miR-30e-5p miRNA MIMAT0000805 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00587522 rno-miR-153-3p miRNA MIMAT0000855 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00598046 rno-miR-320-3p miRNA MIMAT0000903 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00709180 rno-miR-30d-5p miRNA MIMAT0000807 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID00863628 rno-miR-138-5p miRNA MIMAT0000844 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID01441032 rno-miR-30c-5p miRNA MIMAT0000804 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID01520358 rno-miR-485-5p miRNA MIMAT0003203 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID01583050 rno-miR-30b-5p miRNA MIMAT0000806 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID01601269 rno-miR-7b miRNA MIMAT0000780 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID01675776 rno-miR-30a-5p miRNA MIMAT0000808 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02551838 rno-miR-539-5p miRNA MIMAT0003176 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02566386 rno-miR-1193-5p miRNA MIMAT0017858 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02628014 rno-miR-379-5p miRNA MIMAT0003192 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02678553 rno-miR-361-5p miRNA MIMAT0003117 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02917015 rno-miR-23a-3p miRNA MIMAT0000792 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID02980629 rno-miR-133a-5p miRNA MIMAT0017124 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID03211024 rno-miR-23b-3p miRNA MIMAT0000793 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID03594663 rno-miR-495 miRNA MIMAT0005320 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID03717799 rno-miR-6333 miRNA MIMAT0025074 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID03719757 rno-miR-181b-5p miRNA MIMAT0000859 Atg3 mRNA 171415 Prediction 0.1828 Atg3 RAID03858956 rno-miR-448-3p miRNA MIMAT0001534 Atg3 mRNA 171415 Prediction 0.1828