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 MIMAT0000550 rno-miR-323 59087 Nxf1 ucUCCAGCUGGCACAUU-ACAc ||| | ||| ||||| ||| cgAGG-CCACCCUGUAACUGUg 2 20 76 96 [rn4:1:211441565-211441585:+] 0.7427 129 0 -19.83 -0.1965 MIMAT0000576 rno-miR-336 59087 Nxf1 ucUGAUCUAUACCUUCCC-ACu |||:|: | ||||||| || ugACUGGGGA-GGAAGGGCUGc 2 20 95 115 [rn4:1:211441584-211441604:+] 0.7427 129 0 -24.71 -0.6267 MIMAT0000577 rno-miR-337 59087 Nxf1 uuuccGUAGUAUAUCCUCGACUu :| : |:|| ||||||| aagcuUACUUUGUA-GAGCUGAc 2 19 193 214 [rn4:1:211441682-211441703:+] 0.7427 148 7 -13.00 -1.1829 MIMAT0004646 rno-miR-338* 59087 Nxf1 gugaGUCGUGGUCC---UAUAACAa :||| |: || ||||||| uaaaUAGCCCUUGGAUAAUAUUGUc 2 19 21 45 [rn4:1:211441510-211441534:+] 0.5672 149 7 -14.42 -0.7188 MIMAT0004646 rno-miR-338* 59087 Nxf1 gugagucguggUC-CUAUAACAa || |||||||| uuaagauaaagAGUGAUAUUGUa 2 12 275 297 [rn4:1:211441764-211441786:+] 0.7427 146 7 -10.38 -1.1790 MIMAT0000601 rno-miR-129* 59087 Nxf1 uacgaaaAACCC-CAUUCCCGAa | ||| | ||||||| cugugacUGGGGAGGAAGGGCUg 2 16 92 114 [rn4:1:211441581-211441603:+] 0.7427 150 7 -22.02 -0.2269 MIMAT0004723 rno-miR-34c* 59087 Nxf1 ggaccgacacaccaaUCACUAa |||||| cuuuuuaagauaaagAGUGAUa 2 8 271 292 [rn4:1:211441760-211441781:+] 0.7427 120 6 -6.18 -0.3856 MIMAT0000847 rno-miR-142-5p 59087 Nxf1 ucaucACGAAAGAUGAAAUAc | | |:|||||| | caggaUUCCCUUUACUUUUUa 2 17 257 277 [rn4:1:211441746-211441766:+] 0.7427 120 0 -7.57 -0.1383 MIMAT0003202 rno-miR-382* 59087 Nxf1 uucacaacaggcaCUUACUAa ||:|||| uuuuuaagauaaaGAGUGAUa 2 9 272 292 [rn4:1:211441761-211441781:+] 0.7427 124 0 -7.00 -0.1162 MIMAT0005330 rno-miR-674-3p 59087 Nxf1 aacaagacucuaccCUCGACac |||||| aagcuuacuuuguaGAGCUGac 3 9 193 214 [rn4:1:211441682-211441703:+] 0.7427 120 0 -10.01 -0.1709 MIMAT0012839 rno-miR-668 59087 Nxf1 ccaucacccggcucggCUCACUGu ||||||: uacuuuuuaagauaaaGAGUGAUa 2 9 269 292 [rn4:1:211441758-211441781:+] 0.7427 124 0 -12.56 -0.3178 MIMAT0012845 rno-miR-935 59087 Nxf1 cgccaucgccuucGCCAUUGACc | ||||||| gcccgaggccaccCUGUAACUGu 2 11 73 95 [rn4:1:211441562-211441584:+] 0.7427 142 7 -11.33 -0.3733 MIMAT0000798 rno-miR-27b 59087 Nxf1 cgucuUGAAUCGGUGACACUu || |: ||||||| aggccACCCUGUAACUGUGAc 2 17 78 98 [rn4:1:211441567-211441587:+] 0.7427 144 7 -11.62 -0.6563 MIMAT0000799 rno-miR-27a 59087 Nxf1 cgccuUGAAUCGGUGACACUu || |: ||||||| aggccACCCUGUAACUGUGAc 2 17 78 98 [rn4:1:211441567-211441587:+] 0.7427 144 7 -11.62 -0.6563 MIMAT0000848 rno-miR-142-3p 59087 Nxf1 agguAUUUCAUCCUUUGUGAUgu |: || || :|||||| acuuUGUAG-AGCUGACACUAaa 3 20 199 220 [rn4:1:211441688-211441709:+] 0.7427 129 0 -11.41 -0.1085 MIMAT0000849 rno-miR-143 59087 Nxf1 acUCGAUGUC-ACGAAGUA-GAGu || | :| |||||||| ||| ggAGGAAGGGCUGCUUCAUCCUCc 2 21 102 125 [rn4:1:211441591-211441614:+] 0.7427 127 0 -19.07 -0.7680

DNA & RNA Element - TRANSFAC Accession AS Description Species Entrez Pubmed Binding Info G055084 Nxf1 Rattus norvegicus 59087

DNA & RNA Element - miRNAMap Gene Name Mature miRNA Target Start Target End miRNA 3-5 Alignment Target 5-3 Nxf1 rno-let-7c 95 121 -UUGGUA--UGUUGGAUGAUGGAGU- :||:: | :| :||:|:||| UGACUGGGGAGGAAGGGCUGCUUCAU Nxf1 rno-let-7e 110 133 -UGAUAU-GUUGGAGGA-UGGAGU :||: || |||||| |||| GGCUGCUUCAUCCUCCUCACCUA- Nxf1 rno-miR-128a 76 99 UUUUCUCUGGCCAAG---UGACACU- |||:|| ||||||| ---CGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-128b 76 99 CUUUCUCUGGCCAAG---UGACACU- |||:|| ||||||| ---CGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-129* 92 115 UACGAAAAACCCCA--UUCCCGAA ||: ||||| ||||||| CUGUGAC-UGGGGAGGAAGGGCUG Nxf1 rno-miR-132 78 105 GCUGGU---ACC--GACAUCUGACAAU- |:||| || |||| ||||| : AGGCCACCCUGUAACUGU-GACUGGGGA Nxf1 rno-miR-143 102 126 ACUCGAUGUC-ACGAAGUA-GAGU ||| | :| |||||||| ||| GGAGGAAGGGCUGCUUCAUCCUCC Nxf1 rno-miR-145 97 114 UUCCCUAAGGACCCUUUUGACCUG- |||||:|:: ||:| --------ACUGGGGAGGAAGGGCU Nxf1 rno-miR-148b 224 246 UGUUUCAAGACACUACGUGACU |:||| || |:||| ||| CCGAAGGACUUAGGUGCUCUGU Nxf1 rno-miR-150 96 116 GUGACCA--UGUUCCCAACCCUCU ||||| : ||||| || GACUGGGGAGGAAGGGCUGC---- Nxf1 rno-miR-151* 90 120 AUGAU-CUGACA-------CUCGA-GGAGCU |||: ||||| |:||| |:|| AACUGUGACUGGGGAGGAAGGGCUGCUUCA- Nxf1 rno-miR-184 26 74 -UGGGA----------AUAGUCAA-------------GAGG CAGGU :|||| |:|| | |||| ||||| AGCCCUUGGAUAAUAUUGUCUGGCUGUCAUCUGCGGACUCCUGUCCAG Nxf1 rno-miR-193 55 85 -GAC-CCUGAA-ACA--------UCCGGUCAA ||| ||||| ||| |||||| UCUGCGGACUCCUGUCCAGCCCGAGGCCAC-- Nxf1 rno-miR-207 99 115 UUCCCUCCU-CUCGGUCCUCUUCG :||||||| |:||: UGGGGAGGAAGGGCUG-------- Nxf1 rno-miR-212 78 106 -CCGG-----------CACUGACCUCUGACAAU |||| ||||||||:|| AGGCCACCCUGUAACUGUGACUGGGGAG----- Nxf1 rno-miR-22* 205 235 -UUUCGAACGGUGA--------CUUCUUGA- |:|||| |||| ||||:||| UAGAGCUGA-CACUAAAUUACCGAAGGACUU Nxf1 rno-miR-224 57 101 AUUUGCCU----------UGG---------------UGAUCACUGAAC :|||| :|| ||| |||||| --UGCGGACUCCUGUCCAGCCCGAGGCCACCCUGUAACU-GUGACUG- Nxf1 rno-miR-23a 76 99 CCUUUA--GGGACCGUUACACUA ||:: ||||| | ||||| CGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-23b 83 99 CCAUUAGGGACCGUUACACUA ||||| | ||||| -----ACCCUGUAACUGUGAC Nxf1 rno-miR-24 156 175 GACAAGGACGACUUGACUCGGU |||| | :|:|||||| --CUUCCGGAA-GAUUGAGCCU Nxf1 rno-miR-27a 57 99 -CGCCUU--GAA---UCGG---------------UGACACUU ||||| || |||| ||||||| UGCGGACUCCUGUCCAGCCCGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-27b 57 99 -CGUCUU--GAA---UCGG---------------UGACACUU ||:|| || |||| ||||||| UGCGGACUCCUGUCCAGCCCGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-292-5p 149 173 GUUUUCUCGGGGGUCA---AACUCA |:|||| |::||:| ||||| GAGAAGA-CUUCCGGAAGAUUGAGC Nxf1 rno-miR-298 104 132 -CCUUCUUGUCG-----GGAGGAGACGG- |||||::| || ||||||| || AGGAAGGGCUGCUUCAUCCUCCUCA-CCU Nxf1 rno-miR-29a 222 243 UUGGCUAAAGUCUA---CCACGAU ||||| :|| |||||| UACCGAA---GGACUUAGGUGCUC Nxf1 rno-miR-29b 162 184 -UUGUGACUAA-AGUUUACCACGAU || |:||| ||| |||||| GAAGAUUGAGCCUCA--UGGUGCC- Nxf1 rno-miR-29c 222 243 -UGGCUAAAGUUUACCACGAU ||||| |||||| UACCGAAGGACUUAGGUGCUC Nxf1 rno-miR-300 26 39 CUUCUCUCGAACGGGAACGUAU- ||||||| ||| ----------AGCCCUUGGAUAA Nxf1 rno-miR-323 283 305 -UCUCCAGCUGGCACAUUACACG- |||| :||: ||||:||||: AAGAG--UGAUAUUGUAGUGUGUG Nxf1 rno-miR-324-5p 79 114 UGUGGUUACGGGAU-----------CCCCUA-----CGC :||| ||||: ||||| || -GGCCA---CCCUGUAACUGUGACUGGGGAGGAAGGGCU Nxf1 rno-miR-328 159 187 UGCCUUCCCGUCUCU-----CC-CGGUC- |||||| ||| || ||||| CCGGAAGAUU-GAGCCUCAUGGUGCCAGG Nxf1 rno-miR-336 95 116 UCUGAUCUAUACCUUCCC-ACU ||||:|: ||||||| || UGACUGGGGA-GGAAGGGCUGC Nxf1 rno-miR-337 194 215 UUUCCGUAGU--AUAUCCUCGACUU || |:|| ||||||| ---AGCUUACUUUGUA-GAGCUGAC Nxf1 rno-miR-339 76 113 ACU-CGA--GGA--------------CCUCCUGUCCCU || || ||| |||||| |||| CGAGGCCACCCUGUAACUGUGACUGGGGAGGA-AGGGC Nxf1 rno-miR-340 78 109 -CCG-----AUAUUU-CAUUGACUCUGCCU- ||| |:||| ||:||||:|: ||| AGGCCACCCUGUAACUGUGACUGGGGAGGAA Nxf1 rno-miR-343 97 113 AGACCCGUGUGCC-UCCCUCU ||||| || |||| ACUGGGGA---GGAAGGGC-- Nxf1 rno-miR-345 90 114 CGUGAC-CUGAUCCC-CAG--UCGU |||| ||||:||| | :|| -AACUGUGACUGGGGAGGAAGGGCU Nxf1 rno-miR-346 46 65 UCUCCGUCCGUGAGUC--CGUCUGU ||| ||| ||:||| ------UGGCUGUCAUCUGCGGACU Nxf1 rno-miR-349 99 116 UCUCCAAUUCUGUCGUCCCGAC- || |:|| ||||||| --UGGGGAGGA----AGGGCUGC Nxf1 rno-miR-363-5p 56 79 UUUAACGU---AGCACUAGGU-GGGC- |||: || || |||| |||| ---CUGCGGACUCCUG-UCCAGCCCGA Nxf1 rno-miR-370 58 83 UUGGUCCAAGGUGGGGUCG---UCCG- |:| ||| :||||| |||| --GCGGACUCCUGUCCAGCCCGAGGCC Nxf1 rno-miR-422b 50 75 -CGGAAGA---CUGAGGUUCAGGUCA |:| ||| |||||| |||||| UGUCAUCUGCGGACUCCU-GUCCAGC Nxf1 rno-miR-424 97 118 AGGUUUUGUACUUAACGACGAC |: :: ||| |||||| ACUGGGGAG-GAAGGGCUGCUU Nxf1 rno-miR-483 90 109 -UGUU-CUGCCCUCCCCUCCUCACU || ||| |||||||| AACUGUGACU---GGGGAGGAA--- Nxf1 rno-miR-485 51 78 CUUAAGUAG-UGCC--------GGUCGGAGA ||||| :||| |||||| | ---GUCAUCUGCGGACUCCUGUCCAGCC-CG Nxf1 rno-miR-541 242 270 -ACAC-UG-GUUGUAGUCUUA-GGGAA- |||| || :||| |||:|| ||||| CUGUGUACUUAACCCCAGGAUUCCCUUU Nxf1 rno-miR-9 173 197 -AGUAUGUCGAUCUAUUGGUUUCU ||||: || ||: |:|||||| CUCAUGGUGCCAGGAAGCCAAAGC Nxf1 rno-miR-96 169 196 -UCGUUUUUACACGAUCA--CGGUUU- ||| |||| || |||||| GAGCCUCAUGGUGCCAGGAAGCCAAAG Nxf1 rno-let-7c 115 137 uugGUAUGUUGGAU-GAUGGAgu ||| | |: | |||||| cttCATCCTCCTCACCTACCTtc Nxf1 rno-let-7e 111 137 uGAU-AUGUUGGA-----GGAUGGAgu ||: | || ||| ||||||| gCTGCTTCATCCTCCTCACCTACCTtc Nxf1 rno-miR-129* 92 114 uACGAAAAACCC-CAUUCCCGAa ||: | ||| | ||||||| cTGTGACTGGGGAGGAAGGGCTg Nxf1 rno-miR-132 81 103 GCUGGUAC--CGACAUCUGACaau | ||| || |||| ||||| CCACCCTGTAACTGT-GACTGggg Nxf1 rno-miR-140* 72 99 aCAGGCACCAAGAUGG------GACACcau | ||| || | ||| ||||| aGCCCGAGG--CCACCCTGTAACTGTGact Nxf1 rno-miR-145 77 98 uUCCCUAAGGACCCUUUUGAC-CUG ||| |||| ||||| ||| gAGGCCACCCTG---TAACTGTGAC Nxf1 rno-miR-150 84 106 GUGACCAUG-UUCCCAACCCUCu | ||| || : | | ||||| CCCTGTAACTGTGACTGGGGAGg Nxf1 rno-miR-151* 105 129 augauCUGAC--ACU-CGAGGAGcu |:||| | | |||||| ggaagGGCTGCTTCATCCTCCTCac Nxf1 rno-miR-184 48 72 uGGGAAUAG--UCAAGAGG-CAGGU |: | ||| | |||| ||||| gCTGTCATCTGCGGACTCCTGTCCA Nxf1 rno-miR-193 56 86 GAC-CCUGA-AACA--------UCCGGUcaa ||| ||||| ||| |||||| CTGCGGACTCCTGTCCAGCCCGAGGCCAccc Nxf1 rno-miR-207 85 107 uucccuccuCUCGGUCCUCUUCg | | | ||:||:| cctgtaactGTGACTGGGGAGGa Nxf1 rno-miR-212 79 103 CCGG-----CACUGACCUCUGACaau |||| || ||| | ||||| GGCCACCCTGTAACT-GTGACTGggg Nxf1 rno-miR-214 41 62 gACGGACAGACA-CGGACGACa ||:||| |||| :|||| | tTGTCTGGCTGTCATCTGCGGa Nxf1 rno-miR-22* 206 233 UUUCGAACGGUGA--------CUUCUUGA |:||| || |||| ||||:||| AGAGC-TGACACTAAATTACCGAAGGACT Nxf1 rno-miR-224 72 101 auuuGCCUUGGUG----AU---CACUGAac || ::|||| || |||||| agccCGAGGCCACCCTGTAACTGTGACTgg Nxf1 rno-miR-23a 79 98 CCUUUAGGGACCGUUACACUa || | ||||| | ||||| GGCCA-CCCTGTAACTGTGAc Nxf1 rno-miR-23b 79 98 CCAUUAGGGACCGUUACACUa || | ||||| | ||||| GGCCA-CCCTGTAACTGTGAc Nxf1 rno-miR-24 154 174 gacAAGGACGACUUGACUCGGu |||| | | |:|||||| gacTTCCGGAAG-ATTGAGCCt Nxf1 rno-miR-27b 70 98 cGUCUUGAAUCGG--------UGACACUu ||| | :||| ||||||| cCAGCCCGAGGCCACCCTGTAACTGTGAc Nxf1 rno-miR-298 105 131 CCUUCUUGUCG-----GGAGGAGacgg |||||::| || ||||||| GGAAGGGCTGCTTCATCCTCCTCacct Nxf1 rno-miR-29b 163 184 UUGUGACUAAAGUUUACCACGau || |:||| | ||||||| AAGATTGA-GCCTCATGGTGCca Nxf1 rno-miR-29c 223 242 uggcuaaaguuuaCCACGAu |||||| accgaaggacttaGGTGCTc Nxf1 rno-miR-300 16 37 cuucucucgAACGGGAACGUAU | ||||||| ||| ccttgtaaaTAGCCCTTGGATA Nxf1 rno-miR-323 284 303 UCUCCAGCUGGCACAUUACACg |||| :||: ||||:|||| AGAG--TGATATTGTAGTGTGt Nxf1 rno-miR-324-5p 81 116 uGUGG----UU-ACG-GGAUC-------CCCUACGc |||| || ||: ||:| ||| ||| cCACCCTGTAACTGTGACTGGGGAGGAAGGGCTGCt Nxf1 rno-miR-340 79 102 CCGAUAUUUCAUUGACUCUG-CCu ||| | ||||||| ||| || GGCCACCCTGTAACTGTGACTGGg Nxf1 rno-miR-343 91 110 aGACCCGUGUGCCUCCCUCu ||| | :: ||||| || aCTGTGACTGGGGAGGAAGg Nxf1 rno-miR-345 89 116 cgUGAC-CUGAUCC------CCAGUCGu |||| ||||:|| || | || taACTGTGACTGGGGAGGAAGGGCTGCt Nxf1 rno-miR-346 44 64 ucuCCGUCCGU-GAGUCCGUCUGu ||| | || || ||:||| tctGGCTGTCATCT---GCGGACt Nxf1 rno-miR-349 93 114 uCUCCAAUUCUGUCGUCCCGAC | | |::|: :| ||||||| tGTGACTGGGGAGGAAGGGCTG Nxf1 rno-miR-363-5p 53 77 uuuaACGU---AGCACUAGGU-GGGC |||: || || |||| |||| catcTGCGGACTCCTG-TCCAGCCCG Nxf1 rno-miR-370 56 81 uugGUCCAAGGUGGGGUCG---UCCG |:| ||| :||||| |||| ctgCGGACTCCTGTCCAGCCCGAGGC Nxf1 rno-miR-422b 51 74 CGGAAGA---CUGAGGUUCAGGUCa |:| ||| |||||| |||||| GTCATCTGCGGACTCC-TGTCCAGc Nxf1 rno-miR-424 96 117 agguuuuguacuuaaCGACGAc |||||| gactggggaggaaggGCTGCTt Nxf1 rno-miR-483 92 115 uguuCUG-CCCUCCCCUCCUCACu ||| |||: || |||: || ctgtGACTGGGGAGGAAGGGCTGc Nxf1 rno-miR-485 48 78 cuuaAGUAG-UGCC--------GGUCGGaga ||||| :||| |||||| gctgTCATCTGCGGACTCCTGTCCAGCCcga Nxf1 rno-miR-541 243 268 ACAC-UG-GUUGUAGU-CUUAGGGAA |||| || :||| || || |||||| TGTGTACTTAACCCCAGGATTCCCTT Nxf1 rno-miR-9 174 196 AGUAUGUCGAUCUAUUGGUUUCu ||||: || ||: |:|||||| TCATGGTGCCAGGAAGCCAAAGc Nxf1 rno-miR-96 160 186 uCGUUUUUACACG----AUCACGGUuu | ||:| || || |:|||||| cGGAAGATTGAGCCTCATGGTGCCAgg Nxf1 rno-miR-129* 107 114 U--------------------ACGAAAAACCCCA--UUCCCGAA ||: ||||| ||||||| AGCCCGAGGCCACCCUGUAACUGUGAC-UGGGGAGGAAGGGCUG Nxf1 rno-miR-27a 91 98 --CGCCUU--GAA---UCGG---------------UGACACUU ||||| || |||| ||||||| CUGCGGACUCCUGUCCAGCCCGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-27b 91 98 --CGUCUU--GAA---UCGG---------------UGACACUU ||:|| || |||| ||||||| CUGCGGACUCCUGUCCAGCCCGAGGCCACCCUGUAACUGUGAC Nxf1 rno-miR-337 207 214 UUU---CCGUAGU------------------AUAUCCUCGACUU ||: || |:|| ||||||| CCUCAUGGUGCCAGGAAGCCAAAGCUUACUUUGUA-GAGCUGAC

DNA & RNA Element - RAID2 Gene Name RAID ID Interactor 1 Category 1 ID 1 Interactor 2 Category 2 ID 2 Methods Score Nxf1 RAID00368347 rno-miR-129-1-3p miRNA MIMAT0017120 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID01108064 rno-miR-3547 miRNA MIMAT0017802 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID01295714 rno-miR-143-3p miRNA MIMAT0000849 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID01540489 rno-miR-221-5p miRNA MIMAT0017163 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID01606692 rno-miR-27a-3p miRNA MIMAT0000799 Nxf1 mRNA 59087 Prediction 0.2202 Nxf1 RAID02906939 rno-miR-1188-3p miRNA MIMAT0017855 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID03132167 rno-miR-142-3p miRNA MIMAT0000848 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID03274115 rno-miR-129-2-3p miRNA MIMAT0000601 Nxf1 mRNA 59087 Prediction 0.1828 Nxf1 RAID03877596 rno-miR-27b-3p miRNA MIMAT0000798 Nxf1 mRNA 59087 Prediction 0.2202