miRTarBase - #MIRT133678


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pre-miRNA Information
pre-miRNA hsa-mir-499a   
Genomic Coordinates chr20: 34990376 - 34990497
Description Homo sapiens miR-499a stem-loop
Comment The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies .
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-499a-3p
Sequence 70| AACAUCACAGCAAGUCUGUGCU |91
Evidence Experimental
Experiments Cloned
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN30512073 1 COSMIC
COSN8868602 4 COSMIC
COSN20079766 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs768246420 3 dbSNP
rs3746444 4 dbSNP
rs761417578 6 dbSNP
rs150018420 8 dbSNP
rs1406470841 9 dbSNP
rs772652105 11 dbSNP
rs1189840352 16 dbSNP
rs759966338 17 dbSNP
rs1475405341 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ETNK1   
Synonyms EKI, EKI 1, EKI1, Nbla10396
Description ethanolamine kinase 1
Transcript NM_018638   
Other Transcripts NM_001039481   
Expression
Putative miRNA Targets on ETNK1
3'UTR of ETNK1
(miRNA target sites are highlighted)		 
>ETNK1|NM_018638|3'UTR
   1 AGAAGAGATTTAATTATTCTCCAGTAGCTGAGCAATGCTTGTGAATCTTTTCTTAAGAAATCCCAAAAAGCCAATATTAG
  81 TTAAAATTCTGTTGTTTAATTTGGTTATCTTGCTTTATAAATTATGCCTCTAAACAATCAAATCTATTTTTGAAATAGAC
 161 TGAATGATGTCAAGAAATATACCTACTGCTATCCGTATGTGGTGGATTAGAAATGTGTTAAATCTGCAAAAGGTATAAAG
 241 ATGTCAGTTTAATTTCTTTGATAATTTAACCTATGTTGTATGTGAATTATTTATTATAAACTTAGCACGATTCTGTGACT
 321 GTTTTTCTCTGTTTCACGTTCGTTGAGTGTAAGCAATGAAAATGTCCCAAATAAGTTTTTTAAGTTTTACTTTAATAAGA
 401 TTAATTTCAGTAAACATTCTAGTTGTTCAGTGTAACCTTTTTATCTTGATGCATTGTAAGTAAAATGAATCATTTACTCT
 481 TGAAATGCCAGTCATTGACTGATGTAGATAATTTAGGATTTTCATATAAAAATAGCTGTTTAGGAAGGTGAAATACATTC
 561 ACTGTCTCTGTTGGTGGTACATCTTGTTGAATTCAATATTAGAAAGTATTTCTTTTTGGGGTAATATAACTTAGAATTAA
 641 ATCCCTGTTTCTCTATGTAGTCTGGCAGTATAAATATAAATATTTACCATATAATCTTGGAATAAGTATTAGTTAATGTT
 721 ACCAAAATCTGTATTAAATAATGTTTTCAAATGCTAAATATGGTCGTTACTATTTTCAGTTTTAAAAATTTTATAGTATC
 801 AAATTGTTTCTAACCAAAAATTTCCTTTTACTTCTAGAGATGCTTTATGTTTTTGATTATTAAATAGTCACTAGTATTGC
 881 TAATTTTTGAAACAAATACACAAAATTTATCATATGTAGAAATAAGAAAATATTGTTTAGGTTAATTATTTTTTACCTAT
 961 CCAGAGTCATTCCTTACATTTCAGTTTCATGTTTCATTCCTCACATTTTAGTTTCATGTTTTAGTTTGATTCTATGTTTT
1041 TAGACTGATAGCAAATGATTACTTGATACATGTAAGTTCAGCGTTATATGTTGAGGCAGTTATATAATTAAATAAGGAAC
1121 ACTTAGGGCATTGATCTTGTACACTTAAAATCTGACAAATGACAAAATGTGAATTAAGCATAAATAGTCATGGCAGGAGG
1201 GCTTTTGTTTATTTCTCTTGTTTTTGTTTAACTGTATTTTTAATTTTGTCTGGTGGTAAGAGGGAGGTAATTATTGTATG
1281 GAAAGAAGTTAGATCTTTCAGATAGATAAATAGGCTTCAGGTTTTGAAGTCTGCTCTGTGTAGTTGAGCAGTCATGGTTA
1361 ACTTTACTTAGAAAATTAGTCTGACAAGCTTTGCACTTCGGTCACATAAGTGCCCATGTACAAAGTTGGCTTACTGGATC
1441 TGCATATTCAAAATATGCAACTACAAATTTATCCTCTGAGAAATCTTCTGAGGAGTCTAATGTATTCCAAATGACTTAAT
1521 ATTCTCAGACAAATGCTTTAAAATACTTGGATTATCTCAAGATTTTTGAAGCTAATAAAGTAAATAGAAACACAGGCCAT
1601 TTTAAATGGTAAATTCTAGTTACATAAATATAATCTTAAAGTATGTTTGTATCTGTAACAGTGTTAGACCAGATTTGGTT
1681 TCTACCTCCCCAATGTTATAAATGTTCACTTTTGTTTTTATAAACCATATTACTGTAAGATCAATAGAACTTTGCCTAGT
1761 TAAGTGAATGGAACCAATTAAACAACTAGTAGCTTTTTATAATGTTAGTGTGAACTTGAAAAATTGTTTTTGGTGGAATT
1841 TTTGTCTGTGGTTAGAACATTTTCATAAAACAGATAAAGAATGTGTAATACTCTTAATTTTTTTTTTTTTTTTTTTTTTT
1921 TTTTTGCTTTCTGCCTTCTAAAGTGCAACAGTATATATCTTGTAGAACTGTGGGAGGAGAGAAGATAATTTTTCTACCTT
2001 ACTCCATATTCTTACTTCAAACTATTTTGAATAGAGGTTCACTGAGCCATTGCTGATAGACTGTGCATAGCTACTAGCTG
2081 TCACACTATTGTAGGTTTTTTGGAGAGATTCATAGGGAAGTGAATGTAACCAGGAATAAAGGCTCTCACTTTAGCTCTGG
2161 GACTATGCAGTGGATCTTGGGAACAAAATAAGATATCTAATCTATTTTCCCCATTCTGGCTAGATTTTGGTTGTTGTGAT
2241 GCTCCTACTTCCTGTATAGGTTTTTGGGATCATGGTGCAGGCTAGTAATAGGATTCAGAATTGCTTCCCTTTTATATCGA
2321 CCATGTAAGGGATTCTAAAGGAGGGTAAATCTCAAAGTGCTCTGAAATCATCCCTCTAAAATCTGTCCTGTGGTGTGCTA
2401 AGATGTCTGTTGCCTTTTTATGTTAAGCTAAGGAACTTGAATGCCTTACCTAATAACTCAACTAGTAGTAAGCTCATTTT
2481 GTAAATATGAAAATGGCTGTAAGAAGTGGCATTCATGTATATTCAATGTTAGTCAATAGACCATAGTGGCCTGGATGCTT
2561 TAACAAGCCAAATTCCGCAATTTTTTTTCCTTTTTTCCCCTTCATACTTGTATGATCTCACCTGACCAGTGATTTCTTTT
2641 CCTCCTAACCCCATGCTACCACCATTTTCTGGAAATCAAAGAGATGTGGTAGTAAATCATACAGTACACACGATCATCTG
2721 AGATCAATATGAGCACAAAACTCATCAAGTAGGTCTGCCTGGAATGTATATAAAAAATGTAAATAAAAATTTGTAAATTA
2801 GTGTGAACTGTATCTTGCATATGAGACTGTGTATTGTTTTGCATTCTCTTCCCTTTTGTAGAAATTTTTCTGTAAGGAAA
2881 TGATTCAGCTTGTTGGTTTTAGAGTAAAAATAGCCAACAGTTGTGGCTACACAGTGAGATCACAGGAACTGGAAATAGGG
2961 TTTGTCGGCTTTGGTTAATGTCAGTACTCATTTATTTAGCCTCTCAGTGCTTAATAAGACTTTTCTTTATTTTTTAGTTA
3041 GCCGTTAGGTTTTGTGAGGTTAGATTCCTGGAAGCAGTGAATTTATACACTGTTATATTAATAGAGCTCCGTTCTTTGAG
3121 TCATGATTCCAAGCTAAAGGAAATTAAAAATGTAATTTAATAATTTCCTATTTTTAGGGTTGTTAATTTTTTTCTACAAA
3201 AAAACCTTGAAATTTTAGATATCCCAATGTGAATCTAATTTCCATATATACAGAAATTAGACAAATAATAAGTCTTTAGT
3281 TCAACTTAAGCATATCTCAAATGACTTCTCTAAATTTAAAGTTGATCATGATAGGATCATAAAAGACAGAAAAGACTTAA
3361 GTAATCTTGTAATGACAATTATTTCCATTTTTGCTGAACTAAAAATATTTAACTTCATAAATATGTTACTACAGCTTCCA
3441 GATTTAAAGAAAAAAAGTTTCCCCCACTCTCAATTAAAAGTTAGAACCCTCCACTTTTAAAATTATACAAATATTTCTTT
3521 TTTACATTACACAGAAGCCTTCTGTACCATTTTACGAATTTCTGTCTTCATAATATAAGTGAAAATACTGTCATTTCAAT
3601 TTTCTGCTTTAAATTGTTTTTAATAAGCATTCCAAAGTGATACAGACTTAAGCTTTTAATCAATCAGTCATTCAGTTGAT
3681 AGACAAAGTTAGCGATGCTTTATGCTAGGAAACTTGTTGACAGTAACCTGTGCGACTTTATGCAGAAGACAAATGCTAGT
3761 AATTATTATGCACAGAGGAAAAATCATTTTAAGTATGTGGTAAAGCAGCTTCATCTTTCAAAATTGATTTGCTCTGGTTT
3841 TTCTTTAGTCCATTAGATTCCAGAATGTCCTTTTACTGGGAATTTAGTTATGTATTAAGATAACCTGTTTTCAGTTCTTT
3921 TTGAAAAGAAGACATTATTTATATTGAACCACCTTATTTTAAAATTTTTAACTTTTATATACCACTTGTGTGATTCCAGT
4001 GTCATGTCTTGGGTTTGATGTCGTTGGACAGAAAAGTGTATCAATTATTTTAAATGAATTTTTCCCCATGTTTGAGGCTT
4081 AGTCTGTAAATGTGTTGCTGTAACAGAAAATACTTGGGTATGCATTACTTGAATACTTGAAAACTGAAATTAATAAGATG
4161 TATTACATAATGAATTAGATTTCTCTGAACAGTTTTTACACTGAAAATCTTCATTTCTGGATTGCAGTTTGAAATGGAAT
4241 GAAGACCTGAATTATTTGGGTAGAAAAAATTATGATAGTGCTTATAAGAACTGTAAACTGTTTTAAACTATTTTGTGTTT
4321 GACGCATCAAACTTCAAGTTTTTTGTAAGTTTCTCTCCTGAAATTTTCTTTCTCTTCTATACTTTATGCACTTACTATAC
4401 TACTGATGTAATAAAAGAGCAGGGTTAAAAATATTGTATCTGTATTCATTGTGAATCCTGTAGCTTTTCTAGTTAACAAA
4481 AAATCGCTTTCTAAAATACTCTTAATCCCATTGTTTTGGTTAACATCTTACCCATTTGTTGTATTTCAAATGCCATTAAT
4561 CATTTTAGTACAACACCTATGTTTATAAAAATTTGAAAACATTACATATTGTATTTAAAACTAATTAGTGAAGAGTAAGA
4641 AAAAAACTAGCCAACAGAATTGTAGGTGATGCATTAGTTAAATTTCAAAACTCATAATAAAGGAACTTTCAGAGATTGGT
4721 TGAAACCCAGTGGTATCCCTGTAAATTAGCTCCTGTGACTGGAAAAGACCCCAAAAAGGCAGTAGAGGAGATTAGTGTTT
4801 ACTTGCTGTGGTTGTGGTGTGCTGCTACTTAATTATAGGTAGTGACACACTGAAATTCTTATTTGTCCAATAATCTGAAG
4881 TAGTTTCCTATATTTATCTGTACTAAATTGACTATAAATTGAGTCTGCAAAGAGGAAACTTTTTGACTGTACTGTATTTA
4961 GGAGCCTTTGTACAGCTTGGTCAAATTTCCATGATATGAAGTATTTGAGTTTTAAAATATACTGTTATTAAAAGGAAAAA
5041 GACATGGCCATTATTCCATGTGCTTAAATGATAATTTCCTTATTCAGTTTCAGAAGAAAAAGAATGAAATTGGGTAACTG
5121 TCATTGCGTTAGCTTTATGTTGAATTGGGAAATTGTGGCATAAAGCTTAAATTCGTGTTTATCAAATGTGAACCATAGTA
5201 GTATAATGCTGCTTTGTATATAATGTAAGTGCTACAAATAGTCTCAGCACTGAAAATGTATTGATACCTCTTAAATGAAT
5281 GCAACTTTTGATGTAGGTGTTTTGCTATGCCTCAGAAAATATCTGTCTGAGAATTTGTTAATCTGTTTGATAATGAAGAT
5361 ACTTCCTGTTTTCTTGTTTCATATTTTCATGTTCAAAATTTAAGTTTTACATTTTTACTACTGTTAATTTAAATAAAATT
5441 TGTTCTGTGGATAAAATGAGGTTGGCAGTGAAGAAAATTAAAAACAGCCTCATTCATGTAACTGGTTAAGTAAAAATACA
5521 TTTTCACTATGTGTTCATAAACTTTTAATGAAGCTGTTTGTCTTTCAGTTCAAATATAAGTGATGTTTAGGCTTTATTTC
5601 TGTTAATAAGGCTTTTTACCATTGATTAAATGAAGGAATGTATCTTTTTGAAGAGATTTATATTCTGTAAATAAAAATTC
5681 GTTGTAACAATAAAGTTGAGTTCTAACTACAGTGTATTCA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' ucgUGUCUGAACG-ACACUACaa 5'
             ||||| |||:  ||||||  
Target 5' ccaACAGAATTGTAGGTGATGca 3'
 4651 - 4673 147.00 -15.10
2 
miRNA  3' ucguGUCUG-----AACGACACUACaa 5'
              :|||:     |||:|||||||  
Target 5' tggcTAGATTTTGGTTGTTGTGATGct 3'
 2217 - 2243 142.00 -16.80
3 
miRNA  3' ucgugucUGAACG------ACACUACAa 5'
                 ||||||      ||||:||| 
Target 5' agtgtttACTTGCTGTGGTTGTGGTGTg 3'
 4794 - 4821 141.00 -17.14
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31479638 6 COSMIC
COSN30479925 23 COSMIC
COSN31497651 27 COSMIC
COSN30466250 53 COSMIC
COSN24312772 58 COSMIC
COSN30474220 64 COSMIC
COSN30158886 98 COSMIC
COSN1146256 108 COSMIC
COSN19646404 109 COSMIC
COSN26175414 140 COSMIC
COSN30167621 149 COSMIC
COSN7322721 279 COSMIC
COSN1146257 329 COSMIC
COSN20092536 381 COSMIC
COSN16449994 736 COSMIC
COSN20109339 800 COSMIC
COSN7612998 1035 COSMIC
COSN4701929 1091 COSMIC
COSN30544896 1096 COSMIC
COSN30545022 1117 COSMIC
COSN31519152 1150 COSMIC
COSN30545029 1162 COSMIC
COSN31542043 1197 COSMIC
COSN30541165 1240 COSMIC
COSN31522321 1257 COSMIC
COSN22711525 1265 COSMIC
COSN31480830 1332 COSMIC
COSN30545027 1481 COSMIC
COSN31515377 1542 COSMIC
COSN28111783 1569 COSMIC
COSN31593982 1615 COSMIC
COSN31547662 1636 COSMIC
COSN30159367 1711 COSMIC
COSN31585329 1748 COSMIC
COSN19501468 1844 COSMIC
COSN15677893 1988 COSMIC
COSN25789434 2053 COSMIC
COSN1567314 2107 COSMIC
COSN26349263 2332 COSMIC
COSN31563726 2450 COSMIC
COSN31588386 2555 COSMIC
COSN31565665 2565 COSMIC
COSN22807082 2589 COSMIC
COSN26808666 2705 COSMIC
COSN27685454 2764 COSMIC
COSN31541269 2804 COSMIC
COSN31539166 2825 COSMIC
COSN8585873 2869 COSMIC
COSN31881820 2881 COSMIC
COSN20092537 2984 COSMIC
COSN5938735 3308 COSMIC
COSN8705943 3519 COSMIC
COSN31546818 3660 COSMIC
COSN25401860 3979 COSMIC
COSN25398957 4025 COSMIC
COSN7322722 4354 COSMIC
COSN20617071 4357 COSMIC
COSN22386145 4380 COSMIC
COSN27159974 4674 COSMIC
COSN25929220 4788 COSMIC
COSN20092538 4853 COSMIC
COSN7322723 4895 COSMIC
COSN31523679 4999 COSMIC
COSN31567741 5018 COSMIC
COSN31588109 5055 COSMIC
COSN31563727 5151 COSMIC
COSN21090763 5175 COSMIC
COSN31549270 5238 COSMIC
COSN30540805 5278 COSMIC
COSN31565944 5332 COSMIC
COSN20092539 5362 COSMIC
COSN31568879 5542 COSMIC
COSN31606781 5614 COSMIC
COSN31607870 5638 COSMIC
COSN28633573 5661 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1231807419 5 dbSNP
rs1309931478 7 dbSNP
rs377113417 11 dbSNP
rs539842901 22 dbSNP
rs1327869403 25 dbSNP
rs1360800265 26 dbSNP
rs181367012 28 dbSNP
rs1352799615 31 dbSNP
rs1435336407 32 dbSNP
rs1364976306 34 dbSNP
rs1318905779 35 dbSNP
rs781436816 35 dbSNP
rs745969645 39 dbSNP
rs1381372265 42 dbSNP
rs1285156741 43 dbSNP
rs369665317 44 dbSNP
rs1224722581 45 dbSNP
rs780747349 46 dbSNP
rs749812731 48 dbSNP
rs535450267 52 dbSNP
rs779162414 53 dbSNP
rs987525040 55 dbSNP
rs1464663973 64 dbSNP
rs929561018 67 dbSNP
rs1169515559 75 dbSNP
rs12316161 79 dbSNP
rs778414521 80 dbSNP
rs138515741 81 dbSNP
rs541295954 111 dbSNP
rs1256865117 113 dbSNP
rs920055279 128 dbSNP
rs1482017491 136 dbSNP
rs1421118890 139 dbSNP
rs1012913763 161 dbSNP
rs931416035 166 dbSNP
rs1228725794 179 dbSNP
rs1340958202 182 dbSNP
rs1295876506 183 dbSNP
rs1247354691 187 dbSNP
rs771061531 192 dbSNP
rs186999399 195 dbSNP
rs908618360 196 dbSNP
rs1462377604 206 dbSNP
rs1394775711 218 dbSNP
rs377529341 222 dbSNP
rs577431418 223 dbSNP
rs1372528867 231 dbSNP
rs1308665480 240 dbSNP
rs1429365661 242 dbSNP
rs1388485359 243 dbSNP
rs938717813 246 dbSNP
rs1002923339 248 dbSNP
rs1035275354 249 dbSNP
rs1057440639 267 dbSNP
rs1368808213 271 dbSNP
rs956541399 274 dbSNP
rs771257770 279 dbSNP
rs543185232 283 dbSNP
rs988489248 287 dbSNP
rs1205176776 291 dbSNP
rs1022201900 294 dbSNP
rs1310525737 297 dbSNP
rs894402397 305 dbSNP
rs562651938 306 dbSNP
rs1357549289 311 dbSNP
rs1283938473 316 dbSNP
rs967722806 326 dbSNP
rs1042931612 328 dbSNP
rs776629924 330 dbSNP
rs985759472 338 dbSNP
rs759772817 339 dbSNP
rs1368778358 342 dbSNP
rs1325834377 343 dbSNP
rs1406139380 348 dbSNP
rs998675868 349 dbSNP
rs1162384720 368 dbSNP
rs1459821107 372 dbSNP
rs141163915 374 dbSNP
rs890200438 375 dbSNP
rs919438321 377 dbSNP
rs770047319 381 dbSNP
rs548340922 382 dbSNP
rs1017654030 385 dbSNP
rs1230650923 392 dbSNP
rs929477192 393 dbSNP
rs1049812344 396 dbSNP
rs1451777649 396 dbSNP
rs964329200 403 dbSNP
rs1331660800 405 dbSNP
rs374911721 411 dbSNP
rs370988717 414 dbSNP
rs1456431021 417 dbSNP
rs34490298 423 dbSNP
rs975613355 426 dbSNP
rs1027122605 427 dbSNP
rs1276651657 430 dbSNP
rs776159273 431 dbSNP
rs952909333 432 dbSNP
rs982892841 433 dbSNP
rs1330681583 435 dbSNP
rs1322657062 440 dbSNP
rs1180359514 452 dbSNP
rs1459740011 453 dbSNP
rs1044422855 467 dbSNP
rs1413404102 469 dbSNP
rs1159874570 471 dbSNP
rs1456608680 474 dbSNP
rs1475559250 480 dbSNP
rs1405200764 489 dbSNP
rs562093001 505 dbSNP
rs960390450 506 dbSNP
rs528011316 509 dbSNP
rs1191349837 512 dbSNP
rs548087781 525 dbSNP
rs1002974039 534 dbSNP
rs915875825 536 dbSNP
rs1208685579 555 dbSNP
rs948680761 558 dbSNP
rs746134393 565 dbSNP
rs1043025348 575 dbSNP
rs925843038 581 dbSNP
rs1344392241 582 dbSNP
rs1356679072 583 dbSNP
rs191738259 586 dbSNP
rs577984988 597 dbSNP
rs560095587 603 dbSNP
rs890219109 613 dbSNP
rs967943380 625 dbSNP
rs1434306438 627 dbSNP
rs1343295923 629 dbSNP
rs1354497555 638 dbSNP
rs1009023074 652 dbSNP
rs1233345707 658 dbSNP
rs1336090323 662 dbSNP
rs1382005611 669 dbSNP
rs1414603754 671 dbSNP
rs1423834031 673 dbSNP
rs1171408882 675 dbSNP
rs1450901809 677 dbSNP
rs540044656 689 dbSNP
rs1391194255 690 dbSNP
rs1038715221 707 dbSNP
rs1485180056 709 dbSNP
rs550354530 718 dbSNP
rs184027698 719 dbSNP
rs994446893 730 dbSNP
rs1217968955 734 dbSNP
rs375195492 766 dbSNP
rs761731500 767 dbSNP
rs976265388 773 dbSNP
rs1237116185 776 dbSNP
rs752184013 784 dbSNP
rs72185722 798 dbSNP
rs866000936 801 dbSNP
rs1016139385 812 dbSNP
rs1213845943 815 dbSNP
rs569804942 826 dbSNP
rs1285938869 834 dbSNP
rs1448635894 855 dbSNP
rs1374354206 856 dbSNP
rs1261132895 861 dbSNP
rs535539618 864 dbSNP
rs12317915 869 dbSNP
rs1370721510 875 dbSNP
rs984978454 879 dbSNP
rs1169026813 884 dbSNP
rs1422337809 892 dbSNP
rs1416381852 894 dbSNP
rs1182993419 896 dbSNP
rs1413094623 902 dbSNP
rs1472732071 912 dbSNP
rs1255515375 913 dbSNP
rs1175862323 942 dbSNP
rs970070441 956 dbSNP
rs909345089 962 dbSNP
rs750385766 964 dbSNP
rs978756486 968 dbSNP
rs1415019264 972 dbSNP
rs1314560665 974 dbSNP
rs1044643184 979 dbSNP
rs928641450 980 dbSNP
rs1411194128 998 dbSNP
rs938653635 1016 dbSNP
rs571990797 1028 dbSNP
rs925895227 1030 dbSNP
rs1352015566 1032 dbSNP
rs1165867200 1033 dbSNP
rs934530879 1035 dbSNP
rs1337805632 1036 dbSNP
rs1472988582 1044 dbSNP
rs1175732514 1046 dbSNP
rs891877999 1049 dbSNP
rs1267010831 1050 dbSNP
rs534286908 1053 dbSNP
rs1333885197 1055 dbSNP
rs1271255050 1061 dbSNP
rs1230125068 1063 dbSNP
rs1012037447 1069 dbSNP
rs558053532 1070 dbSNP
rs944484948 1072 dbSNP
rs1043575721 1077 dbSNP
rs903668419 1082 dbSNP
rs1369211228 1083 dbSNP
rs1007450297 1084 dbSNP
rs1440714014 1085 dbSNP
rs1017456829 1088 dbSNP
rs764018312 1096 dbSNP
rs1363326975 1098 dbSNP
rs577467868 1104 dbSNP
rs552262168 1105 dbSNP
rs900229748 1108 dbSNP
rs751432540 1114 dbSNP
rs1268404567 1115 dbSNP
rs950503151 1120 dbSNP
rs1048704068 1127 dbSNP
rs1467904127 1129 dbSNP
rs556735408 1137 dbSNP
rs187364222 1149 dbSNP
rs1016457595 1165 dbSNP
rs1329721955 1169 dbSNP
rs1283916448 1171 dbSNP
rs1236169789 1174 dbSNP
rs1487992185 1188 dbSNP
rs542294325 1189 dbSNP
rs1301605646 1197 dbSNP
rs201147670 1199 dbSNP
rs749728658 1204 dbSNP
rs1369283683 1208 dbSNP
rs1322911133 1211 dbSNP
rs970193084 1231 dbSNP
rs1244320389 1233 dbSNP
rs980377185 1237 dbSNP
rs1004400410 1241 dbSNP
rs1477332608 1249 dbSNP
rs1467701636 1253 dbSNP
rs1190903751 1255 dbSNP
rs1378250828 1257 dbSNP
rs1173287581 1261 dbSNP
rs1452763427 1262 dbSNP
rs1396097501 1264 dbSNP
rs1434898560 1266 dbSNP
rs562008074 1277 dbSNP
rs1393057828 1290 dbSNP
rs928865824 1300 dbSNP
rs368140470 1303 dbSNP
rs1483971441 1310 dbSNP
rs1256032796 1311 dbSNP
rs988831737 1317 dbSNP
rs913191925 1321 dbSNP
rs1300277520 1337 dbSNP
rs1015778390 1350 dbSNP
rs1043100183 1355 dbSNP
rs1294117824 1361 dbSNP
rs903720846 1366 dbSNP
rs1403037483 1374 dbSNP
rs1312293968 1384 dbSNP
rs960516880 1389 dbSNP
rs1014409026 1390 dbSNP
rs1328070452 1395 dbSNP
rs943197527 1400 dbSNP
rs1475651086 1401 dbSNP
rs527708735 1407 dbSNP
rs541021922 1410 dbSNP
rs1425437136 1422 dbSNP
rs1023510470 1424 dbSNP
rs997808970 1426 dbSNP
rs1025990629 1427 dbSNP
rs1276410310 1439 dbSNP
rs1302365930 1445 dbSNP
rs1339180259 1453 dbSNP
rs545670617 1460 dbSNP
rs1249933311 1463 dbSNP
rs886078589 1467 dbSNP
rs12312458 1477 dbSNP
rs368508362 1481 dbSNP
rs1341529154 1484 dbSNP
rs753350750 1496 dbSNP
rs774323107 1500 dbSNP
rs1352396761 1501 dbSNP
rs1032972469 1503 dbSNP
rs1236286212 1505 dbSNP
rs955958070 1522 dbSNP
rs1350321049 1540 dbSNP
rs1165880133 1546 dbSNP
rs1459388538 1561 dbSNP
rs754515271 1575 dbSNP
rs200138533 1584 dbSNP
rs1473969705 1597 dbSNP
rs1253303585 1598 dbSNP
rs1182114983 1599 dbSNP
rs1436811198 1608 dbSNP
rs778750102 1618 dbSNP
rs1286431476 1620 dbSNP
rs1450349346 1622 dbSNP
rs1221502935 1624 dbSNP
rs1016007130 1625 dbSNP
rs11046535 1631 dbSNP
rs764190513 1632 dbSNP
rs1331356334 1634 dbSNP
rs911799023 1634 dbSNP
rs1035823971 1635 dbSNP
rs757017372 1671 dbSNP
rs141532899 1688 dbSNP
rs1441769769 1690 dbSNP
rs754014240 1691 dbSNP
rs1378084693 1693 dbSNP
rs74068270 1694 dbSNP
rs758857992 1696 dbSNP
rs989440467 1703 dbSNP
rs1158574752 1708 dbSNP
rs974597640 1709 dbSNP
rs1386539837 1713 dbSNP
rs1469309474 1730 dbSNP
rs921718605 1742 dbSNP
rs1230888272 1746 dbSNP
rs1325116758 1751 dbSNP
rs913251041 1758 dbSNP
rs947357839 1768 dbSNP
rs1212392882 1771 dbSNP
rs930360022 1780 dbSNP
rs1306820461 1786 dbSNP
rs189725623 1798 dbSNP
rs1223360179 1811 dbSNP
rs1348618696 1814 dbSNP
rs886079022 1817 dbSNP
rs570239071 1830 dbSNP
rs1235264079 1831 dbSNP
rs1371498992 1848 dbSNP
rs2129613 1849 dbSNP
rs896067465 1854 dbSNP
rs942748149 1858 dbSNP
rs1014870983 1859 dbSNP
rs549076289 1866 dbSNP
rs1274349775 1868 dbSNP
rs1405131630 1871 dbSNP
rs773841031 1872 dbSNP
rs1454410916 1875 dbSNP
rs1197078861 1876 dbSNP
rs1394872625 1880 dbSNP
rs755194709 1881 dbSNP
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rs1451715104 1892 dbSNP
rs1243261646 1894 dbSNP
rs1215683099 1896 dbSNP
rs1023100252 1897 dbSNP
rs1171351307 1898 dbSNP
rs1186480006 1898 dbSNP
rs1188660348 1898 dbSNP
rs1207533710 1898 dbSNP
rs1239296588 1898 dbSNP
rs1278527880 1898 dbSNP
rs1309078422 1898 dbSNP
rs1335554369 1898 dbSNP
rs1342955681 1898 dbSNP
rs1374545665 1898 dbSNP
rs1392103093 1898 dbSNP
rs1420632484 1898 dbSNP
rs1429897083 1898 dbSNP
rs1434955845 1898 dbSNP
rs1451779327 1898 dbSNP
rs1474683475 1898 dbSNP
rs1485381301 1898 dbSNP
rs3983448 1898 dbSNP
rs577546967 1898 dbSNP
rs5796967 1898 dbSNP
rs905949924 1899 dbSNP
rs1273395931 1900 dbSNP
rs1436825675 1900 dbSNP
rs1213932673 1902 dbSNP
rs1359699667 1905 dbSNP
rs1000256957 1912 dbSNP
rs1414929819 1925 dbSNP
rs1491331990 1925 dbSNP
rs1354248901 1926 dbSNP
rs1420971795 1926 dbSNP
rs1452591374 1927 dbSNP
rs1171705216 1928 dbSNP
rs1033023149 1930 dbSNP
rs1365235096 1930 dbSNP
rs1471506894 1931 dbSNP
rs956054550 1932 dbSNP
rs765953812 1933 dbSNP
rs1418472878 1934 dbSNP
rs1462949108 1939 dbSNP
rs1328990981 1941 dbSNP
rs1170113543 1950 dbSNP
rs1395531369 1952 dbSNP
rs372570437 1956 dbSNP
rs1019316522 1958 dbSNP
rs965978890 1963 dbSNP
rs1255451057 1965 dbSNP
rs11046536 1966 dbSNP
rs138002691 1971 dbSNP
rs1481053580 1975 dbSNP
rs561565726 1990 dbSNP
rs1233248723 1994 dbSNP
rs1203646352 1995 dbSNP
rs1016062372 1998 dbSNP
rs1275027624 2001 dbSNP
rs113726303 2007 dbSNP
rs182376718 2011 dbSNP
rs930410764 2012 dbSNP
rs1333566016 2021 dbSNP
rs1392783105 2033 dbSNP
rs771375399 2033 dbSNP
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rs571255044 2037 dbSNP
rs1337501078 2049 dbSNP
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rs940393100 2067 dbSNP
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rs1056126322 2087 dbSNP
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rs1437714786 5638 dbSNP
rs1305464237 5639 dbSNP
rs958130439 5639 dbSNP
rs1368277487 5641 dbSNP
rs1233156118 5644 dbSNP
rs1301595597 5645 dbSNP
rs1359120295 5653 dbSNP
rs1313577761 5670 dbSNP
rs929618337 5672 dbSNP
rs530900742 5673 dbSNP
rs879541522 5680 dbSNP
rs914433980 5681 dbSNP
rs779072258 5682 dbSNP
rs867383693 5685 dbSNP
rs750553462 5689 dbSNP
rs1250931271 5690 dbSNP
rs1384330080 5693 dbSNP
rs1055266441 5701 dbSNP
rs1441398398 5706 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 55500.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "PAR-CLIP data was present in SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ucGUGUCUGA-ACGA-CACUACaa 5'
            |||  ||| | ||  |||||  
Target 5' ugCACUUACUAUACUACUGAUG-- 3'
 		27 - 48
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
CLIP-seq Support 1 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_018638 | 3UTR | CUCUUCUAUACUUUAUGCACUUACUAUACUACUGAUGUAAUAAAAGAGCAGGGUUAAAAAUAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_018638 | 3UTR | UCUAUACUUUAUGCACUUACUAUACUACUGAUGUAAUAAAAGAGCAGGGUUAAAAAUAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_018638 | 3UTR | AUGCAACUUUUGAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_018638 | 3UTR | UACUUUAUGCACUUACUAUACUACUGAUGUAAUAAAAGAGCAGGGUUAAAAAUAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_018638 | 3UTR | AUGCACUUACUAUACUACUGAUGUAAUAAAAGAGCAGGGUUAAAAAUAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_018638 | 3UTR | UUCUAUACUUUAUGCACUUACUAUACUACUGAUGUAAUAAAAGAGCAGGGUUAAAAAUAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000266517.4 | 3UTR | AAAUUUUCUUUCUCUUCUAUACUUUAUGCACUUACUAUACUACUGAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
GSE28544 Breast cancer -0.591 1.2e-3 -0.575 1.6e-3 24 Click to see details
GSE28260 Renal cortex and medulla 0.53 3.1e-2 0.485 4.6e-2 13 Click to see details
GSE38226 Liver fibrosis 0.357 5.6e-2 0.300 9.3e-2 21 Click to see details
GSE32688 Pancreatic cancer -0.259 7.6e-2 -0.324 3.5e-2 32 Click to see details
GSE21687 Ependynoma primary tumors -0.116 1.8e-1 -0.097 2.2e-1 64 Click to see details
GSE26953 Aortic valvular endothelial cells -0.188 1.9e-1 -0.186 1.9e-1 24 Click to see details
GSE19350 CNS germ cell tumors -0.279 1.9e-1 0.219 2.5e-1 12 Click to see details
GSE17498 Multiple myeloma 0.115 2.4e-1 -0.004 4.9e-1 40 Click to see details
GSE38974 Chronic obstructive pulmonary disease -0.108 3.0e-1 0.024 4.5e-1 25 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis 0.112 3.2e-1 -0.189 2.1e-1 20 Click to see details
GSE42095 Differentiated embryonic stem cells 0.005 4.9e-1 0.138 2.7e-1 23 Click to see details
GSE42095 Differentiated embryonic stem cells 0.005 4.9e-1 0.138 2.7e-1 23 Click to see details
GSE42095 Differentiated embryonic stem cells 0.005 4.9e-1 0.138 2.7e-1 23 Click to see details
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
PRAD -0.524 0.03 -0.516 0.03 14 Click to see details
UCEC -0.744 0.03 -0.857 0.01 7 Click to see details
BRCA 0.977 0.07 1.000 0.5 3 Click to see details
KIRP -0.507 0.08 -0.383 0.15 9 Click to see details
HNSC 0.336 0.19 0.383 0.15 9 Click to see details
STAD -0.507 0.19 -0.300 0.31 5 Click to see details
LIHC -0.122 0.32 -0.468 0.03 17 Click to see details
KICH 0.151 0.34 0.212 0.28 10 Click to see details
THCA -0.042 0.41 0.003 0.49 29 Click to see details
KIRC 0.041 0.43 0.030 0.45 19 Click to see details
LUSC -0.051 0.47 0.400 0.3 4 Click to see details
LUSC -0.051 0.47 0.400 0.3 4 Click to see details
LUSC -0.051 0.47 0.400 0.3 4 Click to see details
LUSC -0.051 0.47 0.400 0.3 4 Click to see details
LUSC -0.051 0.47 0.400 0.3 4 Click to see details
59 hsa-miR-499a-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT130131 TXNIP thioredoxin interacting protein 2 2
MIRT133678 ETNK1 ethanolamine kinase 1 2 2
MIRT252103 NAPG NSF attachment protein gamma 2 2
MIRT260160 IGFBP4 insulin like growth factor binding protein 4 2 2
MIRT388009 DR1 down-regulator of transcription 1 2 2
MIRT441692 ABLIM1 actin binding LIM protein 1 2 6
MIRT447799 EPC2 enhancer of polycomb homolog 2 2 2
MIRT450657 STYX serine/threonine/tyrosine interacting protein 2 4
MIRT456843 ZNF460 zinc finger protein 460 2 2
MIRT464134 VPS35 VPS35, retromer complex component 2 2
MIRT465101 TSC22D3 TSC22 domain family member 3 2 4
MIRT470051 PTGFRN prostaglandin F2 receptor inhibitor 2 2
MIRT474146 LIMA1 LIM domain and actin binding 1 2 6
MIRT474153 LIFR LIF receptor alpha 2 2
MIRT485327 MYO1D myosin ID 2 2
MIRT496403 ZSCAN16 zinc finger and SCAN domain containing 16 2 2
MIRT497280 MAF MAF bZIP transcription factor 2 2
MIRT500970 SPTSSA serine palmitoyltransferase small subunit A 2 2
MIRT501536 POM121C POM121 transmembrane nucleoporin C 2 6
MIRT505174 WDR76 WD repeat domain 76 2 4
MIRT505203 UQCRB ubiquinol-cytochrome c reductase binding protein 2 4
MIRT506745 LIN54 lin-54 DREAM MuvB core complex component 2 4
MIRT506799 KLHL15 kelch like family member 15 2 6
MIRT525718 DCAF12L2 DDB1 and CUL4 associated factor 12 like 2 2 2
MIRT530014 SRRM1 serine and arginine repetitive matrix 1 2 2
MIRT531457 PROSER2 proline and serine rich 2 2 2
MIRT532272 CD93 CD93 molecule 2 2
MIRT538715 CAPRIN2 caprin family member 2 2 4
MIRT547356 NAT8L N-acetyltransferase 8 like 2 2
MIRT551468 TRIM59 tripartite motif containing 59 2 2
MIRT555444 NT5C3A 5'-nucleotidase, cytosolic IIIA 2 2
MIRT555674 PGAM4 phosphoglycerate mutase family member 4 2 4
MIRT557816 FOXO1 forkhead box O1 2 2
MIRT557853 FIGN fidgetin, microtubule severing factor 2 2
MIRT557880 FEM1B fem-1 homolog B 2 4
MIRT562299 GLO1 glyoxalase I 2 2
MIRT563245 QRFPR pyroglutamylated RFamide peptide receptor 2 2
MIRT565571 SLC7A2 solute carrier family 7 member 2 2 2
MIRT566214 PTMA prothymosin, alpha 2 2
MIRT575544 Map4 microtubule-associated protein 4 2 2
MIRT609316 FXYD6 FXYD domain containing ion transport regulator 6 2 2
MIRT609362 ACOT2 acyl-CoA thioesterase 2 2 2
MIRT611163 BTLA B and T lymphocyte associated 2 4
MIRT611749 CACNA1B calcium voltage-gated channel subunit alpha1 B 2 2
MIRT615019 ELK4 ELK4, ETS transcription factor 2 2
MIRT623317 MAPK1 mitogen-activated protein kinase 1 2 2
MIRT624550 BMPR1A bone morphogenetic protein receptor type 1A 2 2
MIRT633934 DNAH9 dynein axonemal heavy chain 9 2 2
MIRT635691 BMP10 bone morphogenetic protein 10 2 2
MIRT646438 DNAH8 dynein axonemal heavy chain 8 2 2
MIRT651940 UBN1 ubinuclein 1 2 2
MIRT663605 TBC1D22A TBC1 domain family member 22A 2 2
MIRT689759 PRR13 proline rich 13 2 2
MIRT691916 SRXN1 sulfiredoxin 1 2 2
MIRT698678 TEF TEF, PAR bZIP transcription factor 2 2
MIRT700924 PDS5A PDS5 cohesin associated factor A 2 2
MIRT707970 PDE12 phosphodiesterase 12 2 2
MIRT715290 CSTF1 cleavage stimulation factor subunit 1 2 2
MIRT722414 RARS2 arginyl-tRNA synthetase 2, mitochondrial 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-499a Erlotinib 176870 NSC718781 approved sensitive Low Osteosarcoma cell line (CD166)
hsa-mir-499a Cisplatin 5460033 NSC119875 approved resistant Low Cervical Cancer cell line (GH329, Hela, CaSki, Siha)
hsa-miR-499a-3p Trametinib 11707110 NSC758246 approved sensitive High Melanoma cell line (M14) (2uM)
hsa-miR-499a-3p Vemurafenib 42611257 NSC761431 approved sensitive High Melanoma cell line (M14) (2uM)
hsa-miR-499a-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-499a-3p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-499a-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-499a-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM47)
hsa-miR-499a-3p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM36)
hsa-miR-499a-3p Fluorouracil 3385 NSC19893 approved resistant cell line (KM12C) (72 h)
hsa-miR-499a-3p Cisplatin 5460033 NSC119875 approved resistant cell line (RPMI2650)
hsa-miR-499a-3p Sunitinib 5329102 NSC750690 approved resistant tissue (CardA)
hsa-miR-499a-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-499a-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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