pre-miRNA Information
pre-miRNA hsa-mir-3678   
Genomic Coordinates chr17: 75406069 - 75406162
Description Homo sapiens miR-3678 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3678-3p
Sequence 69| CUGCAGAGUUUGUACGGACCGG |90
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs988363493 1 dbSNP
rs753118178 5 dbSNP
rs1424776090 14 dbSNP
rs1475188526 15 dbSNP
rs1163369708 17 dbSNP
rs1174219930 19 dbSNP
rs915488824 20 dbSNP
rs1273558782 21 dbSNP
rs755095016 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol IGDCC4   
Synonyms DDM36, NOPE
Description immunoglobulin superfamily DCC subclass member 4
Transcript NM_020962   
Expression
Putative miRNA Targets on IGDCC4
3'UTR of IGDCC4
(miRNA target sites are highlighted)
>IGDCC4|NM_020962|3'UTR
   1 CTCTTCCCAGAGGATGTGGTTTGGGGCAGGCAGGTATGGATCACATAGGATGCGATACCTGTGGCCGTGTATGTCCACAT
  81 GTGTGCCTGTAGATACATCATCAAGCCCTTTGGAGCTTCCTAAGTTGCTTTGGCTGAGGGGAGAGGAAAACATGGATTAT
 161 TCACTCCCCCCATACTCTTTGTGATACACATGTGACATGTGAAAGACATACGAGACATAGCTACATGTGATGTGCACATG
 241 TGTGAAGTGCATGTATGCGTACTGGTTGTTGAGCTGGGAAACCGTGGCCCAGGCAGTGGTCACTACAGCCTGATTGGTCC
 321 TCCAGGTCAGAACGGTGCCCCACAGTGGTCAGTCCCCAGCCCTGTGGGCCCCCACCTCCATCGCCCAGCCTTTTATTACA
 401 CACTCTGAGAGTGTCTCCAATGCCTGTCTGACAAAGACAGTCCCAGCCCATTCTCCTGTCTGGCTGGGTTGGGTGCAAGC
 481 AGGCTCTGAATGCCTGGCATTTCAGCTGCATCACCTCCCAGCTCCTTATTGCCCAAATAGAGAGGGTGGCCCTGGCTCCC
 561 CTCCGAGCAACTCTGCATTTAATTTTGTAATCTGGGAAGTGCCTGGTTTTGAAAATCCGCTTTCTCTCACTCTTCCCCTC
 641 CTTCCTTGCCCCTGGCTGCTCTAGTGTTCTGTCTCCCAGTCACCTCGCTCTCCCAGCACCAGTGCCCTTCTCCTGCTCCC
 721 AGATACTCTTTCCTTTCCTCTCTCCTGTTTTCCTTCCTCTGCTATCTCTCACACCTCTCCCAGACTATGTCATCTTGTTC
 801 TCCTGCCTGGGTTCAAACTCTGCATCCTTCTCTAACAACGTGACTACCTCATGTCTGCTTCAAGGCCCCCGTGCCCTTCC
 881 TGTATCCGCGGCTGCCGCGCACTCGCCTGCCATCCTCCTGCCTCCTCTTCACTCAGTGCTTCTGCTTGCCCTGCCCCAGG
 961 CAGCCCACCCACGCCCAGTGCGGGTGTGGAGAAGATCTTCTGGCTTCCCTGCATCTTGCCTTTGGGATTGGGATCCAAGG
1041 GTTCTCCATGGATGGATCCAAGTCATAGAGGGGAATGTTTGAGACAGGGAAGGGGGCTGTGATCCAGAGGCTCAGAATAA
1121 AAAGATGCCCTCCCTTCTATGCAGGGGGGCAAGTTTACTGGATGGAGATGATTTGGGCCTCTCTTCCAGAAGAAGCTAAA
1201 GGAAGAGAAGGGGAGTGAGAGTTCAGGGAGGCCCTTCCCACCCTGTGAGGCTTGACTTGATCTGGATTGGGGATGACAGG
1281 AATCTCACCCTCTGGGGTGCTGGCAAGGAGGTCTTTGCACAGGAAAAGGGGTAGCTCATTTCAGTTTGTTTTTTCTTTAA
1361 ATTGAATCCTCAAGTCATTTTCTGTTCACCTGCCGCACAGGGACAAGCTTGACTTCTATTTTCTGTGTAGTGAAAACAAT
1441 GTCATTTATTTGGTTTTTCACCTCAGCCCTCTCATAGGAGCATAGAATGTTAGGGTCTTTACTCCCTAATGATGTCTGAT
1521 TGGCACATCAAGAGTTAACTCTGCCTTCTGGGCCAAATTCGAAATAACCAGTCCATTTTTCCTTTTTTTTTTTTTTTTTT
1601 TTAAATGGTGGAATGTCTCTCAGCACAGTTGCGGCTTCCTCAAACCCTGAAAGCATCTGTGTTTATTATACTCGGGTGTC
1681 ACTCACTGTTGATGTCTGCACCTACGTTTCCACCTCCTCCCCCTCCTTCAGCCAGCCTATGATAACACTAAAGATTATTA
1761 ATGTTGGTTTTGTATCTCGTTAAAGACAGAATTGTCACTTGTAGTATTTCTGTAGCATTCAGCGCTGCTGTGGCTAACAC
1841 CACTGTGTATGTTTCATCATTGCTCTGAAGGTCAAAAGCCTCATTTTATTTTGCTGGTTTGATTTTTTTTTTTTAAAGAA
1921 GAAAAAAAAACTGCCCTGAATTAAATGGCTGTTTTAACAGTAGGCTCTTAGCATTATACCACATAGTCATTTTTCATGTT
2001 CTTGTTTAACAGGCACTGAGGTTCTGGTTTAAATTAAATAGCTGCAAATGAGACAATTTATAACCCATTAGGTTGGGTGG
2081 AAAATTGTTTCTCAAAAGCAAATAAGTAATAAATCTGGTATCTGCCTATAACTCACAGTTGATAAGAAAGTGGCCATTTC
2161 TCACTAGCACTATATATGATTTGGGCTCTGGGTAATTTGGAAGTGTTAGGTTTGTGTCTTTGTAGCAGTATTTTTATTAG
2241 AAAAGAATCTATTGGCCTTTTACAGGGTATTAATCCCTTTGTCACCTACCATTGATGCCTTAAGTTTTCTGAGTCTCAAT
2321 TAAAAATCTTCCTTTTCTTGATGCATGACAAGTGTAATCAGTACTTGCTCATTTATTTGTCTGTATTTAGTTTATGCTGT
2401 ACTATTTAATTATCCTTCCAGCGTTTTTTTTTTCTCCTTACAAATATGATACTCTTTAGTGTTAAGCTAAGGCATTGATT
2481 CATGTATCTGTCCTTATAATGAATTAATAAACTATTTTCCAG
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' ggccaggCAUGUUUGAGACGUc 5'
                 || ||||||||||| 
Target 5' tgcctggGTTCAAACTCTGCAt 3'
804 - 825 167.00 -19.40
2
miRNA  3' ggccAGGCAUGUUUGAGACGUc 5'
              |||| :| ||||||||| 
Target 5' ccccTCCGAGC-AACTCTGCAt 3'
558 - 578 165.00 -19.20
3
miRNA  3' ggCCAGGCAUGUUU-----GAGACGUc 5'
            ||| |  :|||:     ||:|||| 
Target 5' ggGGTGCTGGCAAGGAGGTCTTTGCAc 3'
1294 - 1320 136.00 -13.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31519476 11 COSMIC
COSN31558868 21 COSMIC
COSN31512330 22 COSMIC
COSN31560324 26 COSMIC
COSN26979684 54 COSMIC
COSN16199728 65 COSMIC
COSN1179050 132 COSMIC
COSN19438986 209 COSMIC
COSN15843479 354 COSMIC
COSN28198069 618 COSMIC
COSN29357443 666 COSMIC
COSN28710771 802 COSMIC
COSN31539491 827 COSMIC
COSN31514995 861 COSMIC
COSN15662040 1234 COSMIC
COSN25872396 1453 COSMIC
COSN26572662 1495 COSMIC
COSN31565668 1520 COSMIC
COSN31550113 1575 COSMIC
COSN26578790 1581 COSMIC
COSN18749779 1583 COSMIC
COSN20112184 1583 COSMIC
COSN26574589 1584 COSMIC
COSN31545875 1588 COSMIC
COSN31545719 1589 COSMIC
COSN24933548 1696 COSMIC
COSN31544567 1736 COSMIC
COSN8590255 1843 COSMIC
COSN27589479 1903 COSMIC
COSN31487575 1921 COSMIC
COSN31541022 1948 COSMIC
COSN31515382 2245 COSMIC
COSN23014842 2250 COSMIC
COSN20112178 2424 COSMIC
COSN15657848 2521 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs546179382 1 dbSNP
rs765907045 9 dbSNP
rs1418997003 10 dbSNP
rs1333964472 12 dbSNP
rs1330776385 14 dbSNP
rs1446949604 15 dbSNP
rs1393130805 16 dbSNP
rs1323268597 18 dbSNP
rs1462695721 19 dbSNP
rs1387081094 26 dbSNP
rs577397757 30 dbSNP
rs1164259350 31 dbSNP
rs1469945632 33 dbSNP
rs772971265 34 dbSNP
rs367727438 44 dbSNP
rs764767963 45 dbSNP
rs778812412 50 dbSNP
rs1211818589 51 dbSNP
rs913181284 53 dbSNP
rs1357507073 54 dbSNP
rs988661659 55 dbSNP
rs1266314693 57 dbSNP
rs1019176244 60 dbSNP
rs1351598669 62 dbSNP
rs1009120826 64 dbSNP
rs957054783 66 dbSNP
rs189570349 68 dbSNP
rs1332482349 71 dbSNP
rs1383681554 77 dbSNP
rs979886642 79 dbSNP
rs1458280375 90 dbSNP
rs1162422175 97 dbSNP
rs970248945 103 dbSNP
rs1449241829 107 dbSNP
rs1332254035 111 dbSNP
rs1024037836 116 dbSNP
rs1014198078 119 dbSNP
rs753943829 124 dbSNP
rs1444576607 130 dbSNP
rs1315438862 132 dbSNP
rs1025918244 134 dbSNP
rs186342912 138 dbSNP
rs1244589692 139 dbSNP
rs1264022638 140 dbSNP
rs777638624 144 dbSNP
rs1200175055 150 dbSNP
rs1472238223 153 dbSNP
rs1038805431 156 dbSNP
rs1006873526 163 dbSNP
rs1174970772 169 dbSNP
rs574565022 170 dbSNP
rs1424307530 172 dbSNP
rs1186629777 181 dbSNP
rs554547788 183 dbSNP
rs1051179291 184 dbSNP
rs1264435367 186 dbSNP
rs1216445894 187 dbSNP
rs755959390 191 dbSNP
rs933825619 198 dbSNP
rs1464193793 199 dbSNP
rs930590353 208 dbSNP
rs537808399 211 dbSNP
rs1228928003 212 dbSNP
rs913026061 226 dbSNP
rs1395926719 231 dbSNP
rs1355788539 240 dbSNP
rs1342791753 247 dbSNP
rs1052983147 251 dbSNP
rs1278521948 253 dbSNP
rs935890156 257 dbSNP
rs1201890260 258 dbSNP
rs752750635 259 dbSNP
rs1282628025 263 dbSNP
rs1483270123 268 dbSNP
rs925856729 271 dbSNP
rs980217874 276 dbSNP
rs1255240458 277 dbSNP
rs78283820 283 dbSNP
rs923569557 284 dbSNP
rs916995327 309 dbSNP
rs977789156 314 dbSNP
rs992552024 316 dbSNP
rs764682684 320 dbSNP
rs1178370376 325 dbSNP
rs552473027 327 dbSNP
rs960883940 333 dbSNP
rs968202660 334 dbSNP
rs1398017847 338 dbSNP
rs1301613017 341 dbSNP
rs1363002294 345 dbSNP
rs1401054374 346 dbSNP
rs1277939989 350 dbSNP
rs879453357 355 dbSNP
rs994324766 361 dbSNP
rs915023834 363 dbSNP
rs975295946 369 dbSNP
rs1312274882 370 dbSNP
rs1324173395 371 dbSNP
rs1404220740 375 dbSNP
rs1278187502 379 dbSNP
rs116139064 381 dbSNP
rs566673770 382 dbSNP
rs546448459 383 dbSNP
rs1424720131 389 dbSNP
rs889759021 390 dbSNP
rs180932476 396 dbSNP
rs573182725 412 dbSNP
rs998198990 439 dbSNP
rs1420812593 443 dbSNP
rs1223015874 451 dbSNP
rs1451102876 453 dbSNP
rs1287816679 455 dbSNP
rs1343828063 457 dbSNP
rs1438985529 480 dbSNP
rs1294925824 488 dbSNP
rs1367858874 501 dbSNP
rs891641740 514 dbSNP
rs1052910322 519 dbSNP
rs1385787831 524 dbSNP
rs1026730444 525 dbSNP
rs138064657 532 dbSNP
rs925898083 536 dbSNP
rs879399681 541 dbSNP
rs1277288921 548 dbSNP
rs1216536021 550 dbSNP
rs948394583 561 dbSNP
rs1285158878 564 dbSNP
rs765767037 565 dbSNP
rs116595224 567 dbSNP
rs1435757108 570 dbSNP
rs1347546909 572 dbSNP
rs993001285 576 dbSNP
rs1488267419 586 dbSNP
rs929070073 587 dbSNP
rs918991244 589 dbSNP
rs1398088610 592 dbSNP
rs1440344229 595 dbSNP
rs972936096 607 dbSNP
rs1158594051 614 dbSNP
rs762670950 618 dbSNP
rs78108291 619 dbSNP
rs1165909093 620 dbSNP
rs1168152565 621 dbSNP
rs985689981 623 dbSNP
rs1464376958 638 dbSNP
rs1427775802 639 dbSNP
rs772678942 655 dbSNP
rs894952701 660 dbSNP
rs1378501076 674 dbSNP
rs1446803737 676 dbSNP
rs116445399 677 dbSNP
rs879651157 681 dbSNP
rs1229871601 685 dbSNP
rs1290291321 686 dbSNP
rs998125859 687 dbSNP
rs1212083203 694 dbSNP
rs891902877 697 dbSNP
rs923895246 700 dbSNP
rs1042441384 702 dbSNP
rs1178090581 705 dbSNP
rs1231729428 708 dbSNP
rs1474045390 715 dbSNP
rs1031711214 721 dbSNP
rs1257638613 736 dbSNP
rs188131684 740 dbSNP
rs1162364904 748 dbSNP
rs761021456 749 dbSNP
rs1401941968 750 dbSNP
rs1465742832 752 dbSNP
rs756623204 756 dbSNP
rs776013541 758 dbSNP
rs142472543 765 dbSNP
rs1044725877 767 dbSNP
rs1284661912 774 dbSNP
rs1354598849 779 dbSNP
rs1218520107 795 dbSNP
rs1365438138 800 dbSNP
rs1310765215 806 dbSNP
rs551345586 808 dbSNP
rs1280411521 809 dbSNP
rs895709375 812 dbSNP
rs774498557 818 dbSNP
rs540382331 820 dbSNP
rs928953871 821 dbSNP
rs574603077 823 dbSNP
rs964436982 829 dbSNP
rs973115303 833 dbSNP
rs1270928648 836 dbSNP
rs1444161438 837 dbSNP
rs1361203156 839 dbSNP
rs912020266 840 dbSNP
rs554684725 845 dbSNP
rs370951747 847 dbSNP
rs1474433651 850 dbSNP
rs544278629 852 dbSNP
rs941527735 853 dbSNP
rs1196284623 864 dbSNP
rs910026420 866 dbSNP
rs986128032 870 dbSNP
rs575628252 872 dbSNP
rs1414361793 875 dbSNP
rs1026595871 879 dbSNP
rs1416803248 887 dbSNP
rs770862778 888 dbSNP
rs1030306939 889 dbSNP
rs1374772137 890 dbSNP
rs184897777 896 dbSNP
rs1299782617 897 dbSNP
rs558644242 898 dbSNP
rs1227004603 899 dbSNP
rs562935208 901 dbSNP
rs1023402131 902 dbSNP
rs538944538 904 dbSNP
rs1176933201 905 dbSNP
rs1000214909 917 dbSNP
rs1264388159 922 dbSNP
rs1056309402 924 dbSNP
rs1003412614 929 dbSNP
rs902408853 935 dbSNP
rs904369045 945 dbSNP
rs1042281783 946 dbSNP
rs1172647299 948 dbSNP
rs1394451111 949 dbSNP
rs946636739 950 dbSNP
rs1022826889 955 dbSNP
rs749583762 966 dbSNP
rs1360952840 973 dbSNP
rs566600562 977 dbSNP
rs35640355 978 dbSNP
rs943118989 978 dbSNP
rs553139264 979 dbSNP
rs1437341997 980 dbSNP
rs1302726124 981 dbSNP
rs1345767406 982 dbSNP
rs147688425 984 dbSNP
rs112013434 990 dbSNP
rs1350419562 994 dbSNP
rs1203754240 1003 dbSNP
rs897455253 1011 dbSNP
rs1352249031 1013 dbSNP
rs1259306272 1019 dbSNP
rs1452948341 1025 dbSNP
rs1198998200 1026 dbSNP
rs1306470455 1028 dbSNP
rs1037473041 1038 dbSNP
rs550725805 1040 dbSNP
rs530608258 1049 dbSNP
rs868522327 1056 dbSNP
rs140442930 1062 dbSNP
rs1325417474 1073 dbSNP
rs1049947490 1077 dbSNP
rs1301936324 1079 dbSNP
rs568294244 1081 dbSNP
rs1368891742 1082 dbSNP
rs1449007211 1086 dbSNP
rs1357847390 1093 dbSNP
rs375795091 1093 dbSNP
rs932808193 1095 dbSNP
rs2607876 1096 dbSNP
rs386784833 1097 dbSNP
rs1425271799 1098 dbSNP
rs566654055 1098 dbSNP
rs532845059 1103 dbSNP
rs1357443866 1104 dbSNP
rs1379710271 1110 dbSNP
rs751386626 1115 dbSNP
rs956060482 1125 dbSNP
rs560582977 1139 dbSNP
rs530119276 1144 dbSNP
rs1414767657 1149 dbSNP
rs75450422 1150 dbSNP
rs1251229771 1151 dbSNP
rs1418400161 1159 dbSNP
rs1181553372 1163 dbSNP
rs1482148660 1169 dbSNP
rs1370001875 1175 dbSNP
rs112860742 1181 dbSNP
rs960106490 1186 dbSNP
rs1187083591 1187 dbSNP
rs968854939 1194 dbSNP
rs1332094727 1203 dbSNP
rs757828570 1213 dbSNP
rs1023469221 1214 dbSNP
rs1390203419 1218 dbSNP
rs1315384116 1224 dbSNP
rs750152759 1232 dbSNP
rs112120191 1240 dbSNP
rs1292368065 1250 dbSNP
rs1332203912 1256 dbSNP
rs998955663 1264 dbSNP
rs1251416216 1267 dbSNP
rs960109213 1268 dbSNP
rs902313576 1273 dbSNP
rs1035609736 1276 dbSNP
rs993389989 1284 dbSNP
rs1246314132 1295 dbSNP
rs1321847728 1296 dbSNP
rs1258099023 1310 dbSNP
rs1311553942 1312 dbSNP
rs761409310 1321 dbSNP
rs1186939117 1328 dbSNP
rs775867959 1334 dbSNP
rs1416016856 1339 dbSNP
rs1478905162 1351 dbSNP
rs1037399063 1361 dbSNP
rs1171606837 1368 dbSNP
rs767807142 1370 dbSNP
rs1010782990 1372 dbSNP
rs1460481637 1376 dbSNP
rs1305119918 1378 dbSNP
rs537833847 1381 dbSNP
rs114833184 1384 dbSNP
rs888907622 1387 dbSNP
rs1353884086 1389 dbSNP
rs1050567138 1390 dbSNP
rs192798722 1394 dbSNP
rs943066668 1395 dbSNP
rs890184626 1400 dbSNP
rs1224605853 1403 dbSNP
rs575620770 1419 dbSNP
rs922752137 1434 dbSNP
rs1051437621 1435 dbSNP
rs1041296332 1439 dbSNP
rs779996915 1453 dbSNP
rs1360489975 1459 dbSNP
rs934943533 1462 dbSNP
rs558912688 1467 dbSNP
rs924848488 1469 dbSNP
rs1459460295 1470 dbSNP
rs929070742 1472 dbSNP
rs1426886474 1476 dbSNP
rs1178311295 1483 dbSNP
rs1396262261 1484 dbSNP
rs1350548179 1485 dbSNP
rs1164344712 1488 dbSNP
rs1434608759 1488 dbSNP
rs978824911 1489 dbSNP
rs1422348310 1491 dbSNP
rs1400920068 1502 dbSNP
rs1425480812 1507 dbSNP
rs749299073 1514 dbSNP
rs919400142 1518 dbSNP
rs1302720099 1524 dbSNP
rs1194169878 1526 dbSNP
rs916006057 1527 dbSNP
rs1477391791 1539 dbSNP
rs1355593874 1540 dbSNP
rs33998478 1548 dbSNP
rs148776639 1552 dbSNP
rs573178952 1558 dbSNP
rs189817848 1560 dbSNP
rs536531267 1561 dbSNP
rs1035493409 1562 dbSNP
rs567506121 1564 dbSNP
rs966270985 1565 dbSNP
rs991477084 1566 dbSNP
rs960054670 1570 dbSNP
rs557161087 1571 dbSNP
rs1280453873 1573 dbSNP
rs1035704911 1574 dbSNP
rs1167975644 1575 dbSNP
rs200155564 1581 dbSNP
rs1340316182 1582 dbSNP
rs1293979839 1583 dbSNP
rs977468228 1588 dbSNP
rs993316135 1590 dbSNP
rs1368383501 1591 dbSNP
rs1371114566 1594 dbSNP
rs1439439640 1597 dbSNP
rs879159190 1599 dbSNP
rs1460045053 1601 dbSNP
rs961977191 1602 dbSNP
rs1020783303 1603 dbSNP
rs1195929430 1603 dbSNP
rs1224065854 1603 dbSNP
rs1240623048 1603 dbSNP
rs1470779153 1603 dbSNP
rs754941677 1603 dbSNP
rs967867526 1603 dbSNP
rs1011188884 1604 dbSNP
rs1425869228 1607 dbSNP
rs79447611 1609 dbSNP
rs77762159 1610 dbSNP
rs1464856625 1615 dbSNP
rs1323287038 1616 dbSNP
rs1421213605 1617 dbSNP
rs1016183606 1620 dbSNP
rs893710047 1621 dbSNP
rs1442876711 1622 dbSNP
rs1017498644 1631 dbSNP
rs1370913724 1631 dbSNP
rs1229815744 1632 dbSNP
rs1007450298 1641 dbSNP
rs1334410333 1660 dbSNP
rs1266025383 1673 dbSNP
rs1005917185 1674 dbSNP
rs1438416863 1679 dbSNP
rs1204461288 1683 dbSNP
rs890092643 1689 dbSNP
rs1189082660 1693 dbSNP
rs888742643 1699 dbSNP
rs1458735275 1702 dbSNP
rs1258244452 1703 dbSNP
rs1050204647 1705 dbSNP
rs1474659541 1706 dbSNP
rs1051386543 1710 dbSNP
rs1421052976 1711 dbSNP
rs3169063 1713 dbSNP
rs537167190 1722 dbSNP
rs773618996 1723 dbSNP
rs1250039341 1724 dbSNP
rs879031819 1735 dbSNP
rs934828846 1739 dbSNP
rs1313225047 1746 dbSNP
rs1354539098 1748 dbSNP
rs903480081 1750 dbSNP
rs1236044958 1756 dbSNP
rs1249204574 1757 dbSNP
rs942223659 1761 dbSNP
rs1043667490 1767 dbSNP
rs1272084980 1770 dbSNP
rs1313340224 1772 dbSNP
rs1340163926 1778 dbSNP
rs1214062847 1779 dbSNP
rs947411096 1794 dbSNP
rs1212097186 1808 dbSNP
rs769739073 1811 dbSNP
rs1301225823 1823 dbSNP
rs76009112 1824 dbSNP
rs1243484503 1827 dbSNP
rs551366641 1828 dbSNP
rs1056026592 1830 dbSNP
rs938920617 1835 dbSNP
rs1436535582 1850 dbSNP
rs146112158 1858 dbSNP
rs1374637666 1878 dbSNP
rs977458310 1881 dbSNP
rs928684038 1882 dbSNP
rs1327237621 1885 dbSNP
rs1430167433 1894 dbSNP
rs971929503 1896 dbSNP
rs1466455350 1901 dbSNP
rs914670016 1904 dbSNP
rs1235699274 1907 dbSNP
rs1280174087 1911 dbSNP
rs1346248287 1912 dbSNP
rs555753230 1914 dbSNP
rs1017404411 1915 dbSNP
rs1194188314 1915 dbSNP
rs1322658450 1915 dbSNP
rs958086786 1915 dbSNP
rs1394402477 1916 dbSNP
rs1171705261 1918 dbSNP
rs1440934785 1921 dbSNP
rs1016187772 1923 dbSNP
rs985092053 1928 dbSNP
rs1029952442 1931 dbSNP
rs3830551 1931 dbSNP
rs539626541 1931 dbSNP
rs1396802848 1944 dbSNP
rs770160889 1946 dbSNP
rs953087976 1948 dbSNP
rs993605159 1954 dbSNP
rs1029106334 1958 dbSNP
rs897561766 1961 dbSNP
rs1241674330 1966 dbSNP
rs748339204 1967 dbSNP
rs901640705 1969 dbSNP
rs1204195138 1971 dbSNP
rs1265775416 1980 dbSNP
rs1469475307 1981 dbSNP
rs1213761538 1988 dbSNP
rs1252355338 1992 dbSNP
rs1452469732 1993 dbSNP
rs1005990767 1994 dbSNP
rs1183854419 1998 dbSNP
rs894612510 2001 dbSNP
rs1055974465 2004 dbSNP
rs1030700572 2014 dbSNP
rs1202506480 2020 dbSNP
rs1462077919 2034 dbSNP
rs1483797342 2039 dbSNP
rs781137808 2042 dbSNP
rs373173790 2044 dbSNP
rs144383449 2046 dbSNP
rs1330070907 2050 dbSNP
rs1237325956 2052 dbSNP
rs1286138150 2055 dbSNP
rs903321759 2056 dbSNP
rs938910706 2057 dbSNP
rs1272027401 2061 dbSNP
rs754671479 2064 dbSNP
rs1197501437 2065 dbSNP
rs758249675 2068 dbSNP
rs1251070455 2069 dbSNP
rs1437086673 2094 dbSNP
rs947597247 2099 dbSNP
rs1179722700 2111 dbSNP
rs747021701 2115 dbSNP
rs1056221673 2117 dbSNP
rs938660354 2119 dbSNP
rs1415782028 2120 dbSNP
rs1041705084 2124 dbSNP
rs1463528008 2128 dbSNP
rs1169063261 2129 dbSNP
rs1396395087 2141 dbSNP
rs530295627 2145 dbSNP
rs1315145337 2157 dbSNP
rs928736359 2162 dbSNP
rs1415044177 2163 dbSNP
rs2280345 2170 dbSNP
rs940525511 2172 dbSNP
rs370921784 2183 dbSNP
rs879107674 2191 dbSNP
rs1228969783 2201 dbSNP
rs878871494 2208 dbSNP
rs984629815 2214 dbSNP
rs1251866669 2216 dbSNP
rs953443418 2218 dbSNP
rs1338630544 2222 dbSNP
rs990610494 2223 dbSNP
rs1028908021 2228 dbSNP
rs544352192 2245 dbSNP
rs975755887 2246 dbSNP
rs1259381691 2247 dbSNP
rs965650076 2249 dbSNP
rs1336432783 2250 dbSNP
rs1030711851 2251 dbSNP
rs1396342933 2252 dbSNP
rs1430434058 2255 dbSNP
rs964169658 2256 dbSNP
rs1373051061 2264 dbSNP
rs531041948 2266 dbSNP
rs1401246192 2268 dbSNP
rs1176028261 2281 dbSNP
rs1376460310 2286 dbSNP
rs999207474 2289 dbSNP
rs903363758 2300 dbSNP
rs776468868 2302 dbSNP
rs757963677 2311 dbSNP
rs185316057 2320 dbSNP
rs954621615 2327 dbSNP
rs894756840 2328 dbSNP
rs1226101479 2334 dbSNP
rs1282291765 2336 dbSNP
rs375244566 2338 dbSNP
rs1002880624 2348 dbSNP
rs1209869762 2358 dbSNP
rs1157572243 2367 dbSNP
rs907181184 2368 dbSNP
rs961993122 2370 dbSNP
rs1036463500 2374 dbSNP
rs1261159728 2381 dbSNP
rs940784860 2382 dbSNP
rs1015936120 2415 dbSNP
rs545477800 2422 dbSNP
rs1454155210 2423 dbSNP
rs1347276366 2424 dbSNP
rs1369790496 2424 dbSNP
rs1187832678 2426 dbSNP
rs909282596 2427 dbSNP
rs371231890 2429 dbSNP
rs1289027381 2434 dbSNP
rs1432253389 2434 dbSNP
rs398078267 2434 dbSNP
rs5813350 2434 dbSNP
rs5813351 2434 dbSNP
rs869289458 2434 dbSNP
rs1257339178 2436 dbSNP
rs1209336539 2437 dbSNP
rs1489584078 2438 dbSNP
rs1049407016 2441 dbSNP
rs1286786260 2441 dbSNP
rs573182439 2443 dbSNP
rs559770672 2445 dbSNP
rs1348653822 2448 dbSNP
rs749910008 2451 dbSNP
rs894265809 2452 dbSNP
rs1034516020 2454 dbSNP
rs1298967922 2474 dbSNP
rs931827550 2482 dbSNP
rs1318458643 2484 dbSNP
rs1286112686 2486 dbSNP
rs542961915 2492 dbSNP
rs907441430 2494 dbSNP
rs1215623461 2497 dbSNP
rs1254234801 2499 dbSNP
rs1339644205 2516 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545212. RNA binding protein: AGO1. Condition:Control PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ggccaggcauguUUGAGACGUc 5'
                      ||||||||| 
Target 5' ------------AACUCUGCAu 3'
1 - 10
Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 57722.0
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 GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 57722.0
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 GSM1065668. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065670. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
Experimental Support 4 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177599. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_1 PAR-CLIP data was present in ERX177628. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_4_6 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
CLIP-seq Support 1 for dataset GSM545212
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / Control
Location of target site ENST00000352385.2 | 3UTR | CAUCCUUCUCUAACAACGUGACUACCUCAUGUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000352385.2 | 3UTR | AACUCUGCAUCCUUCUCUAACAACGUGACUACCUCAUGUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000352385.2 | 3UTR | CAUCCUUCUCUAACAACGUGACUACCUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000352385.2 | 3UTR | CAUCCUUCUCUAACAACGUGACUACCUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1065670
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / 4-thiouridine, 3_ML_LG
Location of target site ENST00000352385.2 | 3UTR | CAUCCUUCUCUAACAACGUGACUACCUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
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
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
LUSC 0.759 0.12 0.800 0.1 4 Click to see details
HNSC 0.303 0.18 0.245 0.23 11 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
LIHC 0.335 0.19 -0.083 0.42 9 Click to see details
86 hsa-miR-3678-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT074327 TNRC6A trinucleotide repeat containing 6A 2 10
MIRT107705 CLTA clathrin light chain A 2 2
MIRT114113 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT155293 IFNAR2 interferon alpha and beta receptor subunit 2 2 4
MIRT159171 NRBP1 nuclear receptor binding protein 1 2 2
MIRT185795 ZNF678 zinc finger protein 678 2 2
MIRT282672 SYNM synemin 2 2
MIRT294386 ZNF264 zinc finger protein 264 2 2
MIRT295818 CHMP4B charged multivesicular body protein 4B 2 2
MIRT332777 CAPRIN1 cell cycle associated protein 1 2 4
MIRT334112 PPP6R3 protein phosphatase 6 regulatory subunit 3 2 2
MIRT340971 IPO5 importin 5 2 2
MIRT354679 CDV3 CDV3 homolog 2 2
MIRT366662 PLP2 proteolipid protein 2 2 2
MIRT404272 PLEKHA8 pleckstrin homology domain containing A8 2 2
MIRT447536 RNF165 ring finger protein 165 2 2
MIRT449139 UQCRB ubiquinol-cytochrome c reductase binding protein 2 2
MIRT451301 LGALS3BP galectin 3 binding protein 2 2
MIRT451488 FOPNL FGFR1OP N-terminal like 2 2
MIRT455198 GNL1 G protein nucleolar 1 (putative) 2 2
MIRT459215 MRPS21 mitochondrial ribosomal protein S21 2 2
MIRT461764 MPDU1 mannose-P-dolichol utilization defect 1 2 2
MIRT463273 ZFX zinc finger protein, X-linked 2 2
MIRT464862 UBB ubiquitin B 2 8
MIRT464950 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT467378 SON SON DNA binding protein 2 4
MIRT469282 RHOA ras homolog family member A 2 2
MIRT470293 PPTC7 PTC7 protein phosphatase homolog 2 2
MIRT470639 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT477163 FABP3 fatty acid binding protein 3 2 2
MIRT477686 EFHD2 EF-hand domain family member D2 2 2
MIRT479725 CCNF cyclin F 2 2
MIRT481726 APH1A aph-1 homolog A, gamma-secretase subunit 2 2
MIRT485673 CCDC64 BICD family like cargo adaptor 1 2 2
MIRT498280 PADI2 peptidyl arginine deiminase 2 2 2
MIRT499921 GPX8 glutathione peroxidase 8 (putative) 2 2
MIRT503616 SLC25A36 solute carrier family 25 member 36 2 4
MIRT506927 IGDCC4 immunoglobulin superfamily DCC subclass member 4 2 6
MIRT507348 FAM129A family with sequence similarity 129 member A 2 6
MIRT508265 DYNLL2 dynein light chain LC8-type 2 2 4
MIRT508284 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 4
MIRT509353 COPS8 COP9 signalosome subunit 8 2 2
MIRT510892 RAB1A RAB1A, member RAS oncogene family 2 4
MIRT511882 GAS1 growth arrest specific 1 2 6
MIRT511990 E2F1 E2F transcription factor 1 2 4
MIRT512239 ARPP19 cAMP regulated phosphoprotein 19 2 4
MIRT512392 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 4
MIRT514086 EPS15L1 epidermal growth factor receptor pathway substrate 15 like 1 2 6
MIRT514358 UBBP4 ubiquitin B pseudogene 4 2 6
MIRT523149 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT525511 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT526333 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT529962 ZNF71 zinc finger protein 71 2 2
MIRT530337 GABRB3 gamma-aminobutyric acid type A receptor beta3 subunit 2 2
MIRT530884 PHOX2A paired like homeobox 2a 2 2
MIRT533097 YOD1 YOD1 deubiquitinase 2 2
MIRT533250 VCAM1 vascular cell adhesion molecule 1 2 2
MIRT534786 RAB8B RAB8B, member RAS oncogene family 2 2
MIRT537917 DSTYK dual serine/threonine and tyrosine protein kinase 2 2
MIRT547799 JARID2 jumonji and AT-rich interaction domain containing 2 2 2
MIRT548714 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT555509 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT555984 NFYB nuclear transcription factor Y subunit beta 2 2
MIRT557942 FAM222B family with sequence similarity 222 member B 2 2
MIRT560830 ZNF786 zinc finger protein 786 2 2
MIRT562720 ZNF714 zinc finger protein 714 2 2
MIRT565337 TMEM104 transmembrane protein 104 2 2
MIRT614453 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT639474 SLC6A4 solute carrier family 6 member 4 2 2
MIRT644056 IQCE IQ motif containing E 2 2
MIRT651652 VWA1 von Willebrand factor A domain containing 1 2 2
MIRT651866 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT653490 SLC43A2 solute carrier family 43 member 2 2 2
MIRT657039 KCNJ6 potassium voltage-gated channel subfamily J member 6 2 2
MIRT657985 GAN gigaxonin 2 2
MIRT672117 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT683583 GSTCD glutathione S-transferase C-terminal domain containing 2 2
MIRT688689 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT695375 NSA2 NSA2, ribosome biogenesis homolog 2 2
MIRT696351 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT700614 PRKAA2 protein kinase AMP-activated catalytic subunit alpha 2 2 2
MIRT703512 FKBP15 FK506 binding protein 15 2 2
MIRT705051 C5orf15 chromosome 5 open reading frame 15 2 2
MIRT705180 BTG1 BTG anti-proliferation factor 1 2 2
MIRT709409 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT721053 DCC DCC netrin 1 receptor 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3678-3p Platinum 23939 resistant tissue
hsa-miR-3678-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3678-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3678-3p Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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