miRTarBase - #MIRT088062


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pre-miRNA Information
pre-miRNA hsa-mir-8066   
Genomic Coordinates chr4: 101240795 - 101240872
Description Homo sapiens miR-8066 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-8066
Sequence 48| CAAUGUGAUCUUUUGGAUGUA |68
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs931560390 4 dbSNP
rs1189907448 6 dbSNP
rs1347410735 8 dbSNP
rs1422871438 10 dbSNP
rs1281396192 14 dbSNP
rs1236502030 19 dbSNP
rs929291819 20 dbSNP
rs756482594 21 dbSNP
Putative Targets

Gene Information
Gene Symbol UBXN2A   
Synonyms UBXD4
Description UBX domain protein 2A
Transcript NM_181713   
Expression
Putative miRNA Targets on UBXN2A
3'UTR of UBXN2A
(miRNA target sites are highlighted)		 
>UBXN2A|NM_181713|3'UTR
   1 TTTTTGATAGACTAAGTGGAAAATTTGCAGAGAAATGATGGTTGTAAGTGGACATGCAAACCAAAATTGGGGATTGGAGA
  81 AGTCAGACTCACTAGACTTTTGGTTCGAGTACTATTGAACTCTCTCCTGATGAGAAGATGTTTAGATAAGTACAAGTTAA
 161 GAAAGTAGCATATGACTGGAAACTATATTCAGTGCACTTTCTCCAAAAGACTACCCAGAAAAATAGACTTATTTTCAAAT
 241 ACCAGTTATCAAGATATATTAAATAGCTGTATTGTTTAGAATCTTAATATGGTATAAATTAGCATATGTATTCACAATAT
 321 TCATTCAGACATCATTCCCAGACAGCAGGGATTTATTTAAATGTTAGCTGTCTGAGTTTTTAAATAGCTAATACGACCGG
 401 GTACAGTGGTTCATGCCTGTAATCCCAGAACTTCGGGAGGCCGAGACAGGCAGATCACGAGGTCAACAGATTGAGACCAT
 481 CCTGGCAAACATGGTGAAACCCCATCTCTAGTAAAAATACAAAAATTAGCTGGGCGTGGCGGTGCGCAACTGTAGTCCCA
 561 GCTACTCGGGAGGCTGAGGCAGGAGAATCTCTTGAACCTGGCAAGTGTAGGTTGCAGTGAGCTGAGATTGAGCAACTGTA
 641 CTCCAGCTTGGCGACAGAGCAAGACCCCCTCTCAAAAATAAATAAAATAAAGTAAAATAAATATAAATAATTGTGGCCGG
 721 GTGCAATGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGATGGGAGGATCACTTGAAGCCAGGAGTTTAAAACC
 801 AGAATGATCAACAGAGTGAGACCCCTGTCTATATATTTTTTTAATTTAAAAAATAAAAGAATAAAATTGTGTAGCTCAGT
 881 ATAGTATCAAGATTAATCTGCCTACTCACATTTCTACACTTTATAAAAATGTAATAAAAGAAAATTATCTTTCTAAAAAA
 961 AAAAAAAAAAAA
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' augUAGGUUUUCUAGUGUAAc 5'
             |||::     ||||||| 
Target 5' ttaATCTGCCTACTCACATTt 3'
 893 - 913 142.00 -5.90
2 
miRNA  3' auguaggUUUUCUAGUGUAac 5'
                 ::|:|||||| |  
Target 5' tgagatgGGAGGATCACTTga 3'
 762 - 782 106.00 -12.90
3 
miRNA  3' auguagGUUU-UCUAGUGUaac 5'
                ||:: |||||||:   
Target 5' ccgagaCAGGCAGATCACGagg 3'
 441 - 462 103.00 -12.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN27535818 8 COSMIC
COSN30466566 19 COSMIC
COSN27001030 28 COSMIC
COSN30515021 36 COSMIC
COSN30153966 52 COSMIC
COSN31508618 90 COSMIC
COSN7242432 358 COSMIC
COSN1833537 761 COSMIC
COSN21916363 1743 COSMIC
COSN19568328 2142 COSMIC
COSN18986561 2493 COSMIC
COSN26298689 2644 COSMIC
COSN7242437 2886 COSMIC
COSN17975065 3858 COSMIC
COSN17122444 3879 COSMIC
COSN20628213 3902 COSMIC
COSN16756045 4899 COSMIC
COSN15371036 4935 COSMIC
rs72781665 350 GWAS
rs72781667 2931 GWAS
rs113362373 4621 GWAS
rs7422667 4744 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1158153972 1 dbSNP
rs747095744 1 dbSNP
rs371072453 2 dbSNP
rs1195047902 3 dbSNP
rs776345312 7 dbSNP
rs768756879 8 dbSNP
rs761387092 21 dbSNP
rs1467309539 23 dbSNP
rs764758491 26 dbSNP
rs1438045631 31 dbSNP
rs890695301 36 dbSNP
rs772774991 37 dbSNP
rs762603745 45 dbSNP
rs781412631 45 dbSNP
rs766100627 50 dbSNP
rs751342826 53 dbSNP
rs1462233068 68 dbSNP
rs1243249145 86 dbSNP
rs10186915 91 dbSNP
rs1159617851 96 dbSNP
rs1323419647 97 dbSNP
rs1254818459 98 dbSNP
rs878946800 99 dbSNP
rs1230062201 102 dbSNP
rs1211605243 107 dbSNP
rs762902922 108 dbSNP
rs1295050585 112 dbSNP
rs543592686 116 dbSNP
rs1005080641 118 dbSNP
rs1385312054 128 dbSNP
rs1337446301 133 dbSNP
rs140758090 149 dbSNP
rs1399978317 152 dbSNP
rs757766899 166 dbSNP
rs1482998120 167 dbSNP
rs1166292952 172 dbSNP
rs1446046253 178 dbSNP
rs1385528185 179 dbSNP
rs911438707 187 dbSNP
rs942904875 193 dbSNP
rs1254359043 196 dbSNP
rs1473131773 197 dbSNP
rs145877496 198 dbSNP
rs3088337 206 dbSNP
rs1226711074 217 dbSNP
rs149482799 225 dbSNP
rs369003723 225 dbSNP
rs1316079583 226 dbSNP
rs1245256426 230 dbSNP
rs1338793073 231 dbSNP
rs1435179734 243 dbSNP
rs577603833 249 dbSNP
rs1395730648 259 dbSNP
rs1024258583 267 dbSNP
rs1041744278 268 dbSNP
rs1428971149 274 dbSNP
rs1426375635 279 dbSNP
rs1385465692 284 dbSNP
rs1306117963 287 dbSNP
rs1295401059 288 dbSNP
rs72851398 293 dbSNP
rs1365054838 297 dbSNP
rs1184550870 305 dbSNP
rs1420182056 311 dbSNP
rs1251803726 316 dbSNP
rs1410208909 323 dbSNP
rs1203450851 341 dbSNP
rs72781665 350 dbSNP
rs572618308 362 dbSNP
rs1053734401 371 dbSNP
rs1354294801 383 dbSNP
rs1281318608 386 dbSNP
rs1239926394 387 dbSNP
rs895043035 395 dbSNP
rs1012117274 396 dbSNP
rs1301311150 397 dbSNP
rs767866891 400 dbSNP
rs1302089080 406 dbSNP
rs957131061 411 dbSNP
rs1386734162 414 dbSNP
rs975098793 418 dbSNP
rs1158628006 419 dbSNP
rs1452507819 425 dbSNP
rs11555490 428 dbSNP
rs920931421 429 dbSNP
rs1180662416 431 dbSNP
rs1481594230 433 dbSNP
rs750716743 434 dbSNP
rs574494839 435 dbSNP
rs1286690417 436 dbSNP
rs986859288 443 dbSNP
rs1226762959 444 dbSNP
rs912171160 448 dbSNP
rs1350054423 451 dbSNP
rs185607400 452 dbSNP
rs1225297804 460 dbSNP
rs1483701351 463 dbSNP
rs114494076 466 dbSNP
rs1434103667 467 dbSNP
rs899300050 468 dbSNP
rs1318571105 476 dbSNP
rs1489564026 479 dbSNP
rs747280880 480 dbSNP
rs930719693 483 dbSNP
rs188502671 490 dbSNP
rs1471222888 497 dbSNP
rs1430667348 498 dbSNP
rs984172727 501 dbSNP
rs1018555346 508 dbSNP
rs964636846 509 dbSNP
rs1194187927 511 dbSNP
rs11555491 517 dbSNP
rs764178951 519 dbSNP
rs1170640356 520 dbSNP
rs1205695171 521 dbSNP
rs1324156978 536 dbSNP
rs976926779 537 dbSNP
rs181692169 541 dbSNP
rs562530750 542 dbSNP
rs1270360517 543 dbSNP
rs1429624577 544 dbSNP
rs1362630529 545 dbSNP
rs946184073 546 dbSNP
rs112713129 547 dbSNP
rs1438108579 550 dbSNP
rs1326187923 553 dbSNP
rs1407473519 555 dbSNP
rs1334092888 565 dbSNP
rs551059407 569 dbSNP
rs1032814519 571 dbSNP
rs1299233976 572 dbSNP
rs1185494817 582 dbSNP
rs1343460489 586 dbSNP
rs936046254 592 dbSNP
rs1207961115 595 dbSNP
rs1439295661 602 dbSNP
rs186548401 611 dbSNP
rs114795698 626 dbSNP
rs916542488 627 dbSNP
rs746928792 641 dbSNP
rs1245993504 642 dbSNP
rs1377829862 648 dbSNP
rs1046314645 653 dbSNP
rs906375796 654 dbSNP
rs1222497553 661 dbSNP
rs1028058338 664 dbSNP
rs955282104 665 dbSNP
rs1247633773 669 dbSNP
rs751332713 680 dbSNP
rs993976205 682 dbSNP
rs1165715704 684 dbSNP
rs1248771117 690 dbSNP
rs1445261036 692 dbSNP
rs545977264 712 dbSNP
rs1180231002 715 dbSNP
rs369950166 719 dbSNP
rs116135489 720 dbSNP
rs1406884688 723 dbSNP
rs1204175372 726 dbSNP
rs920846992 727 dbSNP
rs1293424543 736 dbSNP
rs1222801975 738 dbSNP
rs1320552462 742 dbSNP
rs1018354648 749 dbSNP
rs963707869 754 dbSNP
rs1376150055 757 dbSNP
rs1055956816 774 dbSNP
rs894580814 777 dbSNP
rs998400223 779 dbSNP
rs950153911 781 dbSNP
rs1029847190 788 dbSNP
rs371638691 792 dbSNP
rs1282945760 795 dbSNP
rs977547300 802 dbSNP
rs769662722 806 dbSNP
rs1402587595 823 dbSNP
rs1408544233 825 dbSNP
rs926094900 834 dbSNP
rs1471461404 835 dbSNP
rs1229236835 836 dbSNP
rs957685639 836 dbSNP
rs1267949672 838 dbSNP
rs1327307459 840 dbSNP
rs1487942560 850 dbSNP
rs550947147 851 dbSNP
rs1217306552 858 dbSNP
rs1317000948 860 dbSNP
rs775548195 861 dbSNP
rs1441931061 868 dbSNP
rs115354092 873 dbSNP
rs915908401 879 dbSNP
rs996658717 882 dbSNP
rs1028090933 893 dbSNP
rs1432911090 905 dbSNP
rs1389499788 909 dbSNP
rs950005181 910 dbSNP
rs1473764136 914 dbSNP
rs1046363484 924 dbSNP
rs955165552 930 dbSNP
rs577667636 931 dbSNP
rs929822962 939 dbSNP
rs768608318 944 dbSNP
rs1410998675 948 dbSNP
rs774484007 949 dbSNP
rs1176869839 961 dbSNP
rs1432451657 961 dbSNP
rs1264755346 963 dbSNP
rs1187925553 966 dbSNP
rs1485884886 971 dbSNP
rs1005714822 976 dbSNP
rs1206332988 995 dbSNP
rs1327681982 998 dbSNP
rs1039420915 1008 dbSNP
rs1234334340 1014 dbSNP
rs1311991654 1016 dbSNP
rs369295687 1017 dbSNP
rs1216582302 1025 dbSNP
rs1366253138 1031 dbSNP
rs1319948624 1036 dbSNP
rs1433065823 1039 dbSNP
rs973728547 1044 dbSNP
rs1303363018 1048 dbSNP
rs1465316856 1058 dbSNP
rs1413402241 1065 dbSNP
rs1331692283 1067 dbSNP
rs761883933 1068 dbSNP
rs1415984511 1070 dbSNP
rs373667713 1075 dbSNP
rs952254568 1076 dbSNP
rs553867002 1086 dbSNP
rs1186114808 1103 dbSNP
rs967596784 1105 dbSNP
rs572431999 1109 dbSNP
rs1201557732 1116 dbSNP
rs950170101 1119 dbSNP
rs1254600949 1123 dbSNP
rs549641260 1134 dbSNP
rs1280364500 1135 dbSNP
rs1297227030 1144 dbSNP
rs1226188446 1145 dbSNP
rs1344662410 1146 dbSNP
rs773726599 1153 dbSNP
rs1033599147 1155 dbSNP
rs760903787 1156 dbSNP
rs1400041155 1159 dbSNP
rs991998435 1162 dbSNP
rs915971875 1163 dbSNP
rs13021997 1164 dbSNP
rs12989535 1165 dbSNP
rs1369478261 1169 dbSNP
rs1049590635 1170 dbSNP
rs890915524 1174 dbSNP
rs1211534783 1183 dbSNP
rs1368576421 1184 dbSNP
rs542949241 1186 dbSNP
rs774434117 1187 dbSNP
rs1184155100 1188 dbSNP
rs1364002269 1190 dbSNP
rs1483589732 1195 dbSNP
rs1274121073 1204 dbSNP
rs561611773 1206 dbSNP
rs1015795411 1207 dbSNP
rs961104819 1208 dbSNP
rs576820537 1216 dbSNP
rs548312019 1218 dbSNP
rs142696154 1219 dbSNP
rs1309060085 1226 dbSNP
rs952285322 1241 dbSNP
rs551190291 1251 dbSNP
rs551486956 1253 dbSNP
rs941173461 1254 dbSNP
rs1305758819 1260 dbSNP
rs1426133908 1264 dbSNP
rs559869063 1273 dbSNP
rs527326032 1274 dbSNP
rs972011149 1280 dbSNP
rs981625497 1297 dbSNP
rs1473099918 1304 dbSNP
rs933693166 1304 dbSNP
rs924713504 1305 dbSNP
rs1180529704 1309 dbSNP
rs147362845 1310 dbSNP
rs149334108 1312 dbSNP
rs1330709761 1313 dbSNP
rs35785006 1324 dbSNP
rs537751165 1324 dbSNP
rs149646512 1341 dbSNP
rs144320466 1343 dbSNP
rs1286207137 1349 dbSNP
rs113365896 1351 dbSNP
rs1331323387 1352 dbSNP
rs1234843321 1357 dbSNP
rs1384509945 1357 dbSNP
rs1008509389 1379 dbSNP
rs1482064993 1387 dbSNP
rs554288909 1389 dbSNP
rs1458208044 1390 dbSNP
rs1197307958 1410 dbSNP
rs1036846369 1413 dbSNP
rs1157390434 1414 dbSNP
rs1013064982 1432 dbSNP
rs1247446313 1440 dbSNP
rs1450647307 1444 dbSNP
rs1198448403 1448 dbSNP
rs1449893945 1452 dbSNP
rs1249946457 1457 dbSNP
rs896924194 1471 dbSNP
rs1464380215 1473 dbSNP
rs1023081434 1489 dbSNP
rs760474811 1491 dbSNP
rs77782271 1492 dbSNP
rs1011911200 1506 dbSNP
rs13034804 1518 dbSNP
rs536610402 1526 dbSNP
rs1230572210 1528 dbSNP
rs1026320763 1531 dbSNP
rs1454336991 1532 dbSNP
rs950660869 1538 dbSNP
rs1433801422 1540 dbSNP
rs1388458322 1541 dbSNP
rs1319141156 1568 dbSNP
rs983117453 1571 dbSNP
rs555007812 1584 dbSNP
rs567129330 1590 dbSNP
rs1392324978 1592 dbSNP
rs541630930 1592 dbSNP
rs768203260 1592 dbSNP
rs1189294677 1593 dbSNP
rs779960532 1594 dbSNP
rs1432226748 1602 dbSNP
rs1168811765 1603 dbSNP
rs1390491198 1604 dbSNP
rs1385246454 1607 dbSNP
rs1325774559 1609 dbSNP
rs941220280 1611 dbSNP
rs975265932 1613 dbSNP
rs576784431 1619 dbSNP
rs914657834 1620 dbSNP
rs1295556000 1623 dbSNP
rs933746904 1631 dbSNP
rs1226946732 1639 dbSNP
rs1362423729 1646 dbSNP
rs1339941480 1653 dbSNP
rs1229563231 1654 dbSNP
rs775948838 1656 dbSNP
rs879633513 1658 dbSNP
rs1450773099 1659 dbSNP
rs1251629375 1662 dbSNP
rs1333912764 1664 dbSNP
rs1413189949 1668 dbSNP
rs768803474 1678 dbSNP
rs1372570379 1686 dbSNP
rs544141375 1695 dbSNP
rs1355399617 1696 dbSNP
rs1429134901 1697 dbSNP
rs902872130 1708 dbSNP
rs1388435707 1720 dbSNP
rs1183719362 1729 dbSNP
rs934323334 1754 dbSNP
rs1055137045 1757 dbSNP
rs893373361 1762 dbSNP
rs1483919426 1765 dbSNP
rs1037283753 1767 dbSNP
rs1204039696 1780 dbSNP
rs539008489 1784 dbSNP
rs1339679984 1786 dbSNP
rs1187366198 1791 dbSNP
rs1013534098 1795 dbSNP
rs896955394 1796 dbSNP
rs1380530237 1797 dbSNP
rs1284134404 1799 dbSNP
rs1413260947 1799 dbSNP
rs1352739941 1801 dbSNP
rs1023135252 1805 dbSNP
rs559178107 1812 dbSNP
rs894888711 1814 dbSNP
rs1194532838 1815 dbSNP
rs143645786 1818 dbSNP
rs1026373196 1821 dbSNP
rs1161410353 1824 dbSNP
rs950795669 1824 dbSNP
rs984795322 1829 dbSNP
rs1165417927 1830 dbSNP
rs1017299333 1831 dbSNP
rs376987958 1832 dbSNP
rs1031804387 1841 dbSNP
rs544772003 1847 dbSNP
rs1248164919 1854 dbSNP
rs921106412 1855 dbSNP
rs990271729 1856 dbSNP
rs1289731337 1858 dbSNP
rs1021695809 1859 dbSNP
rs1331895167 1861 dbSNP
rs1289359449 1862 dbSNP
rs954134197 1864 dbSNP
rs1208568795 1868 dbSNP
rs146332624 1869 dbSNP
rs1367472179 1882 dbSNP
rs1321710750 1883 dbSNP
rs986533189 1892 dbSNP
rs943962867 1893 dbSNP
rs972638134 1894 dbSNP
rs141999342 1903 dbSNP
rs1242324346 1906 dbSNP
rs931169443 1907 dbSNP
rs868232638 1908 dbSNP
rs934347905 1920 dbSNP
rs1054118404 1921 dbSNP
rs1210108602 1922 dbSNP
rs1466633634 1934 dbSNP
rs1048245982 1937 dbSNP
rs1228106125 1937 dbSNP
rs1335044001 1942 dbSNP
rs1315529357 1946 dbSNP
rs914845244 1949 dbSNP
rs1219999569 1954 dbSNP
rs772166566 1956 dbSNP
rs1044632974 1963 dbSNP
rs907382510 1964 dbSNP
rs1003018151 1965 dbSNP
rs371008512 1967 dbSNP
rs1319827911 1968 dbSNP
rs1451296464 1974 dbSNP
rs886517799 1975 dbSNP
rs1006674182 1985 dbSNP
rs144195260 1986 dbSNP
rs965038065 1988 dbSNP
rs1432214597 1989 dbSNP
rs1256047793 1990 dbSNP
rs1189861707 1997 dbSNP
rs531487921 2000 dbSNP
rs1449557382 2001 dbSNP
rs1422631121 2010 dbSNP
rs1028174588 2015 dbSNP
rs1208680573 2016 dbSNP
rs1485199660 2018 dbSNP
rs766770822 2019 dbSNP
rs955234210 2020 dbSNP
rs549692035 2022 dbSNP
rs1002168302 2026 dbSNP
rs1472360580 2027 dbSNP
rs986580216 2028 dbSNP
rs1301535180 2030 dbSNP
rs1390847701 2034 dbSNP
rs924386801 2035 dbSNP
rs1230633543 2036 dbSNP
rs1366053509 2040 dbSNP
rs571352584 2041 dbSNP
rs192336099 2042 dbSNP
rs151044465 2043 dbSNP
rs1394262766 2044 dbSNP
rs1294844315 2051 dbSNP
rs566119649 2052 dbSNP
rs1044687293 2055 dbSNP
rs928852700 2056 dbSNP
rs1388975380 2058 dbSNP
rs1186175621 2061 dbSNP
rs536768948 2065 dbSNP
rs1286065226 2067 dbSNP
rs1047923422 2070 dbSNP
rs183705110 2075 dbSNP
rs570096203 2076 dbSNP
rs1278405213 2080 dbSNP
rs1038163276 2081 dbSNP
rs1343191103 2084 dbSNP
rs1006943824 2087 dbSNP
rs1273984244 2087 dbSNP
rs781487804 2088 dbSNP
rs996117258 2089 dbSNP
rs1309661939 2090 dbSNP
rs1410028417 2093 dbSNP
rs553317802 2093 dbSNP
rs780910472 2093 dbSNP
rs1459000894 2097 dbSNP
rs1271833485 2106 dbSNP
rs1166142372 2107 dbSNP
rs537715490 2117 dbSNP
rs1255811145 2120 dbSNP
rs955281274 2154 dbSNP
rs1184848393 2159 dbSNP
rs1483498205 2171 dbSNP
rs1008052662 2176 dbSNP
rs186174333 2178 dbSNP
rs1258590298 2179 dbSNP
rs1482938289 2182 dbSNP
rs1180561558 2184 dbSNP
rs577355330 2190 dbSNP
rs1410423654 2191 dbSNP
rs1419950262 2198 dbSNP
rs1265918218 2203 dbSNP
rs1243937044 2207 dbSNP
rs983967489 2208 dbSNP
rs1289965417 2226 dbSNP
rs1228847145 2230 dbSNP
rs916382396 2236 dbSNP
rs1326464591 2238 dbSNP
rs956031449 2241 dbSNP
rs1390872743 2249 dbSNP
rs989928753 2254 dbSNP
rs1461359000 2256 dbSNP
rs1416414083 2266 dbSNP
rs1161822571 2270 dbSNP
rs1473130025 2277 dbSNP
rs140370035 2278 dbSNP
rs969734565 2291 dbSNP
rs1453576789 2296 dbSNP
rs935040111 2302 dbSNP
rs1213208222 2303 dbSNP
rs1467079607 2304 dbSNP
rs1269944195 2309 dbSNP
rs1228721713 2313 dbSNP
rs1328250651 2319 dbSNP
rs979751828 2321 dbSNP
rs928911490 2326 dbSNP
rs938918742 2336 dbSNP
rs149960879 2337 dbSNP
rs908049886 2341 dbSNP
rs1306001705 2343 dbSNP
rs1375024059 2346 dbSNP
rs1224021489 2350 dbSNP
rs1392838541 2354 dbSNP
rs572079165 2355 dbSNP
rs1458055857 2358 dbSNP
rs1384655863 2363 dbSNP
rs1037815362 2374 dbSNP
rs1157237726 2375 dbSNP
rs1479121325 2377 dbSNP
rs1193012232 2383 dbSNP
rs1452671066 2387 dbSNP
rs1249763527 2389 dbSNP
rs900573859 2393 dbSNP
rs1446399692 2394 dbSNP
rs1281859039 2395 dbSNP
rs1309950784 2396 dbSNP
rs759833363 2402 dbSNP
rs1237062968 2410 dbSNP
rs932015067 2414 dbSNP
rs1366773772 2416 dbSNP
rs1483048846 2419 dbSNP
rs1297739574 2421 dbSNP
rs1203427926 2422 dbSNP
rs1235001758 2423 dbSNP
rs1481060285 2426 dbSNP
rs1190840205 2427 dbSNP
rs1265273232 2428 dbSNP
rs1455638896 2429 dbSNP
rs1174402908 2431 dbSNP
rs889923932 2434 dbSNP
rs778942508 2436 dbSNP
rs1403106847 2438 dbSNP
rs1173274154 2441 dbSNP
rs1395584301 2442 dbSNP
rs1007469231 2444 dbSNP
rs1189351210 2449 dbSNP
rs542348859 2452 dbSNP
rs1051710857 2456 dbSNP
rs560525735 2462 dbSNP
rs1019731505 2463 dbSNP
rs745846307 2467 dbSNP
rs890415360 2484 dbSNP
rs189970371 2487 dbSNP
rs10201459 2488 dbSNP
rs1168005798 2491 dbSNP
rs10193332 2493 dbSNP
rs1356082208 2495 dbSNP
rs1031976634 2496 dbSNP
rs111324357 2498 dbSNP
rs1365134642 2502 dbSNP
rs1450571580 2507 dbSNP
rs1442453226 2518 dbSNP
rs1312697029 2525 dbSNP
rs370542476 2529 dbSNP
rs543305134 2531 dbSNP
rs149085761 2532 dbSNP
rs969793370 2534 dbSNP
rs1409461308 2536 dbSNP
rs1164960371 2537 dbSNP
rs1226884251 2537 dbSNP
rs1275498291 2538 dbSNP
rs146052501 2545 dbSNP
rs1256510733 2546 dbSNP
rs1185598020 2547 dbSNP
rs111777267 2550 dbSNP
rs1203134523 2550 dbSNP
rs1435589797 2553 dbSNP
rs1271456298 2554 dbSNP
rs983998122 2558 dbSNP
rs1221378995 2562 dbSNP
rs1293048144 2563 dbSNP
rs1336174339 2563 dbSNP
rs796664791 2564 dbSNP
rs1263888718 2571 dbSNP
rs1352491101 2584 dbSNP
rs1035364260 2586 dbSNP
rs1308884455 2593 dbSNP
rs959666363 2594 dbSNP
rs1352803883 2595 dbSNP
rs983739723 2601 dbSNP
rs908103551 2605 dbSNP
rs1194300761 2606 dbSNP
rs982337996 2607 dbSNP
rs942243326 2608 dbSNP
rs761376747 2610 dbSNP
rs566457166 2621 dbSNP
rs1176298123 2629 dbSNP
rs922061908 2631 dbSNP
rs565755162 2632 dbSNP
rs1421306683 2633 dbSNP
rs553925473 2634 dbSNP
rs1163884128 2636 dbSNP
rs890470531 2637 dbSNP
rs935312169 2638 dbSNP
rs1053067394 2639 dbSNP
rs1325951196 2642 dbSNP
rs891694480 2644 dbSNP
rs1043331592 2646 dbSNP
rs1441738104 2647 dbSNP
rs1429152932 2668 dbSNP
rs577057592 2669 dbSNP
rs1389063799 2670 dbSNP
rs1272424092 2679 dbSNP
rs890028563 2680 dbSNP
rs1416926365 2683 dbSNP
rs750318640 2688 dbSNP
rs905660129 2689 dbSNP
rs1001297199 2694 dbSNP
rs756146430 2700 dbSNP
rs779862893 2701 dbSNP
rs530199782 2703 dbSNP
rs1466674698 2704 dbSNP
rs942913052 2708 dbSNP
rs1215600486 2711 dbSNP
rs1015207758 2717 dbSNP
rs1315279991 2724 dbSNP
rs548725152 2725 dbSNP
rs1235050629 2732 dbSNP
rs570061598 2732 dbSNP
rs963965580 2733 dbSNP
rs973644443 2734 dbSNP
rs922113186 2736 dbSNP
rs1463606458 2739 dbSNP
rs374049134 2741 dbSNP
rs1288069276 2742 dbSNP
rs537480587 2744 dbSNP
rs1451365629 2745 dbSNP
rs987535881 2746 dbSNP
rs1173906389 2747 dbSNP
rs139977608 2753 dbSNP
rs994219970 2757 dbSNP
rs779607791 2763 dbSNP
rs1169998327 2764 dbSNP
rs1451870427 2765 dbSNP
rs779063327 2769 dbSNP
rs748405712 2770 dbSNP
rs1239389848 2775 dbSNP
rs1211825984 2777 dbSNP
rs915206331 2780 dbSNP
rs888487170 2785 dbSNP
rs1278269013 2786 dbSNP
rs772117216 2787 dbSNP
rs1307939602 2788 dbSNP
rs372002656 2790 dbSNP
rs571077635 2791 dbSNP
rs905712479 2792 dbSNP
rs1313306534 2796 dbSNP
rs1413770665 2807 dbSNP
rs1373307790 2810 dbSNP
rs1169861689 2812 dbSNP
rs1462059687 2818 dbSNP
rs1001349389 2823 dbSNP
rs1023579490 2824 dbSNP
rs1427299613 2838 dbSNP
rs1416379619 2839 dbSNP
rs969690091 2842 dbSNP
rs535029651 2845 dbSNP
rs1207311810 2847 dbSNP
rs1346271194 2848 dbSNP
rs1250654996 2852 dbSNP
rs1447982326 2856 dbSNP
rs1323484832 2861 dbSNP
rs895558095 2868 dbSNP
rs1232458569 2869 dbSNP
rs1353113926 2870 dbSNP
rs1309496613 2873 dbSNP
rs1044277 2885 dbSNP
rs574720941 2886 dbSNP
rs771401142 2889 dbSNP
rs995512563 2890 dbSNP
rs1475093452 2891 dbSNP
rs1029178868 2897 dbSNP
rs1419942866 2897 dbSNP
rs914991523 2899 dbSNP
rs953571648 2900 dbSNP
rs533590609 2917 dbSNP
rs1489382773 2919 dbSNP
rs946421045 2928 dbSNP
rs746839070 2930 dbSNP
rs72781667 2931 dbSNP
rs1332455115 2934 dbSNP
rs1290026101 2941 dbSNP
rs1239284980 2942 dbSNP
rs911502712 2945 dbSNP
rs182249039 2951 dbSNP
rs1388016014 2960 dbSNP
rs1041230595 2961 dbSNP
rs1327192639 2964 dbSNP
rs1461218066 2965 dbSNP
rs1392705023 2966 dbSNP
rs957002909 2974 dbSNP
rs1160707462 2975 dbSNP
rs1454494679 2982 dbSNP
rs1447475462 2988 dbSNP
rs575743051 2996 dbSNP
rs1179675650 2997 dbSNP
rs1255069553 3005 dbSNP
rs915240876 3009 dbSNP
rs1047212114 3017 dbSNP
rs1410737633 3020 dbSNP
rs542968788 3020 dbSNP
rs1468313065 3023 dbSNP
rs1467120815 3025 dbSNP
rs888517888 3031 dbSNP
rs946714672 3033 dbSNP
rs1043017543 3039 dbSNP
rs1005578085 3040 dbSNP
rs1258600326 3041 dbSNP
rs1024032091 3043 dbSNP
rs927179914 3053 dbSNP
rs1003834389 3054 dbSNP
rs1408102283 3055 dbSNP
rs1034866005 3060 dbSNP
rs564751941 3061 dbSNP
rs937190042 3062 dbSNP
rs1383136512 3065 dbSNP
rs1311594297 3074 dbSNP
rs1377868688 3077 dbSNP
rs114968454 3086 dbSNP
rs774125391 3088 dbSNP
rs1395740374 3098 dbSNP
rs1173157073 3099 dbSNP
rs1334176099 3103 dbSNP
rs967753883 3106 dbSNP
rs1280166005 3121 dbSNP
rs1344421261 3142 dbSNP
rs541003522 3152 dbSNP
rs1278081998 3157 dbSNP
rs541913617 3158 dbSNP
rs11553491 3165 dbSNP
rs1212543309 3178 dbSNP
rs898846537 3211 dbSNP
rs994496302 3222 dbSNP
rs760886389 3228 dbSNP
rs529960372 3231 dbSNP
rs548691144 3242 dbSNP
rs1435665157 3245 dbSNP
rs773679364 3257 dbSNP
rs889358964 3268 dbSNP
rs1316740358 3275 dbSNP
rs1232885639 3284 dbSNP
rs1009058866 3287 dbSNP
rs527413256 3288 dbSNP
rs1432957243 3302 dbSNP
rs1019078377 3306 dbSNP
rs956865546 3307 dbSNP
rs1168457296 3314 dbSNP
rs1450713636 3315 dbSNP
rs1475068278 3315 dbSNP
rs1047241426 3328 dbSNP
rs563729620 3334 dbSNP
rs1168314401 3337 dbSNP
rs1394816262 3353 dbSNP
rs1208032849 3380 dbSNP
rs1439072927 3385 dbSNP
rs547363343 3386 dbSNP
rs766269346 3394 dbSNP
rs1339371508 3397 dbSNP
rs1329799844 3399 dbSNP
rs1022359056 3401 dbSNP
rs1356274380 3407 dbSNP
rs1438773119 3411 dbSNP
rs1412973025 3415 dbSNP
rs1305765864 3419 dbSNP
rs766715781 3423 dbSNP
rs1329682104 3428 dbSNP
rs1409290867 3440 dbSNP
rs1394336407 3465 dbSNP
rs1166747294 3467 dbSNP
rs1475423581 3484 dbSNP
rs968479520 3485 dbSNP
rs980758297 3487 dbSNP
rs1470984816 3491 dbSNP
rs927232093 3501 dbSNP
rs1203288259 3508 dbSNP
rs552514294 3514 dbSNP
rs187324810 3527 dbSNP
rs1256733642 3528 dbSNP
rs1215891667 3534 dbSNP
rs1335955204 3534 dbSNP
rs749884833 3535 dbSNP
rs200373466 3537 dbSNP
rs1226802577 3544 dbSNP
rs1375876894 3562 dbSNP
rs1280209019 3569 dbSNP
rs917085267 3577 dbSNP
rs760119738 3585 dbSNP
rs1036546706 3590 dbSNP
rs1197404445 3593 dbSNP
rs1273254688 3594 dbSNP
rs1467792426 3596 dbSNP
rs1461929402 3602 dbSNP
rs898902748 3603 dbSNP
rs1254371240 3607 dbSNP
rs1455051247 3610 dbSNP
rs190241197 3621 dbSNP
rs1371636040 3625 dbSNP
rs967784852 3630 dbSNP
rs1468177068 3631 dbSNP
rs1168902184 3641 dbSNP
rs1236843965 3643 dbSNP
rs1050048960 3669 dbSNP
rs766287571 3677 dbSNP
rs1007688113 3682 dbSNP
rs1469345758 3686 dbSNP
rs888743534 3693 dbSNP
rs547025074 3694 dbSNP
rs1009117391 3702 dbSNP
rs1318892955 3703 dbSNP
rs1285240650 3709 dbSNP
rs1223250286 3714 dbSNP
rs1019169875 3715 dbSNP
rs892650415 3716 dbSNP
rs1294764303 3719 dbSNP
rs1324674048 3728 dbSNP
rs1291505527 3731 dbSNP
rs1432654243 3735 dbSNP
rs556077873 3744 dbSNP
rs1345366375 3752 dbSNP
rs1229313679 3767 dbSNP
rs1157958149 3774 dbSNP
rs1009723765 3779 dbSNP
rs1398636668 3786 dbSNP
rs1270592341 3787 dbSNP
rs922871462 3791 dbSNP
rs1455083753 3792 dbSNP
rs1252929769 3797 dbSNP
rs200964662 3808 dbSNP
rs1189787213 3810 dbSNP
rs1487070109 3816 dbSNP
rs1243092136 3818 dbSNP
rs1022834561 3824 dbSNP
rs982960657 3830 dbSNP
rs568308014 3835 dbSNP
rs1274447472 3836 dbSNP
rs1468545132 3840 dbSNP
rs1299133426 3845 dbSNP
rs1204112092 3846 dbSNP
rs1260228588 3850 dbSNP
rs1430848814 3853 dbSNP
rs201258181 3855 dbSNP
rs755779802 3855 dbSNP
rs763424953 3855 dbSNP
rs1165696132 3856 dbSNP
rs1491571475 3856 dbSNP
rs751764991 3856 dbSNP
rs1174532566 3857 dbSNP
rs1186366503 3857 dbSNP
rs1211625161 3857 dbSNP
rs1259889993 3857 dbSNP
rs1420650252 3857 dbSNP
rs1430856361 3857 dbSNP
rs1487391860 3857 dbSNP
rs199935532 3857 dbSNP
rs200765119 3857 dbSNP
rs202233084 3857 dbSNP
rs58077988 3857 dbSNP
rs758679165 3857 dbSNP
rs879070218 3857 dbSNP
rs1293557598 3858 dbSNP
rs1294583684 3858 dbSNP
rs1299438357 3858 dbSNP
rs1355628234 3858 dbSNP
rs1393427223 3858 dbSNP
rs1397264511 3858 dbSNP
rs1399400809 3858 dbSNP
rs1413827724 3858 dbSNP
rs1463973035 3858 dbSNP
rs1491224707 3858 dbSNP
rs3210974 3858 dbSNP
rs557412114 3858 dbSNP
rs869213946 3858 dbSNP
rs1194291387 3860 dbSNP
rs1368271686 3861 dbSNP
rs1474315692 3873 dbSNP
rs1167377832 3874 dbSNP
rs1395576306 3875 dbSNP
rs1420240771 3875 dbSNP
rs1188884957 3877 dbSNP
rs1475031811 3878 dbSNP
rs1176296817 3879 dbSNP
rs1287241373 3880 dbSNP
rs1382657760 3881 dbSNP
rs1383883824 3882 dbSNP
rs1318671100 3883 dbSNP
rs1480881282 3884 dbSNP
rs1354599020 3885 dbSNP
rs1231008977 3886 dbSNP
rs1294744574 3887 dbSNP
rs1335144845 3889 dbSNP
rs910015496 3897 dbSNP
rs1258465894 3899 dbSNP
rs1487106122 3906 dbSNP
rs1273631106 3917 dbSNP
rs1232284845 3923 dbSNP
rs55648041 3934 dbSNP
rs1206250416 3935 dbSNP
rs1338402146 3943 dbSNP
rs1257171864 3944 dbSNP
rs1391475503 3951 dbSNP
rs1484892772 3959 dbSNP
rs941455459 3963 dbSNP
rs1190585681 3967 dbSNP
rs1331296779 3984 dbSNP
rs1045598107 3985 dbSNP
rs1418817341 4008 dbSNP
rs1397115531 4009 dbSNP
rs1457592017 4018 dbSNP
rs535613729 4018 dbSNP
rs1418764249 4019 dbSNP
rs1366943079 4020 dbSNP
rs1156963813 4021 dbSNP
rs1184012366 4022 dbSNP
rs1365628151 4023 dbSNP
rs1237456872 4025 dbSNP
rs1176673196 4028 dbSNP
rs1469809673 4036 dbSNP
rs1253387624 4038 dbSNP
rs1455234463 4039 dbSNP
rs1212840156 4040 dbSNP
rs35694258 4058 dbSNP
rs926723134 4063 dbSNP
rs1262145073 4074 dbSNP
rs1239088656 4087 dbSNP
rs1315778789 4091 dbSNP
rs939378256 4097 dbSNP
rs557138097 4098 dbSNP
rs1373917018 4110 dbSNP
rs1326989730 4125 dbSNP
rs183705607 4136 dbSNP
rs1374848928 4144 dbSNP
rs754732387 4145 dbSNP
rs1412691884 4162 dbSNP
rs201434904 4164 dbSNP
rs117245337 4171 dbSNP
rs536766369 4175 dbSNP
rs1043548789 4177 dbSNP
rs903645257 4186 dbSNP
rs1379712768 4188 dbSNP
rs1007385428 4190 dbSNP
rs1455532235 4193 dbSNP
rs532798964 4195 dbSNP
rs1395679665 4197 dbSNP
rs1197880981 4201 dbSNP
rs1017799746 4209 dbSNP
rs1263622332 4218 dbSNP
rs759948791 4223 dbSNP
rs1205304795 4225 dbSNP
rs1485348110 4228 dbSNP
rs1283176619 4229 dbSNP
rs1235940904 4232 dbSNP
rs1350661772 4236 dbSNP
rs965805122 4240 dbSNP
rs1239222308 4241 dbSNP
rs1329667792 4247 dbSNP
rs1320713554 4249 dbSNP
rs116442880 4250 dbSNP
rs188227371 4262 dbSNP
rs115489780 4265 dbSNP
rs146924959 4268 dbSNP
rs1395580973 4275 dbSNP
rs1480402503 4282 dbSNP
rs1477012963 4298 dbSNP
rs1374524088 4319 dbSNP
rs1175716086 4328 dbSNP
rs910135180 4330 dbSNP
rs569079725 4342 dbSNP
rs1173160409 4344 dbSNP
rs1394385077 4363 dbSNP
rs1432815899 4365 dbSNP
rs145053242 4370 dbSNP
rs10666550 4371 dbSNP
rs67155303 4372 dbSNP
rs193272661 4389 dbSNP
rs1277334819 4403 dbSNP
rs980952155 4423 dbSNP
rs563521929 4426 dbSNP
rs1343503860 4439 dbSNP
rs1272287805 4441 dbSNP
rs1228690063 4443 dbSNP
rs1340099186 4453 dbSNP
rs926725433 4459 dbSNP
rs1375148914 4463 dbSNP
rs56081686 4464 dbSNP
rs1376095212 4474 dbSNP
rs939429176 4478 dbSNP
rs992134546 4490 dbSNP
rs913870594 4491 dbSNP
rs869264027 4494 dbSNP
rs185663637 4504 dbSNP
rs1464949123 4509 dbSNP
rs563493947 4517 dbSNP
rs1369376830 4518 dbSNP
rs1043658435 4522 dbSNP
rs903755861 4523 dbSNP
rs1237177253 4531 dbSNP
rs943219452 4539 dbSNP
rs1275782646 4544 dbSNP
rs1307291693 4559 dbSNP
rs1202951032 4561 dbSNP
rs1038841318 4566 dbSNP
rs530991455 4572 dbSNP
rs1481111934 4580 dbSNP
rs546015070 4585 dbSNP
rs1193039930 4594 dbSNP
rs1329503420 4596 dbSNP
rs1251239159 4604 dbSNP
rs1465065791 4612 dbSNP
rs188991745 4616 dbSNP
rs1195425976 4617 dbSNP
rs997231375 4620 dbSNP
rs113362373 4621 dbSNP
rs886143514 4622 dbSNP
rs1427688115 4623 dbSNP
rs1232987907 4635 dbSNP
rs1005885250 4638 dbSNP
rs1355888122 4644 dbSNP
rs1017636401 4645 dbSNP
rs546983602 4647 dbSNP
rs962976092 4652 dbSNP
rs1216016317 4653 dbSNP
rs568368881 4654 dbSNP
rs529567133 4656 dbSNP
rs1391668844 4658 dbSNP
rs1443668910 4660 dbSNP
rs550730478 4661 dbSNP
rs1361943269 4663 dbSNP
rs1213157657 4664 dbSNP
rs1298244076 4674 dbSNP
rs569145212 4674 dbSNP
rs1310104453 4680 dbSNP
rs1445876702 4688 dbSNP
rs1308247067 4696 dbSNP
rs1374666143 4702 dbSNP
rs1213314336 4705 dbSNP
rs1327658630 4706 dbSNP
rs1441435173 4707 dbSNP
rs1271274475 4709 dbSNP
rs1348909836 4709 dbSNP
rs1033824534 4713 dbSNP
rs4665651 4714 dbSNP
rs1247192163 4732 dbSNP
rs992164269 4736 dbSNP
rs111507593 4737 dbSNP
rs570415857 4742 dbSNP
rs796889579 4742 dbSNP
rs1489033472 4743 dbSNP
rs7422667 4744 dbSNP
rs1448965544 4745 dbSNP
rs1286740056 4750 dbSNP
rs1477910770 4754 dbSNP
rs1163767405 4767 dbSNP
rs570762264 4775 dbSNP
rs539694064 4782 dbSNP
rs377336770 4783 dbSNP
rs925208792 4786 dbSNP
rs1432374727 4787 dbSNP
rs943269803 4787 dbSNP
rs1039285725 4788 dbSNP
rs1297026431 4792 dbSNP
rs1417376986 4796 dbSNP
rs769815746 4796 dbSNP
rs901634827 4796 dbSNP
rs1290937608 4812 dbSNP
rs1047548073 4814 dbSNP
rs886179432 4818 dbSNP
rs1341525059 4825 dbSNP
rs1005914864 4833 dbSNP
rs1015909350 4834 dbSNP
rs1291653587 4835 dbSNP
rs574755853 4847 dbSNP
rs1487328237 4848 dbSNP
rs1282592762 4849 dbSNP
rs1002427348 4855 dbSNP
rs1311538311 4855 dbSNP
rs1233942698 4868 dbSNP
rs1034266491 4874 dbSNP
rs1216169616 4874 dbSNP
rs1397783502 4874 dbSNP
rs746744218 4874 dbSNP
rs1356758357 4875 dbSNP
rs960900600 4879 dbSNP
rs992272691 4884 dbSNP
rs1359158532 4890 dbSNP
rs147289883 4893 dbSNP
rs202028560 4898 dbSNP
rs1243566951 4899 dbSNP
rs191436295 4900 dbSNP
rs557177494 4904 dbSNP
rs1187034994 4906 dbSNP
rs1476972953 4921 dbSNP
rs1259626390 4928 dbSNP
rs1182589697 4934 dbSNP
rs1254936169 4935 dbSNP
rs1482879183 4943 dbSNP
rs183610040 4944 dbSNP
rs1450176525 4945 dbSNP
rs1254226755 4961 dbSNP
rs1206319957 4965 dbSNP
rs966741116 4967 dbSNP
rs55683506 4968 dbSNP
rs576442635 4978 dbSNP
rs1216346232 4983 dbSNP
rs925272099 4988 dbSNP
rs1312798031 4993 dbSNP
rs1394998531 4994 dbSNP
rs964988334 5006 dbSNP
rs1301565824 5014 dbSNP
rs974725002 5015 dbSNP
rs968155819 5018 dbSNP
rs1170419869 5027 dbSNP
rs1361800152 5027 dbSNP
rs1370479869 5031 dbSNP
rs980810675 5035 dbSNP
rs1254204441 5036 dbSNP
rs933170951 5040 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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

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

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 165324.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' augUAGGUUUUCUAGUGUAAc 5'
             |||::     ||||||| 
Target 5' --aAUCUGCCUACUCACAUUu 3'
 		1 - 19
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]
CLIP-seq Support 1 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000309033.4 | 3UTR | CCUACUCACAUUUCUACACUUUAUAAAAA
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 GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000309033.4 | 3UTR | AAUCUGCCUACUCACAUUUCUACACUUUAUAAAAAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
92 hsa-miR-8066 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT060588 CCND1 cyclin D1 2 2
MIRT067440 RIMKLB ribosomal modification protein rimK like family member B 2 2
MIRT078862 WBP2 WW domain binding protein 2 2 2
MIRT088062 UBXN2A UBX domain protein 2A 2 4
MIRT088214 NUP50 nucleoporin 50 2 2
MIRT103494 HOXA3 homeobox A3 2 8
MIRT135196 TMBIM6 transmembrane BAX inhibitor motif containing 6 2 4
MIRT177727 REEP3 receptor accessory protein 3 2 2
MIRT179439 TBRG1 transforming growth factor beta regulator 1 2 4
MIRT191647 SLC39A9 solute carrier family 39 member 9 2 2
MIRT192342 KLF13 Kruppel like factor 13 2 2
MIRT212035 RAPGEF2 Rap guanine nucleotide exchange factor 2 2 2
MIRT215387 CREBRF CREB3 regulatory factor 2 2
MIRT235001 IER2 immediate early response 2 2 2
MIRT238793 TPD52L1 tumor protein D52 like 1 2 2
MIRT273384 SMARCD1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 2 4
MIRT280473 UBR7 ubiquitin protein ligase E3 component n-recognin 7 (putative) 2 2
MIRT298320 SLC5A3 solute carrier family 5 member 3 2 2
MIRT309180 SPATA5 spermatogenesis associated 5 2 2
MIRT354483 LRRC58 leucine rich repeat containing 58 2 2
MIRT354710 SLC25A36 solute carrier family 25 member 36 2 2
MIRT361004 CDC5L cell division cycle 5 like 2 4
MIRT366247 VMA21 VMA21, vacuolar ATPase assembly factor 2 2
MIRT405774 EIF5 eukaryotic translation initiation factor 5 2 2
MIRT442640 TBC1D12 TBC1 domain family member 12 2 2
MIRT443928 ZNF99 zinc finger protein 99 2 2
MIRT454287 FXN frataxin 2 2
MIRT454367 ASAH2 N-acylsphingosine amidohydrolase 2 2 2
MIRT463574 ZBTB39 zinc finger and BTB domain containing 39 2 6
MIRT464484 UGCG UDP-glucose ceramide glucosyltransferase 2 2
MIRT466866 STX6 syntaxin 6 2 2
MIRT467283 SPNS1 sphingolipid transporter 1 (putative) 2 2
MIRT470298 PPTC7 PTC7 protein phosphatase homolog 2 2
MIRT471630 PAPD7 poly(A) RNA polymerase D7, non-canonical 2 2
MIRT472802 MTMR4 myotubularin related protein 4 2 4
MIRT474708 KIF3A kinesin family member 3A 2 2
MIRT478256 DDX3X DEAD-box helicase 3, X-linked 2 2
MIRT479330 CERS2 ceramide synthase 2 2 2
MIRT480658 BSCL2 BSCL2, seipin lipid droplet biogenesis associated 2 2
MIRT481954 ANKRD11 ankyrin repeat domain 11 2 2
MIRT482895 IAH1 isoamyl acetate-hydrolyzing esterase 1 homolog 2 4
MIRT493634 HIC2 HIC ZBTB transcriptional repressor 2 2 2
MIRT500847 SYPL1 synaptophysin like 1 2 4
MIRT502035 LRIG2 leucine rich repeats and immunoglobulin like domains 2 2 2
MIRT502185 IGSF3 immunoglobulin superfamily member 3 2 4
MIRT502605 DNAJB9 DnaJ heat shock protein family (Hsp40) member B9 2 10
MIRT502977 CCNL1 cyclin L1 2 8
MIRT504725 PLEKHA6 pleckstrin homology domain containing A6 2 10
MIRT504778 CLEC2D C-type lectin domain family 2 member D 2 4
MIRT505786 SATB1 SATB homeobox 1 2 4
MIRT510090 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 4
MIRT520010 YY1 YY1 transcription factor 2 4
MIRT532552 TXNL1 thioredoxin like 1 2 2
MIRT533433 TRPS1 transcriptional repressor GATA binding 1 2 2
MIRT537459 FAM84B family with sequence similarity 84 member B 2 2
MIRT541825 SV2B synaptic vesicle glycoprotein 2B 2 2
MIRT543222 TMEM117 transmembrane protein 117 2 2
MIRT551088 DDX52 DExD-box helicase 52 2 2
MIRT551500 UGT2B4 UDP glucuronosyltransferase family 2 member B4 2 2
MIRT552326 ZNF791 zinc finger protein 791 2 2
MIRT553213 TXLNG taxilin gamma 2 2
MIRT554590 RRAGC Ras related GTP binding C 2 2
MIRT559004 CA8 carbonic anhydrase 8 2 2
MIRT559134 BTG3 BTG anti-proliferation factor 3 2 4
MIRT559409 GDNF glial cell derived neurotrophic factor 2 4
MIRT560678 SRFBP1 serum response factor binding protein 1 2 2
MIRT560954 POTED POTE ankyrin domain family member D 2 2
MIRT562856 C17orf58 chromosome 17 open reading frame 58 2 2
MIRT563003 MOCS2 molybdenum cofactor synthesis 2 2 2
MIRT564545 CCDC80 coiled-coil domain containing 80 2 2
MIRT566272 PTAR1 protein prenyltransferase alpha subunit repeat containing 1 2 2
MIRT566510 PAWR pro-apoptotic WT1 regulator 2 2
MIRT572103 EFNB2 ephrin B2 2 2
MIRT574576 NLGN4X neuroligin 4, X-linked 2 4
MIRT576574 Serpine1 serine (or cysteine) peptidase inhibitor, clade E, member 1 2 2
MIRT610815 POT1 protection of telomeres 1 2 2
MIRT624589 BCL11B B-cell CLL/lymphoma 11B 2 2
MIRT627567 SMAD6 SMAD family member 6 2 2
MIRT632675 MTX3 metaxin 3 2 2
MIRT689265 WDR83OS WD repeat domain 83 opposite strand 2 2
MIRT694310 COPB2 coatomer protein complex subunit beta 2 2 2
MIRT697721 USP8 ubiquitin specific peptidase 8 2 2
MIRT700209 RFWD3 ring finger and WD repeat domain 3 2 2
MIRT704399 CTSS cathepsin S 2 2
MIRT710665 CSTF2T cleavage stimulation factor subunit 2 tau variant 2 2
MIRT711953 SLC7A14 solute carrier family 7 member 14 2 2
MIRT712596 ADCYAP1 adenylate cyclase activating polypeptide 1 2 2
MIRT712692 TNFAIP2 TNF alpha induced protein 2 2 2
MIRT714171 PPP1R2 protein phosphatase 1 regulatory inhibitor subunit 2 2 2
MIRT715964 CES4A carboxylesterase 4A 2 2
MIRT722781 PDE3A phosphodiesterase 3A 2 2
MIRT724505 MSMO1 methylsterol monooxygenase 1 2 2

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