miRTarBase - #MIRT231364


—
pre-miRNA Information
pre-miRNA hsa-mir-4699   
Genomic Coordinates chr12: 81158388 - 81158461
Description Homo sapiens miR-4699 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4699-3p
Sequence 46| AAUUUACUCUGCAAUCUUCUCC |67
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN20804631 9 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1419816940 6 dbSNP
rs919201645 9 dbSNP
rs950685323 11 dbSNP
rs985212635 14 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol EDEM3   
Synonyms C1orf22
Description ER degradation enhancing alpha-mannosidase like protein 3
Transcript NM_025191   
Expression
Putative miRNA Targets on EDEM3
3'UTR of EDEM3
(miRNA target sites are highlighted)		 
>EDEM3|NM_025191|3'UTR
   1 CTTGCTAAACAATCTGTTGGTAGGTATTTAAAAAGAAAAGGTAAACTGTGTGTGGTTAATAGACATCCTAATACTAAGCA
  81 GGCTTTCTAATGGGAGGCTTTAAGTATGGTGATGAACAACCACGTTCTGACTGGCGTAGTTATCGTAGGAATCTGGAGCA
 161 TGCTGTGTTAGAATTGACCTTGTTTAAAACTGTCCCATCAAAAATGGAAATCCACAGTTCCCCCTTCAAATGCAGCACTG
 241 CACCACCCTGCAACACCTCAGGCCAGGGAAAGATTACTGAGCATTCCTGCGAACCAGATTTCTGTTGTCTCTGGATAGAC
 321 AAGAAACAAAATTCATTTAGTAGTGGAGTGGGGAATAGGAGTTTGGATAGCCTTCTAATTAAAGGAAGCTCGCCTTTCTT
 401 GGTTTTGGGGGTTAGAGGCTCTTTTGGGAAGATGCATCCGAGTATTGTGGCATTCTGATTATGCTGCCTTCACAAAACAC
 481 TCTAAGTGACCTAAGTGGTTATGAAGCAAATGCATTTATGGTGAAAACAGTCTTTGCTCATTGCTTTCTCTTGTTTCATT
 561 TAGTGACAAATGATCAAGATGACTTGATTTTTTTTCCTTCTTAACAATGTCTTTTTTATTTAAACCAAAGGTGAAGCCAG
 641 TGTACTTTCTCAGTGAGTTCTCTGCATAAAGACTAATCAGTGGGACCAGGTAAAAAGGTCATATAATACATTGTGGAGAT
 721 TGCTTACTTAATACTTCTGAAAAATGGAGTAAGGGAGAAACTGTAATGTTGCAATATGAACCTCCCATTGGGCCTTCCAT
 801 AGGGAAAGCTGTGACTACTCTGAAATGGAACCTAGCATTATATCCTTGTAGGGTAGATTATAAATCATTTCCAGTTCATT
 881 TCTCTTAGAGGTGATTACCTCTAGCCATCAGCCTTACTCCATCCCATGTTTGGTATGCAATTTGAGCCACAAGGCTCGTA
 961 TCGCCAACAGCTATATACATTTTGTTCCATTTTTCTGTCTTACAGAGCCATGATAGAACTGTGGTTAGTGAGTTAAAATT
1041 CCTGGAGTAACTACTGTTTTTCTCCTTTGAAACTTAGGTTTCTAAAGTTGCACCTAAGGAATCTGTCACATTTTCTGTTG
1121 AATCATGGTTTTTGTTTTTGTTTTTAACAGATATTCCTTCTGATACGGACTTGAAAATTAGTGTATGGTGACCTGTGTTT
1201 AAAAAAAAAAGTACAATACAACTACATATAGCTATATAGCTTAATGAGACTTCCACCCCCCCCCTTTTTTTTTTTGGTTT
1281 GTTGTTGTTGTAGTAGTCTGGTGCTGGCCACATTTAAGTCTTAAAAATTTTTAAATTTTGTTGTTGATGTTTGTAGACAG
1361 CCCTGTTGTTGAAATCATGGCTTTATTCATTTTATTTATTTTTTAAACTTGCCTGAATTTGTTCTAAAGGAATATTTAAG
1441 AGACATAATTTTCTTCTCTTTACCATAACATTACACAAAACTTTTTCCTAAAACACGGTTGTGAGGTACTGATGAGGTGT
1521 AAGTGGAGCTGTTAAAAACAGCAGTGCTGTATTGCAGTTATGTATATTCGTGTACAGTATGTTTAGATCCCAGGTAAACA
1601 TATTCTTTTCTGAGAGGATAAATACCTGCATTCAGATATTCCAGGTAAATATAATTGAGTCAGGGAGTAGTAAATCTGAT
1681 GGAGAATTCACTTTGGGGAGGGGAAAAAGAATAGTATGCAAGACCCTTATTGGCTTTTAATTATACCTGAAACCAAAATG
1761 GATATTTTTAGTCTCTCTGCATGTGAGATTTGGTGTAACAAGATAGAACTATAATATATACAGTATATGGAAGGATAGAT
1841 ATAGTGCTTTGTTCATTTTAATTGCAAAGCTGCCAAAATAGTTGAAGCTTAATTACTTGACTTGCCTTGATTTATAGGAC
1921 TGGGGCTTGGAGAAAATGAGCAGATGTTCCTCTAAGACATCGATTACAGAAGCCTTATATACATGGATTTGATTTTGTAT
2001 TTGTAGCTGAAAGTCACTGTTGTCTAAAACTAACTTTTCTAAGTTATCAAAACAACCTAATTTCTTTTCCAACAAGGAGA
2081 ACTTAATGGCATGAAGGATTGTGTGACACATTGGAAAAGCCAGCTTACTGCCACTCTCTTCCTTTGGCCATTAGAGGGAG
2161 GTGTTGCCTTTCATTGACGCTTAGAAGCAAATTGTTCACTTGTTAAGAAAAGTAAATCCTTAAAAAAAGAAAAGGAAAAA
2241 ATTTAACCAATTTTTCTTAATACCCAGAAGGAATTATACTCAATATTTCCCTAGTTAAGAAAAGAGGAGATAATGTTCGT
2321 CTAAAAAACTCCAACGTTGTAATTACAACTCTACATTCATTTACTTACTTGACATACTGCCACAAAGTAGTTTTTGAGTT
2401 CATTAAAAATTCCAAAGGCATTAGTTGTTTTTTTTTTTTTTAGTGTTTTGTTTTTTAGTTAACTTTTATAGACATTTTAG
2481 TAACTTGCTAAAGATTCAGGGGATTCTATGAAACCCCGAATTTAGAAACATCTGGTCTACCTCAGTTAAATGTTGACTGC
2561 TTAGAAATATAGCTGAAGTGATCACCACAGCCATAAAATTGTTTAAGAAAGATTTATATAATGTTTACAAATCTGGAATC
2641 AAGGATTTTAGCTGAAATCCTTTAAGAGATATTAGAGCAAGTATTTAATTCAGGTATTTTCAAGTTTTAAAACTTAACCT
2721 GTTTACCTACTAAAAATAAAATAGCTAGTTTTTTTCTGCATATAAAAGTTCATTGAAATGATATGCCCTTATTTGCAATA
2801 CTTTTCCCATAAAGTTTTAAGTGTGAAAGAATTGTAATTTACTAGATATGTTTGGTATGGGATATTTTGTTAGGCAAGTT
2881 TTCTTTTTTCTTCTTAAATTGCAATAGGCTTCCAAAAAGAGTATAATTGTTTCAGAACAAATTAACTCTTGGCATTATAC
2961 GTCTCCCTTTTTCTTTACAGTATTAGTAAAAAGAAAAATTGTACACTTTCTGATTTTAACTTCACTAATGTAATTACTCT
3041 CTCAAGAAGCTTTTAAAATTTAAATTACCATCACACAACCTTTTTTATAGTAAAGCCAACATTTGTTCTCTCACCAAACC
3121 CCATGCCAAATTCATCATGAAGAAAGCTCAGCATAAGTAATTCAAATACTGCTTATAATTTTAGAGGGGGGTAGAATTTA
3201 GTAAATATTCCAGCCGGTCGTTTTATGCACAAGGCTTCAGTCAGAACATAGAAAAAAAAAACATTCTGTGAATGAAATAT
3281 TGTATGTTCAGATTTTATAAAAGACATTTTTAAAAGCCCAATTTACAGCCGTATATTTTCTTATGATGTAATTTATGAAA
3361 AAGATGTCTGTACTAACAGGTGCTGTAACACTACTGTTGTTGGATTTTATTGTTTGGTGATAAATGTATACAATATTTCT
3441 AAGGGAAACTATGTACTGTGATGTAAAAGTCTGGGCAAAATGTATATAATCCTGTATATAATTATGTATTTGATTATAAT
3521 TACTGATTGTAAAGATTTAATAAAATATGTAAATATTCCAGTTTAGTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3601 AAAAAAAAAA
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' ccUCUUCUAACGUC-----UCAUUUAa 5'
            |||:|:  |:||     ||||||| 
Target 5' ttAGAGGGGGGTAGAATTTAGTAAATa 3'
 3181 - 3207 156.00 -13.80
2 
miRNA  3' ccUCUUCUAAC---GUC-----UCAUUUAa 5'
            | |  ||||   |||     ||||||| 
Target 5' aaATATAATTGAGTCAGGGAGTAGTAAATc 3'
 1647 - 1676 148.00 -8.20
3 
miRNA  3' ccUCUUCUAACGUCUCAUUUAa 5'
            || | ||| || :|||||| 
Target 5' tcAG-ATATTCCA-GGTAAATa 3'
 1632 - 1651 142.00 -6.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN22171463 25 COSMIC
COSN31527166 35 COSMIC
COSN19667799 138 COSMIC
COSN30115839 145 COSMIC
COSN26832935 185 COSMIC
COSN8410511 273 COSMIC
COSN7188463 444 COSMIC
COSN31516292 569 COSMIC
COSN31486046 588 COSMIC
COSN31579483 756 COSMIC
COSN31548374 845 COSMIC
COSN31583891 958 COSMIC
COSN6431976 1016 COSMIC
COSN30164467 1064 COSMIC
COSN17037817 1125 COSMIC
COSN6431975 1134 COSMIC
COSN20773808 1201 COSMIC
COSN27451957 1201 COSMIC
COSN20095669 1255 COSMIC
COSN28987938 1265 COSMIC
COSN28989846 1265 COSMIC
COSN20090422 1276 COSMIC
COSN19036746 1343 COSMIC
COSN6431974 1555 COSMIC
COSN23607137 1605 COSMIC
COSN1417144 1805 COSMIC
COSN5359379 1839 COSMIC
COSN14512930 1965 COSMIC
COSN29838215 2124 COSMIC
COSN20095668 2427 COSMIC
COSN27205421 2428 COSMIC
COSN8637018 2489 COSMIC
COSN8410510 2515 COSMIC
COSN31522172 2544 COSMIC
COSN30369000 2607 COSMIC
COSN31547192 2839 COSMIC
COSN30352915 2954 COSMIC
COSN31543449 2973 COSMIC
COSN6431973 2992 COSMIC
COSN9052825 3074 COSMIC
COSN20095663 3081 COSMIC
COSN15693585 3148 COSMIC
COSN27412780 3252 COSMIC
COSN31547958 3266 COSMIC
COSN1417143 3333 COSMIC
COSN14997678 3334 COSMIC
COSN31519401 3446 COSMIC
COSN22703736 3474 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs766309974 1 dbSNP
rs1358114051 3 dbSNP
rs200340771 7 dbSNP
rs1283971411 14 dbSNP
rs1371571832 25 dbSNP
rs370830767 26 dbSNP
rs376810714 31 dbSNP
rs757084979 35 dbSNP
rs1158246060 36 dbSNP
rs763271830 42 dbSNP
rs1441792132 43 dbSNP
rs1279191139 45 dbSNP
rs1419467254 51 dbSNP
rs1195572878 52 dbSNP
rs1273162093 55 dbSNP
rs964574218 57 dbSNP
rs1268921136 61 dbSNP
rs1375377034 66 dbSNP
rs1174277078 73 dbSNP
rs1196230121 81 dbSNP
rs766565049 84 dbSNP
rs1167704367 89 dbSNP
rs142173999 89 dbSNP
rs1368676537 90 dbSNP
rs1426430588 96 dbSNP
rs1005803606 107 dbSNP
rs562054749 120 dbSNP
rs1303849358 123 dbSNP
rs1366914335 129 dbSNP
rs543884046 134 dbSNP
rs950386232 135 dbSNP
rs1026098466 136 dbSNP
rs115591459 138 dbSNP
rs1243595888 143 dbSNP
rs1028909810 144 dbSNP
rs185367000 145 dbSNP
rs1281030029 160 dbSNP
rs1487913810 172 dbSNP
rs1025542583 178 dbSNP
rs1212398645 191 dbSNP
rs1339504497 193 dbSNP
rs1428717258 195 dbSNP
rs1273438755 197 dbSNP
rs1187733590 211 dbSNP
rs901475917 212 dbSNP
rs1363674909 213 dbSNP
rs1052115682 215 dbSNP
rs1012518709 216 dbSNP
rs1349215438 216 dbSNP
rs1272223147 222 dbSNP
rs1446297582 225 dbSNP
rs1456496605 225 dbSNP
rs1355369635 227 dbSNP
rs1290672950 233 dbSNP
rs1385983697 245 dbSNP
rs1314089912 251 dbSNP
rs1436624070 252 dbSNP
rs1368842957 255 dbSNP
rs1295882502 261 dbSNP
rs895364862 264 dbSNP
rs1053788405 268 dbSNP
rs1247173905 270 dbSNP
rs903584278 271 dbSNP
rs1410682808 273 dbSNP
rs1043895447 274 dbSNP
rs571868792 275 dbSNP
rs1465086443 278 dbSNP
rs1421936603 279 dbSNP
rs902502305 280 dbSNP
rs1245810959 282 dbSNP
rs1462532553 283 dbSNP
rs61733290 290 dbSNP
rs933382270 291 dbSNP
rs1190044631 296 dbSNP
rs79163668 297 dbSNP
rs974952214 320 dbSNP
rs1273234846 331 dbSNP
rs943293845 332 dbSNP
rs61733289 342 dbSNP
rs1318867680 343 dbSNP
rs1308834973 345 dbSNP
rs1453906462 354 dbSNP
rs150378373 356 dbSNP
rs1377666209 357 dbSNP
rs1393598497 358 dbSNP
rs1226957234 360 dbSNP
rs1329322649 365 dbSNP
rs1227230071 369 dbSNP
rs1331928817 383 dbSNP
rs963060417 391 dbSNP
rs772459783 392 dbSNP
rs909957681 397 dbSNP
rs1349183935 399 dbSNP
rs748675580 402 dbSNP
rs985985974 406 dbSNP
rs1297627106 409 dbSNP
rs953202708 411 dbSNP
rs1356493201 412 dbSNP
rs1162997611 414 dbSNP
rs774774005 418 dbSNP
rs1157010396 424 dbSNP
rs1431772163 430 dbSNP
rs975970804 431 dbSNP
rs1175826668 432 dbSNP
rs981235482 435 dbSNP
rs1357728671 438 dbSNP
rs374501953 439 dbSNP
rs1030947606 440 dbSNP
rs1350387044 442 dbSNP
rs1408730580 459 dbSNP
rs1285859559 460 dbSNP
rs1347027874 473 dbSNP
rs1025150996 479 dbSNP
rs542018955 481 dbSNP
rs1206345007 484 dbSNP
rs554893442 491 dbSNP
rs1275329569 496 dbSNP
rs1482672462 505 dbSNP
rs1180146505 506 dbSNP
rs538448414 508 dbSNP
rs1478488439 512 dbSNP
rs769308445 513 dbSNP
rs367973172 523 dbSNP
rs1423311095 528 dbSNP
rs1177260358 531 dbSNP
rs771215265 532 dbSNP
rs6690603 538 dbSNP
rs1012417366 539 dbSNP
rs1428322835 553 dbSNP
rs1032627510 556 dbSNP
rs1305652708 560 dbSNP
rs1366818786 574 dbSNP
rs549786917 576 dbSNP
rs1220431664 577 dbSNP
rs558446169 579 dbSNP
rs902535830 587 dbSNP
rs200624554 596 dbSNP
rs939544877 596 dbSNP
rs1042757372 604 dbSNP
rs1298011446 606 dbSNP
rs1341396678 607 dbSNP
rs933433173 609 dbSNP
rs1468658501 612 dbSNP
rs1294050474 613 dbSNP
rs1422410269 618 dbSNP
rs901888957 618 dbSNP
rs1274152971 623 dbSNP
rs1452311914 630 dbSNP
rs1235548981 639 dbSNP
rs1245242367 642 dbSNP
rs1039093548 645 dbSNP
rs1189630333 649 dbSNP
rs111973211 651 dbSNP
rs1037722164 653 dbSNP
rs1307000209 657 dbSNP
rs909037700 660 dbSNP
rs1392070521 669 dbSNP
rs941366332 675 dbSNP
rs909874234 692 dbSNP
rs1347793524 696 dbSNP
rs985531309 697 dbSNP
rs1440399351 709 dbSNP
rs1320995275 710 dbSNP
rs180989028 721 dbSNP
rs929193243 725 dbSNP
rs1327598203 730 dbSNP
rs918945579 735 dbSNP
rs1363150135 736 dbSNP
rs41264580 746 dbSNP
rs11539922 753 dbSNP
rs1478123794 755 dbSNP
rs1420330730 760 dbSNP
rs140041980 763 dbSNP
rs568571411 768 dbSNP
rs1192498711 771 dbSNP
rs965897716 774 dbSNP
rs1247634023 775 dbSNP
rs1023173399 779 dbSNP
rs991226879 781 dbSNP
rs550159106 784 dbSNP
rs777454575 785 dbSNP
rs1369593700 786 dbSNP
rs967705092 787 dbSNP
rs959554159 788 dbSNP
rs1410917228 789 dbSNP
rs1032493573 797 dbSNP
rs1159532805 807 dbSNP
rs1001135166 808 dbSNP
rs967335594 809 dbSNP
rs1432682149 814 dbSNP
rs1338409619 818 dbSNP
rs1022391932 837 dbSNP
rs1485120545 850 dbSNP
rs1020961668 860 dbSNP
rs116142910 877 dbSNP
rs1282501967 882 dbSNP
rs901836142 883 dbSNP
rs894879699 891 dbSNP
rs1229066884 895 dbSNP
rs1267799667 899 dbSNP
rs1039124575 902 dbSNP
rs1007580258 904 dbSNP
rs1034759062 905 dbSNP
rs1299203785 917 dbSNP
rs887632974 921 dbSNP
rs1442364817 940 dbSNP
rs1158417230 949 dbSNP
rs1371980930 956 dbSNP
rs1235100076 957 dbSNP
rs897366297 962 dbSNP
rs1182229011 963 dbSNP
rs1410807066 965 dbSNP
rs1305978914 968 dbSNP
rs758176421 973 dbSNP
rs1174115414 975 dbSNP
rs1402558282 975 dbSNP
rs1048854267 978 dbSNP
rs1037244192 979 dbSNP
rs1332176377 982 dbSNP
rs752681314 1007 dbSNP
rs919130635 1010 dbSNP
rs1045646958 1012 dbSNP
rs1348893547 1015 dbSNP
rs1061508 1016 dbSNP
rs545268689 1028 dbSNP
rs369160536 1040 dbSNP
rs1275767468 1045 dbSNP
rs754950729 1061 dbSNP
rs957086118 1064 dbSNP
rs376498422 1078 dbSNP
rs976869833 1084 dbSNP
rs758388535 1087 dbSNP
rs1454388370 1090 dbSNP
rs540827833 1093 dbSNP
rs573358406 1096 dbSNP
rs979561857 1099 dbSNP
rs1372366699 1101 dbSNP
rs1430275265 1115 dbSNP
rs944520508 1122 dbSNP
rs1368717557 1125 dbSNP
rs555057290 1127 dbSNP
rs9425342 1134 dbSNP
rs1330720701 1138 dbSNP
rs575969104 1140 dbSNP
rs1272237823 1146 dbSNP
rs966465648 1147 dbSNP
rs1017536634 1157 dbSNP
rs1187479249 1166 dbSNP
rs1007614446 1167 dbSNP
rs915184873 1169 dbSNP
rs373462904 1177 dbSNP
rs887831125 1185 dbSNP
rs796330916 1187 dbSNP
rs1450647038 1188 dbSNP
rs1196508646 1192 dbSNP
rs959063691 1195 dbSNP
rs1210244314 1197 dbSNP
rs79467114 1198 dbSNP
rs550408929 1201 dbSNP
rs1459556501 1205 dbSNP
rs1034727965 1211 dbSNP
rs1294145771 1211 dbSNP
rs199649087 1211 dbSNP
rs540116639 1211 dbSNP
rs1282713015 1216 dbSNP
rs1322968892 1225 dbSNP
rs1226394447 1226 dbSNP
rs1326103694 1234 dbSNP
rs1228106818 1252 dbSNP
rs201955037 1255 dbSNP
rs1003247814 1257 dbSNP
rs386368973 1258 dbSNP
rs1487962259 1260 dbSNP
rs1187677467 1261 dbSNP
rs1310199241 1261 dbSNP
rs1434777517 1263 dbSNP
rs1376696440 1264 dbSNP
rs1165584170 1265 dbSNP
rs33939977 1265 dbSNP
rs386368972 1265 dbSNP
rs78829892 1265 dbSNP
rs1226862444 1266 dbSNP
rs1230912169 1266 dbSNP
rs1166212352 1268 dbSNP
rs1269687062 1269 dbSNP
rs1461115733 1270 dbSNP
rs866644649 1275 dbSNP
rs1207897660 1276 dbSNP
rs1408395261 1276 dbSNP
rs377229742 1276 dbSNP
rs1422186859 1277 dbSNP
rs371752606 1281 dbSNP
rs1413014622 1284 dbSNP
rs1456868675 1287 dbSNP
rs1157419634 1292 dbSNP
rs1370129023 1292 dbSNP
rs1430730791 1301 dbSNP
rs1377597745 1303 dbSNP
rs1412431590 1318 dbSNP
rs1289640252 1322 dbSNP
rs1350740706 1326 dbSNP
rs566422181 1327 dbSNP
rs554360815 1330 dbSNP
rs1210532036 1333 dbSNP
rs866500128 1334 dbSNP
rs531815266 1335 dbSNP
rs1046086868 1338 dbSNP
rs1207413232 1343 dbSNP
rs949977004 1344 dbSNP
rs189032475 1349 dbSNP
rs1180374475 1352 dbSNP
rs1427517318 1353 dbSNP
rs1434172507 1358 dbSNP
rs1175763476 1364 dbSNP
rs1357962046 1367 dbSNP
rs1194155432 1380 dbSNP
rs1432102914 1389 dbSNP
rs568533362 1403 dbSNP
rs1252176351 1421 dbSNP
rs550271060 1423 dbSNP
rs77813683 1424 dbSNP
rs766449092 1440 dbSNP
rs1292472550 1441 dbSNP
rs925652833 1444 dbSNP
rs570811935 1445 dbSNP
rs1357298433 1446 dbSNP
rs1345659957 1456 dbSNP
rs977191475 1464 dbSNP
rs1275258354 1470 dbSNP
rs1482804046 1473 dbSNP
rs1202503748 1478 dbSNP
rs750609360 1482 dbSNP
rs1005781182 1484 dbSNP
rs1191007264 1491 dbSNP
rs377008401 1496 dbSNP
rs1451711567 1497 dbSNP
rs1396760366 1505 dbSNP
rs888679036 1509 dbSNP
rs778250485 1515 dbSNP
rs143059627 1517 dbSNP
rs1436681156 1518 dbSNP
rs901213957 1519 dbSNP
rs966241117 1525 dbSNP
rs1368600037 1539 dbSNP
rs1041112253 1549 dbSNP
rs1298305508 1551 dbSNP
rs6663178 1555 dbSNP
rs879248412 1558 dbSNP
rs1212918674 1565 dbSNP
rs986056956 1569 dbSNP
rs1322555772 1570 dbSNP
rs1475781388 1573 dbSNP
rs923773760 1580 dbSNP
rs1466566400 1581 dbSNP
rs1420667458 1585 dbSNP
rs952045797 1587 dbSNP
rs559228752 1598 dbSNP
rs1165662288 1600 dbSNP
rs183721016 1601 dbSNP
rs946599674 1604 dbSNP
rs915133173 1610 dbSNP
rs897674876 1611 dbSNP
rs1197724389 1616 dbSNP
rs990735021 1626 dbSNP
rs1467338006 1628 dbSNP
rs1320937972 1630 dbSNP
rs958989036 1635 dbSNP
rs1428487484 1636 dbSNP
rs1272243888 1645 dbSNP
rs1285875027 1651 dbSNP
rs1233691917 1658 dbSNP
rs567897577 1661 dbSNP
rs1024116414 1665 dbSNP
rs981799757 1666 dbSNP
rs961441051 1679 dbSNP
rs1277769886 1683 dbSNP
rs549302687 1684 dbSNP
rs1014599823 1691 dbSNP
rs1445781607 1693 dbSNP
rs540791218 1700 dbSNP
rs1335879962 1702 dbSNP
rs894362400 1710 dbSNP
rs140884812 1713 dbSNP
rs1238544325 1725 dbSNP
rs146470916 1743 dbSNP
rs1472869517 1750 dbSNP
rs1384675936 1757 dbSNP
rs1415259281 1763 dbSNP
rs935691055 1773 dbSNP
rs1159653263 1777 dbSNP
rs879207195 1781 dbSNP
rs904177223 1792 dbSNP
rs1041882261 1793 dbSNP
rs1336140609 1807 dbSNP
rs1359636740 1809 dbSNP
rs1325580681 1811 dbSNP
rs1462345698 1814 dbSNP
rs945793154 1821 dbSNP
rs1352576248 1822 dbSNP
rs543487840 1823 dbSNP
rs914070673 1833 dbSNP
rs1028992110 1835 dbSNP
rs565506995 1841 dbSNP
rs1470094717 1842 dbSNP
rs543667927 1846 dbSNP
rs576095914 1856 dbSNP
rs1041084962 1862 dbSNP
rs564105628 1869 dbSNP
rs1280002636 1873 dbSNP
rs1442312702 1886 dbSNP
rs998880205 1889 dbSNP
rs903252661 1890 dbSNP
rs111322721 1893 dbSNP
rs191876456 1895 dbSNP
rs1362837108 1896 dbSNP
rs796913044 1901 dbSNP
rs986339956 1904 dbSNP
rs952073609 1906 dbSNP
rs1402848567 1910 dbSNP
rs915080336 1916 dbSNP
rs554522237 1932 dbSNP
rs563161130 1939 dbSNP
rs536031244 1940 dbSNP
rs1054931504 1946 dbSNP
rs972574649 1959 dbSNP
rs962123505 1961 dbSNP
rs1024566739 1962 dbSNP
rs1014048808 1968 dbSNP
rs1275765008 1972 dbSNP
rs1469679799 1973 dbSNP
rs1232661137 1977 dbSNP
rs1277376110 1977 dbSNP
rs1483777159 1978 dbSNP
rs1282036048 1982 dbSNP
rs187170549 1991 dbSNP
rs763421736 2000 dbSNP
rs1435664996 2036 dbSNP
rs1200750959 2039 dbSNP
rs1377920066 2041 dbSNP
rs532013259 2052 dbSNP
rs1171753203 2053 dbSNP
rs1000096989 2059 dbSNP
rs904208222 2064 dbSNP
rs1430532864 2072 dbSNP
rs1041355300 2091 dbSNP
rs945796293 2104 dbSNP
rs868438268 2110 dbSNP
rs1041191339 2111 dbSNP
rs556516699 2112 dbSNP
rs1439126414 2123 dbSNP
rs1300492330 2126 dbSNP
rs1442073281 2138 dbSNP
rs776057129 2140 dbSNP
rs184693429 2154 dbSNP
rs570906898 2156 dbSNP
rs986367878 2159 dbSNP
rs1211336287 2171 dbSNP
rs1456425665 2173 dbSNP
rs112612723 2178 dbSNP
rs920602734 2179 dbSNP
rs1249855561 2187 dbSNP
rs1449955202 2190 dbSNP
rs527823494 2201 dbSNP
rs1169847186 2212 dbSNP
rs115054609 2230 dbSNP
rs1022087738 2240 dbSNP
rs917379100 2242 dbSNP
rs746676600 2243 dbSNP
rs1455761155 2244 dbSNP
rs565608901 2249 dbSNP
rs1240099197 2256 dbSNP
rs992904234 2263 dbSNP
rs1447451939 2273 dbSNP
rs1322908307 2276 dbSNP
rs1286327329 2277 dbSNP
rs958552501 2283 dbSNP
rs1382087478 2291 dbSNP
rs1294054207 2298 dbSNP
rs1208093464 2318 dbSNP
rs116911269 2319 dbSNP
rs1000126681 2322 dbSNP
rs968631051 2323 dbSNP
rs1333656442 2328 dbSNP
rs1211614742 2329 dbSNP
rs937871936 2335 dbSNP
rs1020375638 2336 dbSNP
rs1259562546 2341 dbSNP
rs999614365 2342 dbSNP
rs1268732060 2349 dbSNP
rs1188281937 2355 dbSNP
rs939680135 2368 dbSNP
rs1430541006 2372 dbSNP
rs1474314182 2374 dbSNP
rs908206148 2380 dbSNP
rs560548037 2387 dbSNP
rs1453482239 2403 dbSNP
rs1300634417 2406 dbSNP
rs1412987597 2409 dbSNP
rs900827632 2417 dbSNP
rs561910683 2418 dbSNP
rs1404941567 2420 dbSNP
rs1397303610 2423 dbSNP
rs1374873612 2424 dbSNP
rs1040831385 2425 dbSNP
rs1354445169 2427 dbSNP
rs201976406 2427 dbSNP
rs549756225 2430 dbSNP
rs1317361216 2433 dbSNP
rs1006575547 2435 dbSNP
rs921038182 2441 dbSNP
rs1184682937 2442 dbSNP
rs558088632 2442 dbSNP
rs559244984 2442 dbSNP
rs1243754297 2443 dbSNP
rs975565451 2444 dbSNP
rs1485322353 2445 dbSNP
rs370934212 2446 dbSNP
rs1379905374 2450 dbSNP
rs1466954137 2455 dbSNP
rs777413396 2455 dbSNP
rs1374394155 2456 dbSNP
rs1412374890 2457 dbSNP
rs1212424209 2464 dbSNP
rs1305393023 2468 dbSNP
rs1236849128 2472 dbSNP
rs561568881 2475 dbSNP
rs1373554110 2476 dbSNP
rs1223019717 2478 dbSNP
rs1214322168 2489 dbSNP
rs1304522313 2498 dbSNP
rs1313883801 2500 dbSNP
rs1235013218 2502 dbSNP
rs1443069534 2507 dbSNP
rs115416261 2518 dbSNP
rs1207342438 2529 dbSNP
rs1280513344 2532 dbSNP
rs1233699826 2540 dbSNP
rs930904380 2562 dbSNP
rs920816674 2570 dbSNP
rs1355385519 2578 dbSNP
rs1434117506 2586 dbSNP
rs1173629113 2596 dbSNP
rs1021638688 2616 dbSNP
rs1037017960 2618 dbSNP
rs1012049023 2628 dbSNP
rs1354763942 2641 dbSNP
rs200354954 2644 dbSNP
rs1296087378 2645 dbSNP
rs1369534855 2652 dbSNP
rs1352973921 2653 dbSNP
rs1034427494 2655 dbSNP
rs1328480788 2658 dbSNP
rs375973399 2660 dbSNP
rs1001986340 2662 dbSNP
rs1345594098 2668 dbSNP
rs778844275 2669 dbSNP
rs940734528 2691 dbSNP
rs564036161 2694 dbSNP
rs939961923 2703 dbSNP
rs1474807463 2704 dbSNP
rs538337121 2710 dbSNP
rs886747500 2713 dbSNP
rs1248662087 2719 dbSNP
rs1418566422 2721 dbSNP
rs917221638 2729 dbSNP
rs992932176 2736 dbSNP
rs1479396735 2740 dbSNP
rs1451813189 2742 dbSNP
rs768993514 2744 dbSNP
rs545750889 2748 dbSNP
rs1048040513 2755 dbSNP
rs931000966 2756 dbSNP
rs1351227722 2786 dbSNP
rs559925479 2798 dbSNP
rs1324916613 2805 dbSNP
rs1368716870 2814 dbSNP
rs1437107584 2835 dbSNP
rs74812103 2846 dbSNP
rs1361436165 2863 dbSNP
rs968956938 2866 dbSNP
rs1292344863 2874 dbSNP
rs1334751773 2880 dbSNP
rs944146012 2901 dbSNP
rs912740546 2902 dbSNP
rs1020235588 2904 dbSNP
rs978046436 2909 dbSNP
rs967672384 2915 dbSNP
rs1010558441 2916 dbSNP
rs1242022062 2920 dbSNP
rs990156153 2922 dbSNP
rs965094833 2924 dbSNP
rs958735706 2928 dbSNP
rs1034396246 2935 dbSNP
rs75776638 2937 dbSNP
rs1019213909 2952 dbSNP
rs539930661 2960 dbSNP
rs889497653 2961 dbSNP
rs1050556136 2962 dbSNP
rs995055345 2978 dbSNP
rs542527956 2981 dbSNP
rs1232972873 2987 dbSNP
rs1004514311 2988 dbSNP
rs1046239 2992 dbSNP
rs768030533 2993 dbSNP
rs940917863 2995 dbSNP
rs1213052671 3000 dbSNP
rs1258923939 3003 dbSNP
rs1485711161 3005 dbSNP
rs917271708 3008 dbSNP
rs1406553471 3012 dbSNP
rs1186856516 3016 dbSNP
rs1048824785 3018 dbSNP
rs1441091892 3025 dbSNP
rs1471064577 3031 dbSNP
rs1158893613 3033 dbSNP
rs1250813441 3049 dbSNP
rs1057122112 3050 dbSNP
rs1398808921 3065 dbSNP
rs1212205982 3066 dbSNP
rs1314638376 3070 dbSNP
rs1376200426 3075 dbSNP
rs556668537 3077 dbSNP
rs1414220239 3079 dbSNP
rs199859401 3081 dbSNP
rs11358304 3087 dbSNP
rs796445645 3087 dbSNP
rs899501953 3090 dbSNP
rs1039435633 3105 dbSNP
rs937412310 3110 dbSNP
rs943779527 3123 dbSNP
rs1224378898 3136 dbSNP
rs1349167516 3144 dbSNP
rs912710819 3147 dbSNP
rs1041869635 3148 dbSNP
rs927403708 3153 dbSNP
rs1348041877 3159 dbSNP
rs1209492679 3160 dbSNP
rs1255003772 3163 dbSNP
rs1439147936 3171 dbSNP
rs1182258683 3179 dbSNP
rs1232153540 3187 dbSNP
rs1468394572 3188 dbSNP
rs538099015 3191 dbSNP
rs1395577175 3192 dbSNP
rs1434216447 3194 dbSNP
rs947271175 3204 dbSNP
rs1171790311 3208 dbSNP
rs1398925055 3210 dbSNP
rs1283579284 3211 dbSNP
rs990849157 3213 dbSNP
rs780020267 3215 dbSNP
rs1443538918 3216 dbSNP
rs913040319 3219 dbSNP
rs577254853 3220 dbSNP
rs1301578731 3224 dbSNP
rs965644043 3225 dbSNP
rs1277482892 3233 dbSNP
rs545443740 3238 dbSNP
rs1340851558 3239 dbSNP
rs1439868586 3242 dbSNP
rs1371403862 3244 dbSNP
rs1295096528 3247 dbSNP
rs1271821538 3248 dbSNP
rs1451448229 3249 dbSNP
rs1344546152 3251 dbSNP
rs558815009 3252 dbSNP
rs143180631 3262 dbSNP
rs981463666 3262 dbSNP
rs1421059456 3263 dbSNP
rs534050827 3268 dbSNP
rs1462556420 3282 dbSNP
rs1167596713 3284 dbSNP
rs1394573329 3297 dbSNP
rs1392842517 3299 dbSNP
rs1192674512 3301 dbSNP
rs1019244981 3326 dbSNP
rs1326945529 3330 dbSNP
rs985052021 3331 dbSNP
rs953710537 3347 dbSNP
rs1298374845 3348 dbSNP
rs386467720 3351 dbSNP
rs1193301590 3363 dbSNP
rs1227493975 3364 dbSNP
rs951329892 3368 dbSNP
rs1336999262 3378 dbSNP
rs1215340746 3385 dbSNP
rs1273518654 3430 dbSNP
rs1485172106 3433 dbSNP
rs189080307 3437 dbSNP
rs1263724758 3440 dbSNP
rs34861932 3446 dbSNP
rs1026863035 3448 dbSNP
rs1217395524 3449 dbSNP
rs1192497314 3451 dbSNP
rs535318698 3452 dbSNP
rs759915488 3456 dbSNP
rs995429408 3456 dbSNP
rs1278318620 3458 dbSNP
rs995650153 3461 dbSNP
rs1394297316 3463 dbSNP
rs1348870123 3476 dbSNP
rs1291198833 3481 dbSNP
rs141355690 3491 dbSNP
rs1380369877 3494 dbSNP
rs1316938872 3495 dbSNP
rs1015479440 3496 dbSNP
rs767837230 3498 dbSNP
rs1039405119 3504 dbSNP
rs549938679 3505 dbSNP
rs1373045389 3512 dbSNP
rs531439913 3524 dbSNP
rs183755615 3534 dbSNP
rs1007919201 3538 dbSNP
rs1172482060 3548 dbSNP
rs1242308843 3558 dbSNP
rs1057392985 3569 dbSNP
rs1486129482 3571 dbSNP
rs1204631819 3576 dbSNP
rs191101127 3585 dbSNP
rs937361762 3595 dbSNP
rs1041893693 3596 dbSNP
rs116876471 3597 dbSNP
rs1178685600 3599 dbSNP
rs1043189974 3600 dbSNP
rs1188974527 3608 dbSNP
rs1427152798 3611 dbSNP
rs774492778 3613 dbSNP
rs1161686511 3615 dbSNP
rs1364884617 3622 dbSNP
rs1453606164 3627 dbSNP
rs1287618853 3630 dbSNP
rs1261616067 3633 dbSNP
rs947434038 3636 dbSNP
rs200495744 3641 dbSNP
rs34183118 3642 dbSNP
rs946235595 3651 dbSNP
rs1283764850 3652 dbSNP
rs1308790276 3652 dbSNP
rs71555442 3652 dbSNP
rs913076350 3653 dbSNP
rs771815256 3655 dbSNP
rs989015614 3657 dbSNP
rs943970425 3659 dbSNP
rs1255405543 3663 dbSNP
rs1179334652 3666 dbSNP
rs912518545 3669 dbSNP
rs145382537 3670 dbSNP
rs1054680327 3688 dbSNP
rs36081726 3688 dbSNP
rs953742551 3691 dbSNP
rs1436066558 3699 dbSNP
rs1026589954 3701 dbSNP
rs1173669895 3708 dbSNP
rs541847755 3713 dbSNP
rs1040550876 3714 dbSNP
rs1299507571 3719 dbSNP
rs961384253 3723 dbSNP
rs762017033 3737 dbSNP
rs530415355 3740 dbSNP
rs1373046085 3754 dbSNP
rs1235123477 3765 dbSNP
rs751958649 3768 dbSNP
rs563076370 3769 dbSNP
rs1296054974 3782 dbSNP
rs895981479 3783 dbSNP
rs1220347456 3788 dbSNP
rs1353497978 3795 dbSNP
rs115789515 3799 dbSNP
rs1177106058 3802 dbSNP
rs1255474251 3805 dbSNP
rs983945095 3808 dbSNP
rs150067700 3810 dbSNP
rs1027244543 3816 dbSNP
rs1412237540 3818 dbSNP
rs1403867970 3820 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 GSM545215. RNA binding protein: AGO4. Condition:Control ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ccucuUCUAACGUCUCAU-UUAa 5'
               |||  | :|:||| ||| 
Target 5' --uuuAGA--GGGGGGUAGAAUu 3'
 		1 - 19
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 hESCs (WA-09)
Disease 80267.0
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' ccucuUCUAACGUCUCAU-UUAa 5'
               |||  | :|:||| ||| 
Target 5' -uuuuAGA--GGGGGGUAGAAUu 3'
 		1 - 20
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]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 80267.0
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 ...

- 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 ERX177619. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_9 PAR-CLIP data was present in ERX177632. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_4_10 PAR-CLIP data was present in ERX177608. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_2_10 PAR-CLIP data was present in ERX177611. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_1 PAR-CLIP data was present in ERX177615. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_5 PAR-CLIP data was present in ERX177620. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_3_10 PAR-CLIP data was present in ERX177599. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_1 PAR-CLIP data was present in ERX177603. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_5 PAR-CLIP data was present in ERX177623. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_1 PAR-CLIP data was present in ERX177627. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_5 ...

- 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]
Experimental Support 5 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions Prostate Tissue
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 SRX1760639. RNA binding protein: AGO2. Condition:AGO-CLIP-LNCaP-MDV_A PAR-CLIP data was present in SRX1760641. RNA binding protein: AGO2. Condition:AGO-CLIP-LNCaP-MDV_B PAR-CLIP data was present in SRX1760583. RNA binding protein: AGO2. Condition:AGO-CLIP-LNCaP_A ...

- Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al., 2016, Neoplasia (New York, N.Y.).

Article - Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al.
- Neoplasia (New York, N.Y.), 2016
MicroRNA (miRNA) deregulation in prostate cancer (PCa) contributes to PCa initiation and metastatic progression. To comprehensively define the cancer-associated changes in miRNA targeting and function in commonly studied models of PCa, we performed photoactivatable ribonucleoside-enhanced cross-linking immunoprecipitation of the Argonaute protein in a panel of PCa cell lines modeling different stages of PCa progression. Using this comprehensive catalogue of miRNA targets, we analyzed miRNA targeting on known drivers of PCa and examined tissue-specific and stage-specific pathway targeting by miRNAs. We found that androgen receptor is the most frequently targeted PCa oncogene and that miR-148a targets the largest number of known PCa drivers. Globally, tissue-specific and stage-specific changes in miRNA targeting are driven by homeostatic response to active oncogenic pathways. Our findings indicate that, even in advanced PCa, the miRNA pool adapts to regulate continuing alterations in the cancer genome to balance oncogenic molecular changes. These findings are important because they are the first to globally characterize miRNA changes in PCa and demonstrate how the miRNA target spectrum responds to staged tumorigenesis.
LinkOut: [PMID: 27292025]
CLIP-seq Support 1 for dataset GSM4903825
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID14_NS
Location of target site NM_025191 | 3UTR | AUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903826
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID21_NS
Location of target site NM_025191 | 3UTR | AUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_025191 | 3UTR | UGUAUUGCAGUUAUGUAUAUUCGUGUACAGUAUGUUUAGAUCCCAGGUAAACAUAUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_025191 | 3UTR | UCUCACCAAACCCCAUGCCAAAUUCAUCAUGAAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_025191 | 3UTR | GUACAGUAUGUUUAGAUCCCAGGUAAACAUAUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_025191 | 3UTR | AAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_025191 | 3UTR | UUCGUGUACAGUAUGUUUAGAUCCCAGGUAAACAUAUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_025191 | 3UTR | CACCAAACCCCAUGCCAAAUUCAUCAUGAAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_025191 | 3UTR | AUGUUUAGAUCCCAGGUAAACAUAUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_025191 | 3UTR | CCAAACCCCAUGCCAAAUUCAUCAUGAAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 11 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_025191 | 3UTR | CUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 12 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_025191 | 3UTR | ACCCCAUGCCAAAUUCAUCAUGAAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 13 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_025191 | 3UTR | UUCGUGUACAGUAUGUUUAGAUCCCAGGUAAACAUAUUCUUUUCUGAGAGGAUAAAUACCUGCAUUCAGAUAUUCCAGGUAAAUAUAAUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 14 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_025191 | 3UTR | CAUGCCAAAUUCAUCAUGAAGAAAGCUCAGCAUAAGUAAUUCAAAUACUGCUUAUAAUUUUAGAGGGGGGUAGAAUUUAGUAAAUAUUCCAGCCGGUCGUUUUAUGCACAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 15 for dataset GSM545215
Method / RBP PAR-CLIP / AGO4
Cell line / Condition HEK293 / Control
Location of target site ENST00000318130.8 | 3UTR | UUUAGAGGGGGGUAGAAUUUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 16 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000318130.8 | 3UTR | UUUUAGAGGGGGGUAGAAUUUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
CLIP-seq Viewer Link
CLIP-seq Support 17 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000318130.8 | 3UTR | AUUUUAGAGGGGGGUAGAAUUUA
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
88 hsa-miR-4699-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT056239 RAB18 RAB18, member RAS oncogene family 2 2
MIRT080536 PMAIP1 phorbol-12-myristate-13-acetate-induced protein 1 2 2
MIRT095600 NR3C1 nuclear receptor subfamily 3 group C member 1 2 2
MIRT128911 KMT2A lysine methyltransferase 2A 2 2
MIRT161904 FXR1 FMR1 autosomal homolog 1 2 4
MIRT177614 UBE2D1 ubiquitin conjugating enzyme E2 D1 2 4
MIRT231364 EDEM3 ER degradation enhancing alpha-mannosidase like protein 3 2 6
MIRT285164 SERBP1 SERPINE1 mRNA binding protein 1 2 2
MIRT307337 SEC22C SEC22 homolog C, vesicle trafficking protein 2 2
MIRT317083 DEK DEK proto-oncogene 2 2
MIRT347692 LSM14A LSM14A, mRNA processing body assembly factor 2 2
MIRT358438 STC2 stanniocalcin 2 2 2
MIRT362592 PURB purine rich element binding protein B 2 4
MIRT441441 HAVCR1 hepatitis A virus cellular receptor 1 2 2
MIRT445264 LOH12CR2 loss of heterozygosity, 12, chromosomal region 2 (non-protein coding) 2 4
MIRT447097 SNRPD1 small nuclear ribonucleoprotein D1 polypeptide 2 2
MIRT449013 ANKRD17 ankyrin repeat domain 17 2 2
MIRT450358 SETD9 SET domain containing 9 2 2
MIRT454976 MYC MYC proto-oncogene, bHLH transcription factor 2 2
MIRT461922 NECAB3 N-terminal EF-hand calcium binding protein 3 2 2
MIRT465191 TRPS1 transcriptional repressor GATA binding 1 2 2
MIRT467685 SLC38A2 solute carrier family 38 member 2 2 4
MIRT468003 SKI SKI proto-oncogene 2 2
MIRT473127 MLLT10 MLLT10, histone lysine methyltransferase DOT1L cofactor 2 2
MIRT476370 GIGYF1 GRB10 interacting GYF protein 1 2 2
MIRT477067 FAM208B family with sequence similarity 208 member B 2 4
MIRT479950 CBX4 chromobox 4 2 4
MIRT481092 B3GNT2 UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 2 2 2
MIRT481932 ANKRD11 ankyrin repeat domain 11 2 12
MIRT482239 AHCY adenosylhomocysteinase 2 2
MIRT485804 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT492026 TWF1 twinfilin actin binding protein 1 2 2
MIRT494389 CALM3 calmodulin 3 2 2
MIRT504115 GPR158 G protein-coupled receptor 158 2 2
MIRT506346 NUP54 nucleoporin 54 2 4
MIRT510081 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 4
MIRT521019 SLC8A1 solute carrier family 8 member A1 2 2
MIRT524709 BTBD3 BTB domain containing 3 2 2
MIRT524989 AGO2 argonaute 2, RISC catalytic component 2 6
MIRT525003 ACVR1B activin A receptor type 1B 2 2
MIRT528064 OLAH oleoyl-ACP hydrolase 2 2
MIRT528865 C1orf147 chromosome 1 open reading frame 147 2 2
MIRT532182 DOCK7 dedicator of cytokinesis 7 2 2
MIRT533592 TOB1 transducer of ERBB2, 1 2 6
MIRT538835 C16orf70 chromosome 16 open reading frame 70 2 2
MIRT539488 ACVR1C activin A receptor type 1C 2 2
MIRT539542 ABCD2 ATP binding cassette subfamily D member 2 2 2
MIRT542123 VENTX VENT homeobox 2 2
MIRT542993 ELOVL5 ELOVL fatty acid elongase 5 2 2
MIRT543067 ATXN7L3B ataxin 7 like 3B 2 2
MIRT543370 CYB5B cytochrome b5 type B 2 2
MIRT545080 TSEN34 tRNA splicing endonuclease subunit 34 2 2
MIRT545258 TRIM36 tripartite motif containing 36 2 4
MIRT549144 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT549403 AKAP1 A-kinase anchoring protein 1 2 2
MIRT552143 MRPL34 mitochondrial ribosomal protein L34 2 2
MIRT554781 RHEBP1 RHEB pseudogene 1 2 4
MIRT555991 NFYB nuclear transcription factor Y subunit beta 2 2
MIRT556425 LONRF3 LON peptidase N-terminal domain and ring finger 3 2 2
MIRT558325 DNAJC28 DnaJ heat shock protein family (Hsp40) member C28 2 4
MIRT561357 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 2
MIRT562240 HMGB1 high mobility group box 1 2 2
MIRT562269 GOLT1B golgi transport 1B 2 2
MIRT564020 FAM103A1 family with sequence similarity 103 member A1 2 2
MIRT564832 ZBTB16 zinc finger and BTB domain containing 16 2 2
MIRT565350 TMED2 transmembrane p24 trafficking protein 2 2 2
MIRT565678 SET SET nuclear proto-oncogene 2 2
MIRT576547 Txlna taxilin alpha 2 2
MIRT609358 ZNF664 zinc finger protein 664 2 2
MIRT610646 CTGF connective tissue growth factor 2 2
MIRT624681 ARAP2 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2 2 2
MIRT637118 AGTPBP1 ATP/GTP binding protein 1 2 2
MIRT639955 PRRC2B proline rich coiled-coil 2B 2 2
MIRT644051 WWC2 WW and C2 domain containing 2 2 2
MIRT650463 SLC35B1 solute carrier family 35 member B1 2 2
MIRT651094 ZNF516 zinc finger protein 516 2 2
MIRT655268 PER2 period circadian clock 2 2 2
MIRT657450 HEYL hes related family bHLH transcription factor with YRPW motif-like 2 2
MIRT692248 POLR3F RNA polymerase III subunit F 2 2
MIRT695239 PBK PDZ binding kinase 2 2
MIRT696024 NDUFS3 NADH:ubiquinone oxidoreductase core subunit S3 2 2
MIRT698486 TIAL1 TIA1 cytotoxic granule associated RNA binding protein like 1 2 2
MIRT700581 PRSS22 protease, serine 22 2 2
MIRT704540 CNEP1R1 CTD nuclear envelope phosphatase 1 regulatory subunit 1 2 2
MIRT704723 CEP135 centrosomal protein 135 2 2
MIRT705194 BTG1 BTG anti-proliferation factor 1 2 2
MIRT710286 CSNK1G3 casein kinase 1 gamma 3 2 2
MIRT719623 TUBGCP3 tubulin gamma complex associated protein 3 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4699 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-4699-3p Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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