pre-miRNA Information
pre-miRNA hsa-mir-4486   
Genomic Coordinates chr11: 19575310 - 19575372
Description Homo sapiens miR-4486 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4486
Sequence 5| GCUGGGCGAGGCUGGCA |21
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs774299284 8 dbSNP
rs902172817 14 dbSNP
rs1222795726 17 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol KIAA0754   
Synonyms -
Description KIAA0754
Transcript NM_015038   
Expression
Putative miRNA Targets on KIAA0754
3'UTR of KIAA0754
(miRNA target sites are highlighted)
>KIAA0754|NM_015038|3'UTR
   1 TGAGAAATGGCACAGATAGTTCTTTTGTTCTTTTTGGGTCTCCCGGGCTTATAGTTTGTAGTCTTTCTGTTCAGTTTTTG
  81 GGGAAAATATACTTTAATTTTGTCTGGTGAAAGACTTTATAATTTCATGCTTCGTTTTTTATTCAGATAAGCCAATCCCA
 161 CGGAAAACAGGGATATAAACAGTTGTTGATTTACATTTTTAAAAAGATTATTAGCAGGAAAGGGTCATTCTGTTTTTGAA
 241 TTATACAGTGAGCATGTTCTTGCCTAAACCAAGAGACAGTTTATTCATTGGTGGTGTCAACATTTAGGTAGAGGCCAGAG
 321 TGTGAGCTTTGGAATGAGACCTGGGGTGCTTCCTAACCACTCTGGGAAAATTAGTTAGCTATTCTTGAGTTTCCTGTTTC
 401 TTCATTTGTTAAGGCATAACTCTGTGAGGATAAAATGAGATACATTTAAGGTACCAAGCGTATAAGATTACCAATCACTG
 481 GCCATATCCTCCCCATTCTTTTCAAATAGGTATGTTGGTTGGTTGAAAGAATTTACCAAAGTAGATTGGAGAGAAGCAAT
 561 AAAGCTAAATGATTAAGAACTTTTAAATGCAAATATGTGTTTCTGAAAACCAGAGCTAGGCATAATGTTTATGAAAAATA
 641 GAGATATTTTAGTCATCTTTGTCAAACTGCCTTTGTGTCCTTAAGCAAGTCATTTTCCTTTCCAGGACCTCATTTCTTCA
 721 TTATAAAACAAGAAAATTGGGCTAAATGTCCTCTTGGGTCTCTCTTGGCTCTAAGATTCTTTTTATTTTTTTTTTTTAGA
 801 TGGAGTCTGGCTCTGTCAGTCAGGCTGGAGTGCTAGAGTGCAGTGGTGCGATCTCAGCTCACTGCAAGCTCCACCTCCCG
 881 GGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACTACGCCCGGCAATTTTTTGT
 961 ATATATATATATATAATTTTTTTTTTTTTTTTTTAGTAGAGACGGGTTTCACTGTGTTAGCCAGGATGGTCTCAATCTCC
1041 TGACCTCATGATCTGCCCGCCTCGGCCTCCCAGAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCCGGCTCTAAG
1121 ATTCTTAATGTTAGAGAACCGAATGTGTTAGGAAACAGTTGGAAACGATGTTCCACATCCTTGAGCACTCCTAGTCCAAG
1201 GAATTTGAGATCAGCAGCTTTCCACAGTTAATTACCCAGGTTTGATTTGGTCAGTGGTAAAGAGTGCAGGAGTTAGAGGT
1281 TTAATCTGAACACAAGAGATGACTGAGTGAGAAGATTGTTTTGATTTTACTGCGCCCCTAGGACTCAAAATAGTGCCTTC
1361 TTCATAGCAGGCATTTGCTGTTGACTGACTGACTGAATGCATGAATATCAATTTCCTAGACTATGGATGGATGCTACAAG
1441 AAAGATGGGTTTTCTCATTCACCTCACTGCAGAGCCTTTCAGGGCAGCCTTAAGTCAGCTAGAGCACCAGCTAAACATGC
1521 AGGTCCTGACAACAAAATCATTTTGATTGCATGCCATAAACTCTTTGATTAAGAGGATTGATTAAGATAATCTGGCCTTG
1601 CTGAGTGGTGGTGGTTTTACCTTGAGCTTTACCAGTTATTTTGTCAGGTAGCATTCCATTAAATTAGGATGCATCATCTT
1681 TGAGACTGATGGATTTTTGATTCATTTTTCCGAGTTTTATTGAATTTGGAATGACACCGAGATCCCAATAGCCTGTACAA
1761 AGTGAAGACAGTAGGTCAACAACAGAGCCATTCTTGATAATACAGAATATTTCACACCAGGCACAGTGGCTCACACCTCT
1841 AATCCCAACATTTGGGAAGCCAAGGGAAGAGGATTGCTTGAGGCCAGGAGTTCGAGAACAGCCTAGGCAACATAGTAAGA
1921 CCCCATCTCTGAG
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' acGGUCGGAGCGGGUCg 5'
            ||| || ||||||| 
Target 5' agCCA-CCGCGCCCAGc 3'
1095 - 1110 154.00 -26.10
2
miRNA  3' acGGUCGGAGCGGGUCg 5'
            ||| |: |||||:| 
Target 5' cgCCA-CTACGCCCGGc 3'
935 - 950 134.00 -21.90
3
miRNA  3' acGGUCGGA----GCGGGUCg 5'
            || ||||    | ||||| 
Target 5' tgCCCGCCTCGGCCTCCCAGa 3'
1054 - 1074 121.00 -24.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN4892484 17 COSMIC
COSN30186262 45 COSMIC
COSN30145342 46 COSMIC
COSN30471963 73 COSMIC
COSN31592918 81 COSMIC
COSN30498703 97 COSMIC
COSN19700329 99 COSMIC
COSN31516294 110 COSMIC
COSN30142183 125 COSMIC
COSN22185162 216 COSMIC
COSN8469115 274 COSMIC
COSN2454367 299 COSMIC
COSN30122079 317 COSMIC
COSN31556531 351 COSMIC
COSN31530436 385 COSMIC
COSN26551024 430 COSMIC
COSN26639650 452 COSMIC
COSN8469116 463 COSMIC
COSN15624806 497 COSMIC
COSN31564834 534 COSMIC
COSN30530122 535 COSMIC
COSN26549840 538 COSMIC
COSN25901781 591 COSMIC
COSN17911079 598 COSMIC
COSN31517713 602 COSMIC
COSN30141814 699 COSMIC
COSN31540067 765 COSMIC
COSN30118021 775 COSMIC
COSN15624807 786 COSMIC
COSN26505638 786 COSMIC
COSN15398747 792 COSMIC
COSN19658544 798 COSMIC
COSN147085 882 COSMIC
COSN19604816 978 COSMIC
COSN28757920 1054 COSMIC
COSN30110787 1102 COSMIC
COSN26580507 1109 COSMIC
COSN31550906 1195 COSMIC
COSN28781795 1248 COSMIC
COSN20090209 1253 COSMIC
COSN16430864 1254 COSMIC
COSN30510604 1386 COSMIC
COSN28743631 1556 COSMIC
COSN8638283 1556 COSMIC
COSN30110529 1739 COSMIC
COSN30533976 1749 COSMIC
COSN30134539 1776 COSMIC
COSN28817276 1781 COSMIC
COSN1445177 1810 COSMIC
COSN31547976 1824 COSMIC
COSN30137352 1871 COSMIC
COSN23833909 1932 COSMIC
rs77157953 672 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1404383893 1 dbSNP
rs749177613 3 dbSNP
rs770783862 7 dbSNP
rs776357534 8 dbSNP
rs527290332 9 dbSNP
rs975598293 14 dbSNP
rs922285721 16 dbSNP
rs773978914 19 dbSNP
rs1289439064 21 dbSNP
rs374548143 23 dbSNP
rs547032892 26 dbSNP
rs1258621987 27 dbSNP
rs776833977 28 dbSNP
rs1210999210 30 dbSNP
rs911676764 36 dbSNP
rs761880161 43 dbSNP
rs1206996485 44 dbSNP
rs765237679 45 dbSNP
rs769274479 46 dbSNP
rs56278340 47 dbSNP
rs751844855 48 dbSNP
rs754717449 51 dbSNP
rs535910585 53 dbSNP
rs783823 54 dbSNP
rs1227509610 55 dbSNP
rs190039579 59 dbSNP
rs994778357 62 dbSNP
rs1384604987 67 dbSNP
rs368403599 72 dbSNP
rs894325819 74 dbSNP
rs1289146435 79 dbSNP
rs769967628 89 dbSNP
rs371338854 90 dbSNP
rs3768302 99 dbSNP
rs1472457006 105 dbSNP
rs1430663843 108 dbSNP
rs1328580551 110 dbSNP
rs1450003609 115 dbSNP
rs1266783151 116 dbSNP
rs1205724849 117 dbSNP
rs1466448212 120 dbSNP
rs905174318 124 dbSNP
rs1228357896 134 dbSNP
rs181292979 135 dbSNP
rs1340137442 139 dbSNP
rs1002242420 148 dbSNP
rs1230958537 152 dbSNP
rs1330388813 154 dbSNP
rs1295677287 156 dbSNP
rs1035093476 162 dbSNP
rs896578187 163 dbSNP
rs1386062997 172 dbSNP
rs572197249 183 dbSNP
rs535036790 204 dbSNP
rs1010127986 208 dbSNP
rs143562502 209 dbSNP
rs1030972677 212 dbSNP
rs1174623330 213 dbSNP
rs575019864 226 dbSNP
rs541865313 227 dbSNP
rs1264944381 243 dbSNP
rs979691552 248 dbSNP
rs1028572187 254 dbSNP
rs953041753 255 dbSNP
rs1011597345 263 dbSNP
rs1246460563 265 dbSNP
rs985767879 270 dbSNP
rs1461647260 271 dbSNP
rs1193449119 274 dbSNP
rs1280490020 279 dbSNP
rs1198445195 288 dbSNP
rs1344258443 289 dbSNP
rs1389229295 292 dbSNP
rs1230030698 300 dbSNP
rs766441818 305 dbSNP
rs911602915 306 dbSNP
rs774266381 316 dbSNP
rs1296490920 324 dbSNP
rs1452937879 331 dbSNP
rs1341827581 335 dbSNP
rs543912250 351 dbSNP
rs944489990 354 dbSNP
rs1413077542 355 dbSNP
rs1402176897 356 dbSNP
rs561700367 375 dbSNP
rs1431773735 382 dbSNP
rs1388383116 385 dbSNP
rs1187940650 416 dbSNP
rs964595133 425 dbSNP
rs1239390817 433 dbSNP
rs572414527 444 dbSNP
rs1441602347 453 dbSNP
rs1251242363 454 dbSNP
rs1164972417 456 dbSNP
rs930494824 460 dbSNP
rs118058542 461 dbSNP
rs1246024805 464 dbSNP
rs564722998 467 dbSNP
rs908228515 475 dbSNP
rs1446331573 482 dbSNP
rs1340239440 483 dbSNP
rs1309227228 487 dbSNP
rs1412236843 496 dbSNP
rs533396670 498 dbSNP
rs186353098 506 dbSNP
rs1056479623 508 dbSNP
rs761517176 511 dbSNP
rs763617380 513 dbSNP
rs1248230925 530 dbSNP
rs766470650 531 dbSNP
rs753231220 538 dbSNP
rs577107916 540 dbSNP
rs879536223 540 dbSNP
rs783824 545 dbSNP
rs1250925705 547 dbSNP
rs904019807 549 dbSNP
rs1243885204 556 dbSNP
rs1222652589 557 dbSNP
rs1001476153 567 dbSNP
rs528753566 569 dbSNP
rs190708706 570 dbSNP
rs1227366582 572 dbSNP
rs1028498547 576 dbSNP
rs954297896 581 dbSNP
rs1289378689 593 dbSNP
rs560533225 594 dbSNP
rs1230576650 597 dbSNP
rs11206031 598 dbSNP
rs1307927730 605 dbSNP
rs549464967 613 dbSNP
rs1437364731 618 dbSNP
rs1351674409 619 dbSNP
rs1321607496 633 dbSNP
rs1404996262 634 dbSNP
rs1246996423 637 dbSNP
rs1161133058 640 dbSNP
rs569559311 643 dbSNP
rs1411199476 645 dbSNP
rs966129691 649 dbSNP
rs1478755879 657 dbSNP
rs1244486794 666 dbSNP
rs1447251823 671 dbSNP
rs77157953 672 dbSNP
rs1422734875 683 dbSNP
rs1163290606 688 dbSNP
rs1327525119 693 dbSNP
rs1288336668 695 dbSNP
rs1220329605 709 dbSNP
rs1370277357 710 dbSNP
rs1435791616 722 dbSNP
rs755359807 724 dbSNP
rs1322776186 729 dbSNP
rs552056566 736 dbSNP
rs1387615216 741 dbSNP
rs1486234405 748 dbSNP
rs1416103846 757 dbSNP
rs984627560 761 dbSNP
rs766486796 763 dbSNP
rs926485931 764 dbSNP
rs1249584299 785 dbSNP
rs1449518147 785 dbSNP
rs1187613739 786 dbSNP
rs900085763 786 dbSNP
rs937926340 786 dbSNP
rs751621028 790 dbSNP
rs1056426314 791 dbSNP
rs72928324 792 dbSNP
rs945411143 793 dbSNP
rs1433183966 798 dbSNP
rs1337657252 799 dbSNP
rs1378521869 800 dbSNP
rs1394421090 801 dbSNP
rs1310456252 812 dbSNP
rs1042468491 815 dbSNP
rs1175233868 817 dbSNP
rs1180375 820 dbSNP
rs1001002543 836 dbSNP
rs1326831720 837 dbSNP
rs555030137 838 dbSNP
rs890007811 839 dbSNP
rs568460592 841 dbSNP
rs915777678 844 dbSNP
rs143765499 850 dbSNP
rs557499908 851 dbSNP
rs928495290 853 dbSNP
rs1179657453 862 dbSNP
rs993601896 863 dbSNP
rs1276867452 875 dbSNP
rs1226219577 880 dbSNP
rs1026028075 881 dbSNP
rs1253253994 888 dbSNP
rs1313678225 889 dbSNP
rs951886386 897 dbSNP
rs1052504846 898 dbSNP
rs984596851 901 dbSNP
rs1410366366 902 dbSNP
rs577220607 912 dbSNP
rs900056729 913 dbSNP
rs1177398213 916 dbSNP
rs1358850506 917 dbSNP
rs959219409 919 dbSNP
rs1368729866 921 dbSNP
rs1464579395 927 dbSNP
rs1299923877 929 dbSNP
rs992075049 931 dbSNP
rs917862094 932 dbSNP
rs1410295656 933 dbSNP
rs1287651233 936 dbSNP
rs1348393872 937 dbSNP
rs1254530773 942 dbSNP
rs1203167110 943 dbSNP
rs546399957 944 dbSNP
rs61636308 945 dbSNP
rs925368139 946 dbSNP
rs1320075005 948 dbSNP
rs936771358 949 dbSNP
rs1228730185 953 dbSNP
rs1363349443 956 dbSNP
rs1286350008 960 dbSNP
rs1049829433 962 dbSNP
rs1294712368 966 dbSNP
rs1311292804 969 dbSNP
rs1456064375 972 dbSNP
rs1207631131 975 dbSNP
rs1252509946 976 dbSNP
rs1473109812 976 dbSNP
rs1180643209 977 dbSNP
rs1268152420 977 dbSNP
rs1414886675 977 dbSNP
rs1418636138 977 dbSNP
rs552780376 977 dbSNP
rs889933379 978 dbSNP
rs1487641683 982 dbSNP
rs1015311489 994 dbSNP
rs1483106824 996 dbSNP
rs1204994904 997 dbSNP
rs1286446609 999 dbSNP
rs1250318932 1000 dbSNP
rs1238255755 1003 dbSNP
rs1331538897 1004 dbSNP
rs1481608928 1005 dbSNP
rs1384515107 1007 dbSNP
rs182937351 1008 dbSNP
rs1036976244 1012 dbSNP
rs1424939454 1013 dbSNP
rs542098179 1025 dbSNP
rs756561930 1031 dbSNP
rs1453716583 1037 dbSNP
rs1378671028 1045 dbSNP
rs1201158256 1046 dbSNP
rs1431482962 1049 dbSNP
rs1252684346 1052 dbSNP
rs370704433 1059 dbSNP
rs970360449 1060 dbSNP
rs897406855 1064 dbSNP
rs993136486 1065 dbSNP
rs1257665063 1072 dbSNP
rs1230486872 1078 dbSNP
rs1307325682 1088 dbSNP
rs1026416190 1090 dbSNP
rs1297950901 1091 dbSNP
rs1406511234 1093 dbSNP
rs1318990900 1094 dbSNP
rs951776297 1095 dbSNP
rs1035479481 1102 dbSNP
rs529634486 1103 dbSNP
rs1005959186 1104 dbSNP
rs1342235937 1105 dbSNP
rs72661973 1112 dbSNP
rs201393675 1113 dbSNP
rs1192264228 1118 dbSNP
rs1442755512 1119 dbSNP
rs879182073 1134 dbSNP
rs979819861 1135 dbSNP
rs1198647533 1141 dbSNP
rs959186850 1142 dbSNP
rs992001388 1153 dbSNP
rs572051820 1154 dbSNP
rs917803859 1154 dbSNP
rs932884928 1158 dbSNP
rs1222976208 1165 dbSNP
rs1246430823 1167 dbSNP
rs377485705 1168 dbSNP
rs940135595 1181 dbSNP
rs1413482740 1184 dbSNP
rs1188498450 1188 dbSNP
rs1391083286 1189 dbSNP
rs1304880354 1197 dbSNP
rs1448917985 1201 dbSNP
rs1308733333 1204 dbSNP
rs1431678584 1206 dbSNP
rs1166837677 1228 dbSNP
rs1037213766 1233 dbSNP
rs898213884 1236 dbSNP
rs1369989756 1238 dbSNP
rs995289321 1245 dbSNP
rs17343193 1248 dbSNP
rs1252422510 1257 dbSNP
rs925262575 1258 dbSNP
rs1481785813 1263 dbSNP
rs1406973286 1279 dbSNP
rs111406271 1280 dbSNP
rs1357949440 1286 dbSNP
rs1349024611 1293 dbSNP
rs769307547 1294 dbSNP
rs955964357 1296 dbSNP
rs552381174 1300 dbSNP
rs113212425 1304 dbSNP
rs1322110186 1304 dbSNP
rs1365521561 1305 dbSNP
rs1049796435 1307 dbSNP
rs1227249135 1308 dbSNP
rs1294700362 1315 dbSNP
rs911339364 1331 dbSNP
rs778016401 1334 dbSNP
rs1041611186 1335 dbSNP
rs1289875345 1343 dbSNP
rs1021478875 1348 dbSNP
rs1320276709 1354 dbSNP
rs1474741053 1359 dbSNP
rs1412705842 1367 dbSNP
rs1184243202 1369 dbSNP
rs1471537608 1382 dbSNP
rs897378894 1384 dbSNP
rs968521775 1393 dbSNP
rs930231469 1395 dbSNP
rs1221616546 1401 dbSNP
rs1248848223 1402 dbSNP
rs979572212 1404 dbSNP
rs749317720 1424 dbSNP
rs1048666332 1432 dbSNP
rs921259255 1437 dbSNP
rs1334604500 1438 dbSNP
rs748556583 1450 dbSNP
rs887442037 1451 dbSNP
rs1005926108 1459 dbSNP
rs932597491 1467 dbSNP
rs565712937 1468 dbSNP
rs528431669 1473 dbSNP
rs1033397111 1479 dbSNP
rs940271609 1482 dbSNP
rs894900311 1485 dbSNP
rs1437254946 1490 dbSNP
rs1244986554 1494 dbSNP
rs1473171303 1495 dbSNP
rs1163770474 1501 dbSNP
rs1389126193 1505 dbSNP
rs1413039922 1514 dbSNP
rs868159508 1517 dbSNP
rs771253852 1518 dbSNP
rs138694483 1521 dbSNP
rs1013397512 1563 dbSNP
rs1191314546 1564 dbSNP
rs1478705278 1572 dbSNP
rs774406464 1574 dbSNP
rs1025242353 1575 dbSNP
rs865939189 1578 dbSNP
rs966598500 1587 dbSNP
rs1210927428 1588 dbSNP
rs1315712882 1593 dbSNP
rs568320791 1594 dbSNP
rs1044191501 1598 dbSNP
rs905612484 1606 dbSNP
rs978394866 1609 dbSNP
rs1301264513 1611 dbSNP
rs1002460559 1612 dbSNP
rs1433826900 1628 dbSNP
rs1056739101 1633 dbSNP
rs756453984 1635 dbSNP
rs891690953 1636 dbSNP
rs1176701867 1643 dbSNP
rs1415741621 1644 dbSNP
rs537445752 1658 dbSNP
rs1172402557 1671 dbSNP
rs1449732620 1672 dbSNP
rs1249448807 1676 dbSNP
rs867900408 1695 dbSNP
rs1448193755 1697 dbSNP
rs958022547 1700 dbSNP
rs1242102513 1703 dbSNP
rs370953781 1712 dbSNP
rs985433927 1722 dbSNP
rs745310600 1733 dbSNP
rs911265177 1740 dbSNP
rs1278319885 1741 dbSNP
rs944143375 1743 dbSNP
rs1226008616 1749 dbSNP
rs557365400 1759 dbSNP
rs918733675 1760 dbSNP
rs1212661864 1766 dbSNP
rs759426117 1772 dbSNP
rs653064 1781 dbSNP
rs1049115925 1782 dbSNP
rs986773910 1801 dbSNP
rs912589391 1808 dbSNP
rs536887547 1816 dbSNP
rs553560289 1826 dbSNP
rs1391704215 1828 dbSNP
rs574405236 1829 dbSNP
rs573355419 1831 dbSNP
rs1167862593 1835 dbSNP
rs1427494363 1836 dbSNP
rs1054815906 1846 dbSNP
rs1235835031 1849 dbSNP
rs1471739250 1855 dbSNP
rs894869004 1856 dbSNP
rs79296035 1865 dbSNP
rs545934873 1874 dbSNP
rs1024749497 1875 dbSNP
rs1476484001 1882 dbSNP
rs920085569 1886 dbSNP
rs902340435 1887 dbSNP
rs1156487371 1894 dbSNP
rs1403966760 1899 dbSNP
rs1277110272 1904 dbSNP
rs12759845 1907 dbSNP
rs575501633 1912 dbSNP
rs1032185289 1913 dbSNP
rs1332886613 1921 dbSNP
rs1229770618 1923 dbSNP
rs1338216307 1928 dbSNP
rs1292595253 1934 dbSNP
rs1409965280 1934 dbSNP
rs1412162193 1934 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Hela
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1048187. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_control ...

- Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al., 2013, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' acggucggagcGGGUCg 5'
                     ||||| 
Target 5' ----------uCCCAGa 3'
1 - 7
2
miRNA  3' acggUCGG-AGCGggucg 5'
              ||||  |||     
Target 5' cgugAGCCACCGC----- 3'
24 - 36
Article - Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al.
- Cell, 2013
The induction of pluripotency or trans-differentiation of one cell type to another can be accomplished with cell-lineage-specific transcription factors. Here, we report that repression of a single RNA binding polypyrimidine-tract-binding (PTB) protein, which occurs during normal brain development via the action of miR-124, is sufficient to induce trans-differentiation of fibroblasts into functional neurons. Besides its traditional role in regulated splicing, we show that PTB has a previously undocumented function in the regulation of microRNA functions, suppressing or enhancing microRNA targeting by competitive binding on target mRNA or altering local RNA secondary structure. A key event during neuronal induction is the relief of PTB-mediated blockage of microRNA action on multiple components of the REST complex, thereby derepressing a large array of neuronal genes, including miR-124 and multiple neuronal-specific transcription factors, in nonneuronal cells. This converts a negative feedback loop to a positive one to elicit cellular reprogramming to the neuronal lineage.
LinkOut: [PMID: 23313552]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4 ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1048187
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Hela / Hela_AGO2_CLIP_control
Location of target site ENST00000530275.1 | 3UTR | UCCCAGAGUGCUGGGAUUACAGGCGUGAGCCACCGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23313552 / GSE42701
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000530275.1 | 3UTR | AGAGUGCUGGGAUUACAGGCGUGAGCCACCGCGCCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
108 hsa-miR-4486 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT254654 NF2 neurofibromin 2 2 2
MIRT458684 MRI1 methylthioribose-1-phosphate isomerase 1 2 2
MIRT470845 PLXND1 plexin D1 2 2
MIRT493011 NANOS1 nanos C2HC-type zinc finger 1 2 2
MIRT497264 GRK6 G protein-coupled receptor kinase 6 2 2
MIRT497675 SYNGR1 synaptogyrin 1 2 2
MIRT498219 TLN2 talin 2 2 2
MIRT498310 BCL11B B-cell CLL/lymphoma 11B 2 2
MIRT504048 TOMM5 translocase of outer mitochondrial membrane 5 2 2
MIRT519959 ZCCHC8 zinc finger CCHC-type containing 8 2 2
MIRT531521 NOM1 nucleolar protein with MIF4G domain 1 2 2
MIRT533144 WNT10A Wnt family member 10A 2 2
MIRT533541 TPR translocated promoter region, nuclear basket protein 2 2
MIRT533681 TMEM86A transmembrane protein 86A 2 2
MIRT540321 PIGR polymeric immunoglobulin receptor 2 2
MIRT540719 GUF1 GUF1 homolog, GTPase 2 2
MIRT541566 ZNF43 zinc finger protein 43 2 4
MIRT541787 TBCCD1 TBCC domain containing 1 2 2
MIRT541925 ORC1 origin recognition complex subunit 1 2 4
MIRT542232 FUT9 fucosyltransferase 9 2 2
MIRT542285 POLR3K RNA polymerase III subunit K 2 2
MIRT542299 QTRTD1 queuine tRNA-ribosyltransferase accessory subunit 2 2 4
MIRT542368 PAICS phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase 2 2
MIRT542441 C3 complement C3 2 4
MIRT542475 APOC3 apolipoprotein C3 2 2
MIRT542535 MRPS10 mitochondrial ribosomal protein S10 2 2
MIRT542640 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT542788 PLEKHA3 pleckstrin homology domain containing A3 2 2
MIRT552104 PPP1R1A protein phosphatase 1 regulatory inhibitor subunit 1A 2 2
MIRT564913 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 2
MIRT568606 ACVR2A activin A receptor type 2A 2 2
MIRT607389 LANCL3 LanC like 3 2 2
MIRT607451 ZNF543 zinc finger protein 543 2 2
MIRT610058 MYBPC1 myosin binding protein C, slow type 2 2
MIRT610793 KLK2 kallikrein related peptidase 2 2 2
MIRT617176 GOSR2 golgi SNAP receptor complex member 2 2 2
MIRT620579 WBSCR27 methyltransferase like 27 2 4
MIRT622085 SRPX2 sushi repeat containing protein, X-linked 2 2 2
MIRT622542 PXMP4 peroxisomal membrane protein 4 2 2
MIRT630009 PDE6B phosphodiesterase 6B 2 2
MIRT631813 PTDSS2 phosphatidylserine synthase 2 2 2
MIRT632721 MSANTD4 Myb/SANT DNA binding domain containing 4 with coiled-coils 2 2
MIRT632757 MED28 mediator complex subunit 28 2 2
MIRT634821 ASB6 ankyrin repeat and SOCS box containing 6 2 2
MIRT635255 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT637082 SELPLG selectin P ligand 2 2
MIRT637357 ZNF460 zinc finger protein 460 2 2
MIRT637472 DEFB105B defensin beta 105B 2 4
MIRT637504 DEFB105A defensin beta 105A 2 4
MIRT639022 AAK1 AP2 associated kinase 1 2 2
MIRT641012 ANKFY1 ankyrin repeat and FYVE domain containing 1 2 2
MIRT642170 HEBP2 heme binding protein 2 2 2
MIRT648977 ACAD8 acyl-CoA dehydrogenase family member 8 2 2
MIRT650515 UFM1 ubiquitin fold modifier 1 2 2
MIRT650949 INMT indolethylamine N-methyltransferase 2 2
MIRT658354 FAM65B RHO family interacting cell polarization regulator 2 2 2
MIRT660736 ALG14 ALG14, UDP-N-acetylglucosaminyltransferase subunit 2 2
MIRT662191 MEI1 meiotic double-stranded break formation protein 1 2 2
MIRT663045 SLC16A4 solute carrier family 16 member 4 2 2
MIRT664811 IRAK3 interleukin 1 receptor associated kinase 3 2 2
MIRT665161 SF3A1 splicing factor 3a subunit 1 2 4
MIRT665346 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 2
MIRT666493 SBNO1 strawberry notch homolog 1 2 2
MIRT666545 RNF115 ring finger protein 115 2 2
MIRT669351 BMP3 bone morphogenetic protein 3 2 2
MIRT669904 KIAA0754 KIAA0754 2 4
MIRT670323 CEP57L1 centrosomal protein 57 like 1 2 2
MIRT670430 ELP2 elongator acetyltransferase complex subunit 2 2 2
MIRT670672 KIAA1551 KIAA1551 2 2
MIRT670746 HOOK3 hook microtubule tethering protein 3 2 2
MIRT670998 PTGIS prostaglandin I2 synthase 2 2
MIRT671290 RPL37A ribosomal protein L37a 2 2
MIRT671469 AGPAT6 glycerol-3-phosphate acyltransferase 4 2 2
MIRT671833 STIL STIL, centriolar assembly protein 2 2
MIRT673006 TAF1 TATA-box binding protein associated factor 1 2 2
MIRT675881 CSTF1 cleavage stimulation factor subunit 1 2 2
MIRT678625 OLFML2A olfactomedin like 2A 2 2
MIRT678790 NUPL2 nucleoporin like 2 2 2
MIRT679560 LIN9 lin-9 DREAM MuvB core complex component 2 2
MIRT681032 AAED1 AhpC/TSA antioxidant enzyme domain containing 1 2 2
MIRT682480 LIX1L limb and CNS expressed 1 like 2 2
MIRT682758 MDM2 MDM2 proto-oncogene 2 2
MIRT682810 TMCO1 transmembrane and coiled-coil domains 1 2 2
MIRT682867 C9orf156 tRNA methyltransferase O 2 2
MIRT689233 RPS19 ribosomal protein S19 2 2
MIRT689305 C5AR2 complement component 5a receptor 2 2 2
MIRT689363 ZNF101 zinc finger protein 101 2 2
MIRT689629 NAA30 N(alpha)-acetyltransferase 30, NatC catalytic subunit 2 2
MIRT689654 RBM23 RNA binding motif protein 23 2 2
MIRT690148 PPIL6 peptidylprolyl isomerase like 6 2 2
MIRT691407 DNA2 DNA replication helicase/nuclease 2 2 2
MIRT691847 OSCAR osteoclast associated, immunoglobulin-like receptor 2 2
MIRT692234 ALDH1B1 aldehyde dehydrogenase 1 family member B1 2 2
MIRT694320 NLRP9 NLR family pyrin domain containing 9 2 2
MIRT694365 CHST6 carbohydrate sulfotransferase 6 2 2
MIRT696215 LYZ lysozyme 2 2
MIRT697230 ZYG11A zyg-11 family member A, cell cycle regulator 2 2
MIRT700487 PTPRF protein tyrosine phosphatase, receptor type F 2 2
MIRT700612 PRKCA protein kinase C alpha 2 2
MIRT702456 KIAA1467 family with sequence similarity 234 member B 2 2
MIRT702990 HERPUD2 HERPUD family member 2 2 2
MIRT703998 EIF5A2 eukaryotic translation initiation factor 5A2 2 2
MIRT704701 CHRFAM7A CHRNA7 (exons 5-10) and FAM7A (exons A-E) fusion 2 2
MIRT712481 FSTL3 follistatin like 3 2 2
MIRT712781 ZNF154 zinc finger protein 154 2 2
MIRT714369 HP1BP3 heterochromatin protein 1 binding protein 3 2 2
MIRT722570 C1orf95 stum, mechanosensory transduction mediator homolog 2 2
MIRT722839 C17orf102 chromosome 17 open reading frame 102 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4486 Dabrafenib 44462760 NSC764134 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-4486 Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-4486 Doxorubicin 31703 NSC123127 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-4486 Curcumin 969516 NSC32982 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-4486 Paclitaxel 36314 NSC125973 approved resistant High Non-Small Cell Lung Cancer cell line (A549)
hsa-miR-4486 Fulvestrant 17756771 NSC719276 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-4486 Tamoxifen 2733525 NSC180973 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-4486 Cisplatin 5460033 NSC119875 approved sensitive High Gastric Cancer cell line (SGC7901)
hsa-miR-4486 Cisplatin 5460033 NSC119875 approved sensitive Low Gastric Cancer cell line (SGC-7901)
hsa-mir-4486 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-4486 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-4486 Temozolomide 5394 NSC362856 approved resistant cell line (U251)
hsa-miR-4486 Doxorubicin 31703 NSC123127 approved resistant cell line (BAS)
hsa-miR-4486 Doxorubicin 31703 NSC123127 approved resistant cell line (HS578T)
hsa-miR-4486 Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-4486 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-4486 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-4486 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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