miRTarBase - #MIRT610462


—
pre-miRNA Information
pre-miRNA hsa-mir-4650-1   
Genomic Coordinates chr7: 67114322 - 67114397
Description Homo sapiens miR-4650-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4650-2   
Genomic Coordinates chr7: 72697903 - 72697978
Description Homo sapiens miR-4650-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4650-5p
Sequence 15| UCAGGCCUCUUUCUACCUU |33
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1332063492 8 dbSNP
rs914649075 9 dbSNP
rs1452034829 10 dbSNP
rs1489220537 15 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SYNPO2L   
Synonyms -
Description synaptopodin 2 like
Transcript NM_001114133   
Other Transcripts NM_024875   
Expression
Putative miRNA Targets on SYNPO2L
3'UTR of SYNPO2L
(miRNA target sites are highlighted)		 
>SYNPO2L|NM_001114133|3'UTR
   1 ACAGGCACAGGTCCCAGGACCAAGGAGAGGTGGAACATCCAGTTCCTAAAGTTGCTTCTCCTACCCTATCCCATCCCCTG
  81 TCACGCATCTGGAAGCTAAATTGCCTCCTGCCAGAGATGGTTTCCAAGTTGATGTCCCCTTCCCCCACCTTCCTCCTCAC
 161 TCTCTACCTCCCTGCCGCTTTCCAACCAAGTATGTCTGCTTTGGTATCTTTGCCTCTCTTTGTCTCTGCATTTCCTTTCC
 241 TGGATCTCTGTCTTTATTTCCAGGCTTCTCCACCCATATTCCTCCACAGATCTCTCTTCCTTGACATTTGTGCTTTTCTC
 321 CCTGGGCCTCATTTTAATGTTCAGTGAGAAGTAAACAGAGCAGAAGTGACCACTGGGACTTCAGGCAAGAAGCTCACCAC
 401 CAGGCACACAGCAAAGGGACTGAACTGACCCCTGTTTGCACTAAGCCACCCCCACCCCCCACTCTGCTTTCCCAAGCTTG
 481 ACTGGCATATACCTAGGCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTCTTCCGTCTAAGGCATGAA
 561 TAAGAGGGGAGGTCAAAATAAAGACCCAATCTGAGGCCGGGCACGGTGGCTCACGCCGGTAATCCCAGCACTTTGGGAGG
 641 CCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACACGGTGAAACCCCATTTCCACTAAAAATAC
 721 AAAAAATTAGCTGGGCGTGGTGGCGAGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCATGAACCT
 801 GGAAGGCGGAGCTTGCAGTGAGCTGAGATTGCGCCACTGCACTCCAGCCTGGGCGACGGAGCGAGACTCTGTCTCAAAAC
 881 AAACAAACAAACAAAAGACCCAATCTGAGTCTTATCGTTGTACTGATAGAAGGGTCAGATATCCCCACATGGAGTTGAGT
 961 GGGAGAAAGAGATTCACTAGAGAATAACTCCTTAGAGACCAATGTCTGTAGCAGGTGTACAGCATCTTGTGAAAGTTATG
1041 GAGCATGAAAAGACTGAAGGGCCAGGACAGTTTGCATGGGCTGAGTTATACCAGCTAGACCAGGAATAGAACAAAGAATT
1121 CTATACCTCAGGATTTCAAAAAGTTAGCAACTTGAGAGGCCAGTGCTGAGCAACCCAGTACCCAGGAAATGAAAAAAAGA
1201 AAGAAAATTCCCTCCGAGAATGAACAAATCATTGGCTTCATTGCCTCATGAGCTTGAGAGAAAGGAGAAGAGAGCCAGAG
1281 TGTGGCAAGTGAGGCCAAAATCAGAAGCATGGCAGAAATGAGTGTAAGTGATTGAGCCACAGACAGAAGTGTGGCGAGGG
1361 ACAATGCCATATTGGGAGAAGGTAAAGTTGAGTAACAAGAAACCAACCGTGTGTGAGAGGGGGATTGGAAAAAAATTTGA
1441 GGGAGAAGAATGTTAGAATGGAAGGGAATGATGGTGGAAGGGAGGTGTGAGGGTGTGTGCTGAGTGTTGAAAGAACGGTT
1521 GGTGTCTGTGTGATTTTCCTTGAGTCTGTTCTTCAGTGTGTCTTCTGCAGCTTGCCATGACTGCCTGGGAAAGAGTAGGG
1601 AAATACCCAGAGCCAAAACCTCCTTTCAGTCCCACCCCATCCCTCAAAACCCCAGCTATTGCTTCTTTTCAGCTTCAGGT
1681 CCTGATCTCCAATCTTAGTATGGACTCCCTTCTCACCAAGACCACCACCAGCTACGTTTGCTGTGTAATCTGGAAAGTGA
1761 TAATTTCCTTTGCTTGTTGGGTGTGAGTCACAATACTTTGGTTTGTGCACAAGAATAAATTTATGCCCCATACCTTC
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' uuccAUCUUUCUCCGGACu 5'
              || |   ||||||| 
Target 5' ggcaTATACCTAGGCCTGt 3'
 484 - 502 143.00 -11.80
2 
miRNA  3' uuCCAUC-UU----UCUCCGGACu 5'
            | ||| ||    ||||||| | 
Target 5' aaGTTAGCAACTTGAGAGGCCAGt 3'
 1141 - 1164 123.00 -11.90
3 
miRNA  3' uuCCAUCUUUCUC-CGGACu 5'
            |||:|   ||| ||||| 
Target 5' gtGGTGG--CGAGCGCCTGt 3'
 737 - 754 121.00 -16.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30490493 15 COSMIC
COSN30190615 27 COSMIC
COSN31494091 64 COSMIC
COSN30171291 72 COSMIC
COSN30499582 105 COSMIC
COSN31547997 116 COSMIC
COSN31514448 153 COSMIC
COSN31567440 246 COSMIC
COSN26440260 310 COSMIC
COSN20092128 348 COSMIC
COSN25475760 399 COSMIC
COSN24540908 454 COSMIC
COSN20107262 499 COSMIC
COSN20107266 500 COSMIC
COSN28693316 841 COSMIC
COSN28643791 868 COSMIC
COSN28201940 871 COSMIC
COSN5253713 886 COSMIC
COSN31547643 890 COSMIC
COSN26580977 963 COSMIC
COSN25441468 991 COSMIC
COSN5883476 1004 COSMIC
COSN26581459 1031 COSMIC
COSN26668033 1091 COSMIC
COSN31516583 1437 COSMIC
COSN1500339 1479 COSMIC
COSN30544429 1518 COSMIC
COSN31529323 1546 COSMIC
COSN28858030 1589 COSMIC
COSN30123972 1623 COSMIC
COSN1122392 1642 COSMIC
COSN30544036 1656 COSMIC
COSN18713652 1678 COSMIC
COSN30164802 1681 COSMIC
COSN1122390 1741 COSMIC
COSN30129019 1775 COSMIC
COSN26435903 1784 COSMIC
COSN28187135 1809 COSMIC
rs3740293 335 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1216962456 5 dbSNP
rs189798321 8 dbSNP
rs754863833 9 dbSNP
rs1206091329 13 dbSNP
rs200943721 15 dbSNP
rs1189285955 16 dbSNP
rs1324426955 27 dbSNP
rs766117288 29 dbSNP
rs561222652 30 dbSNP
rs746136240 31 dbSNP
rs1360135153 32 dbSNP
rs41280406 33 dbSNP
rs529926811 51 dbSNP
rs765862668 55 dbSNP
rs900507997 60 dbSNP
rs760246909 65 dbSNP
rs942038874 66 dbSNP
rs1357063932 71 dbSNP
rs35459518 79 dbSNP
rs1017325699 80 dbSNP
rs1007655346 84 dbSNP
rs376406191 85 dbSNP
rs1301510095 97 dbSNP
rs867419711 98 dbSNP
rs1333158012 101 dbSNP
rs1207757267 103 dbSNP
rs909312958 108 dbSNP
rs566427671 110 dbSNP
rs1465305079 119 dbSNP
rs1207959667 127 dbSNP
rs890152684 129 dbSNP
rs983488240 132 dbSNP
rs1447682910 138 dbSNP
rs1403769576 139 dbSNP
rs1051854715 146 dbSNP
rs562628569 147 dbSNP
rs1174415644 166 dbSNP
rs143952122 174 dbSNP
rs534999959 177 dbSNP
rs1414561328 178 dbSNP
rs929489959 179 dbSNP
rs558549174 185 dbSNP
rs992374084 186 dbSNP
rs1037878849 190 dbSNP
rs749481949 191 dbSNP
rs1437947160 196 dbSNP
rs1293824282 197 dbSNP
rs959583358 198 dbSNP
rs1482063279 199 dbSNP
rs1289992249 203 dbSNP
rs942144626 204 dbSNP
rs915995421 213 dbSNP
rs1266143993 223 dbSNP
rs1471867868 228 dbSNP
rs1033930629 239 dbSNP
rs767093147 249 dbSNP
rs938750689 258 dbSNP
rs967724685 264 dbSNP
rs12570798 273 dbSNP
rs1021134644 287 dbSNP
rs548332100 292 dbSNP
rs890966287 298 dbSNP
rs1029466573 310 dbSNP
rs913786997 328 dbSNP
rs3740293 335 dbSNP
rs1309417227 344 dbSNP
rs1350936791 347 dbSNP
rs957872605 355 dbSNP
rs1017835932 366 dbSNP
rs774613764 374 dbSNP
rs954605300 389 dbSNP
rs1228746701 395 dbSNP
rs1030041650 404 dbSNP
rs993126841 413 dbSNP
rs1280781749 420 dbSNP
rs898089334 447 dbSNP
rs572931233 450 dbSNP
rs1220595513 454 dbSNP
rs770039469 454 dbSNP
rs1483623292 460 dbSNP
rs1181897428 461 dbSNP
rs554375437 493 dbSNP
rs1203357991 498 dbSNP
rs942055761 499 dbSNP
rs887756952 500 dbSNP
rs1047820943 502 dbSNP
rs1412472460 503 dbSNP
rs894670710 504 dbSNP
rs1056358614 505 dbSNP
rs1170138715 505 dbSNP
rs1428640026 508 dbSNP
rs938817026 509 dbSNP
rs138687876 510 dbSNP
rs907239377 512 dbSNP
rs1448697872 516 dbSNP
rs929355428 528 dbSNP
rs1041708665 530 dbSNP
rs1448247191 531 dbSNP
rs1360560522 533 dbSNP
rs1243863509 534 dbSNP
rs1317890577 534 dbSNP
rs918094985 536 dbSNP
rs1456256879 537 dbSNP
rs1343160781 538 dbSNP
rs769203006 538 dbSNP
rs1160627929 539 dbSNP
rs1166270721 540 dbSNP
rs1180061665 540 dbSNP
rs1187450850 540 dbSNP
rs1189954054 540 dbSNP
rs1204623059 540 dbSNP
rs1211501141 540 dbSNP
rs1237382348 540 dbSNP
rs1270522185 540 dbSNP
rs1271368632 540 dbSNP
rs1442315594 540 dbSNP
rs1444440558 540 dbSNP
rs1448529242 540 dbSNP
rs1491446952 540 dbSNP
rs56147683 540 dbSNP
rs57745482 540 dbSNP
rs59162775 540 dbSNP
rs796899631 540 dbSNP
rs1227068084 541 dbSNP
rs913837907 541 dbSNP
rs946021874 541 dbSNP
rs140171142 542 dbSNP
rs1211078671 545 dbSNP
rs1248126117 546 dbSNP
rs938192254 547 dbSNP
rs926893958 554 dbSNP
rs979677001 555 dbSNP
rs1378999819 566 dbSNP
rs34172607 569 dbSNP
rs1171798384 570 dbSNP
rs1239433187 571 dbSNP
rs1020577430 579 dbSNP
rs1458782578 580 dbSNP
rs1321086413 586 dbSNP
rs987895068 589 dbSNP
rs910420985 595 dbSNP
rs955141230 598 dbSNP
rs192799507 599 dbSNP
rs996705628 600 dbSNP
rs954488962 602 dbSNP
rs538980638 604 dbSNP
rs1288817152 605 dbSNP
rs1321790205 608 dbSNP
rs1017277939 610 dbSNP
rs146617579 614 dbSNP
rs1202840049 615 dbSNP
rs571826543 617 dbSNP
rs1047687605 618 dbSNP
rs1006505799 624 dbSNP
rs1266537184 627 dbSNP
rs547019950 631 dbSNP
rs528467338 642 dbSNP
rs1433695129 643 dbSNP
rs1284892804 644 dbSNP
rs1056458441 647 dbSNP
rs938188552 648 dbSNP
rs567610381 651 dbSNP
rs1392917962 652 dbSNP
rs1044370205 658 dbSNP
rs946953823 659 dbSNP
rs914148048 661 dbSNP
rs907298558 662 dbSNP
rs142904487 672 dbSNP
rs531001409 673 dbSNP
rs188178616 682 dbSNP
rs975161439 689 dbSNP
rs1356378981 690 dbSNP
rs1054378526 692 dbSNP
rs1448907037 693 dbSNP
rs936642656 718 dbSNP
rs910421514 720 dbSNP
rs985991990 732 dbSNP
rs1189469490 734 dbSNP
rs370099084 736 dbSNP
rs1458442894 737 dbSNP
rs550782594 744 dbSNP
rs1016730116 745 dbSNP
rs923036150 746 dbSNP
rs1005891279 748 dbSNP
rs1272015278 749 dbSNP
rs1373006563 762 dbSNP
rs532492859 763 dbSNP
rs1390191642 768 dbSNP
rs1227271269 769 dbSNP
rs971831635 781 dbSNP
rs1025515292 790 dbSNP
rs993485209 793 dbSNP
rs1205349051 795 dbSNP
rs961781805 807 dbSNP
rs896479908 808 dbSNP
rs1015975530 810 dbSNP
rs1202143838 813 dbSNP
rs1256766243 824 dbSNP
rs1424530532 830 dbSNP
rs1183077863 831 dbSNP
rs1383388366 832 dbSNP
rs565204466 833 dbSNP
rs984822413 837 dbSNP
rs1384585901 838 dbSNP
rs41280404 841 dbSNP
rs1460759126 844 dbSNP
rs1034986044 850 dbSNP
rs1293515595 853 dbSNP
rs182419981 854 dbSNP
rs1043933187 855 dbSNP
rs144469305 857 dbSNP
rs1294364899 858 dbSNP
rs373158284 858 dbSNP
rs1235125720 860 dbSNP
rs762544582 861 dbSNP
rs560910376 862 dbSNP
rs149246701 863 dbSNP
rs1431581590 868 dbSNP
rs893220160 869 dbSNP
rs1466292560 870 dbSNP
rs796420303 871 dbSNP
rs1191749005 877 dbSNP
rs1054464191 896 dbSNP
rs1419069148 896 dbSNP
rs1178712387 897 dbSNP
rs574977812 903 dbSNP
rs1469770875 909 dbSNP
rs1335286918 911 dbSNP
rs1390251142 913 dbSNP
rs780398864 915 dbSNP
rs756890889 916 dbSNP
rs1388084082 922 dbSNP
rs757441751 926 dbSNP
rs889054605 943 dbSNP
rs975572068 950 dbSNP
rs1483147615 952 dbSNP
rs374112958 960 dbSNP
rs1269909625 963 dbSNP
rs140338614 965 dbSNP
rs1230417057 967 dbSNP
rs933235488 973 dbSNP
rs1485019964 977 dbSNP
rs923130903 984 dbSNP
rs1036193209 997 dbSNP
rs1480295095 1001 dbSNP
rs909617200 1003 dbSNP
rs538846240 1020 dbSNP
rs542756076 1021 dbSNP
rs984012980 1026 dbSNP
rs763633046 1030 dbSNP
rs369876802 1039 dbSNP
rs1157739728 1041 dbSNP
rs1342886798 1043 dbSNP
rs1025547872 1046 dbSNP
rs1243902424 1050 dbSNP
rs1286781455 1059 dbSNP
rs1402867545 1060 dbSNP
rs1290202319 1061 dbSNP
rs1351051744 1068 dbSNP
rs1223082000 1072 dbSNP
rs1014099372 1073 dbSNP
rs960695918 1084 dbSNP
rs958591760 1085 dbSNP
rs1409604698 1090 dbSNP
rs1371397824 1092 dbSNP
rs1300176879 1094 dbSNP
rs1292771912 1100 dbSNP
rs926960513 1103 dbSNP
rs578225876 1113 dbSNP
rs41280402 1116 dbSNP
rs535279982 1118 dbSNP
rs1177084692 1126 dbSNP
rs1405224874 1137 dbSNP
rs1481350701 1158 dbSNP
rs1061859 1159 dbSNP
rs905313941 1164 dbSNP
rs1181110997 1168 dbSNP
rs1472827367 1177 dbSNP
rs1020450108 1183 dbSNP
rs1198410424 1190 dbSNP
rs1309631118 1190 dbSNP
rs1022782349 1194 dbSNP
rs1277666684 1199 dbSNP
rs371668773 1199 dbSNP
rs554269336 1199 dbSNP
rs1011101824 1201 dbSNP
rs1256022186 1213 dbSNP
rs1230084773 1215 dbSNP
rs879280246 1216 dbSNP
rs111909088 1227 dbSNP
rs368702396 1232 dbSNP
rs1287076788 1245 dbSNP
rs889809499 1249 dbSNP
rs1228152468 1259 dbSNP
rs1204489950 1264 dbSNP
rs1231669379 1266 dbSNP
rs1473526986 1268 dbSNP
rs1183684759 1274 dbSNP
rs934192671 1276 dbSNP
rs1384011458 1280 dbSNP
rs1442433041 1284 dbSNP
rs900847883 1285 dbSNP
rs1390614876 1288 dbSNP
rs1039406100 1289 dbSNP
rs942359131 1290 dbSNP
rs1326836644 1294 dbSNP
rs754860741 1295 dbSNP
rs1448576117 1296 dbSNP
rs1337505294 1302 dbSNP
rs1382063605 1305 dbSNP
rs1309384057 1307 dbSNP
rs1244117618 1309 dbSNP
rs909657500 1310 dbSNP
rs1378752010 1319 dbSNP
rs1340586844 1322 dbSNP
rs549365010 1324 dbSNP
rs997472730 1326 dbSNP
rs373369032 1334 dbSNP
rs115251193 1335 dbSNP
rs138190774 1336 dbSNP
rs992710111 1356 dbSNP
rs556890647 1358 dbSNP
rs908980667 1359 dbSNP
rs114598671 1361 dbSNP
rs368848312 1372 dbSNP
rs1185167946 1374 dbSNP
rs1426959872 1390 dbSNP
rs1414991652 1396 dbSNP
rs1422817641 1404 dbSNP
rs1405490697 1408 dbSNP
rs532214042 1409 dbSNP
rs1322873149 1411 dbSNP
rs1256427486 1415 dbSNP
rs565042235 1428 dbSNP
rs1268822656 1437 dbSNP
rs1184898105 1439 dbSNP
rs1347519468 1442 dbSNP
rs1034676746 1444 dbSNP
rs539046548 1451 dbSNP
rs146989764 1468 dbSNP
rs969780080 1475 dbSNP
rs767162212 1487 dbSNP
rs560755376 1489 dbSNP
rs1022386773 1491 dbSNP
rs1010956741 1495 dbSNP
rs1480622728 1501 dbSNP
rs1198687593 1502 dbSNP
rs1427099378 1503 dbSNP
rs988952602 1504 dbSNP
rs957513687 1507 dbSNP
rs542193874 1516 dbSNP
rs141233100 1517 dbSNP
rs563036947 1518 dbSNP
rs1316081417 1528 dbSNP
rs1333234652 1528 dbSNP
rs1400410529 1533 dbSNP
rs901447762 1533 dbSNP
rs1405914892 1554 dbSNP
rs148116168 1560 dbSNP
rs1454623429 1565 dbSNP
rs1040356474 1579 dbSNP
rs578112986 1596 dbSNP
rs1230729821 1602 dbSNP
rs553506857 1606 dbSNP
rs751269863 1607 dbSNP
rs1214442952 1613 dbSNP
rs759858329 1621 dbSNP
rs764349323 1623 dbSNP
rs1470232464 1628 dbSNP
rs1349303360 1630 dbSNP
rs954148812 1634 dbSNP
rs1353803078 1635 dbSNP
rs1291573101 1637 dbSNP
rs1490469126 1638 dbSNP
rs888073933 1639 dbSNP
rs1266427054 1640 dbSNP
rs1167740243 1642 dbSNP
rs1048164028 1646 dbSNP
rs1182379591 1652 dbSNP
rs34529973 1654 dbSNP
rs1419805035 1659 dbSNP
rs766372958 1665 dbSNP
rs998150773 1667 dbSNP
rs764409025 1671 dbSNP
rs901771809 1678 dbSNP
rs1349831922 1687 dbSNP
rs1185761859 1688 dbSNP
rs761148867 1692 dbSNP
rs1251180482 1693 dbSNP
rs1202545552 1698 dbSNP
rs1004784871 1699 dbSNP
rs1309325448 1700 dbSNP
rs775560608 1701 dbSNP
rs1245483468 1702 dbSNP
rs918324241 1704 dbSNP
rs1316919383 1708 dbSNP
rs1453044197 1709 dbSNP
rs767455524 1720 dbSNP
rs1372529359 1728 dbSNP
rs772404601 1730 dbSNP
rs1443817221 1733 dbSNP
rs992645136 1735 dbSNP
rs938516495 1736 dbSNP
rs1048877361 1743 dbSNP
rs1221228522 1746 dbSNP
rs1289352310 1746 dbSNP
rs1483902436 1759 dbSNP
rs1196354937 1760 dbSNP
rs1249732135 1765 dbSNP
rs535025760 1768 dbSNP
rs1188667697 1772 dbSNP
rs1387121222 1776 dbSNP
rs1445490125 1780 dbSNP
rs980393182 1781 dbSNP
rs905573780 1782 dbSNP
rs1045382093 1786 dbSNP
rs1299302178 1791 dbSNP
rs574261746 1792 dbSNP
rs567448773 1793 dbSNP
rs949692902 1796 dbSNP
rs1382824950 1799 dbSNP
rs117050535 1803 dbSNP
rs989048974 1805 dbSNP
rs1344138731 1806 dbSNP
rs989576861 1811 dbSNP
rs1250482216 1813 dbSNP
rs143732128 1823 dbSNP
rs537431294 1829 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 GSM1048188. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_ptb_knockdown ...

- 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' uuccaucuuucucCGGACu 5'
                       ||||| 
Target 5' -------------GCCUGu 3'
 		1 - 6
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 GSM1084043. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep2 HITS-CLIP data was present in GSM1084044. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep3 HITS-CLIP data was present in GSM1084046. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep4 HITS-CLIP data was present in GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4 HITS-CLIP data was present in GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb HITS-CLIP data was present in GSM1084067. RNA binding protein: AGO2. Condition:CLIP_emetine_SantaCruzAb HITS-CLIP data was present in GSM1084068. RNA binding protein: AGO2. Condition:CLIP_noemetine_SigmaAb HITS-CLIP data was present in GSM1084069. RNA binding protein: AGO2. Condition:CLIP_emetine_SigmaAb HITS-CLIP data was present in GSM1084072. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_AbnovaAb HITS-CLIP data was present in GSM1084073. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_AbnovaAb HITS-CLIP data was present in GSM1084076. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_SigmaAb HITS-CLIP data was present in GSM1084077. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_SigmaAb HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_AbnovaAb HITS-CLIP data was present in GSM1084083. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_SigmaAb ...

- 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 GSM4903831
Method / RBP HITS-CLIP / AGO
Cell line / Condition Human neurons / 124TD_shELAVL3_a
Location of target site NM_001114133 | 3UTR | CCUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161238
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1048188
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Hela / Hela_AGO2_CLIP_ptb_knockdown
Location of target site ENST00000372873.4 | 3UTR | GCCUGUGUGUGUGUGUGUGUGUGUGUGUGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23313552 / GSE42701
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM1084043
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep2
Location of target site ENST00000372873.4 | 3UTR | GCCUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1084044
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noarsenite_rep3
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1084046
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noarsenite_rep4
Location of target site ENST00000372873.4 | 3UTR | CUAGGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | UAGGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | CUAGGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM1084067
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_SantaCruzAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset GSM1084068
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_SigmaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 11 for dataset GSM1084069
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_SigmaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 12 for dataset GSM1084072
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep1_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 13 for dataset GSM1084073
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep1_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 14 for dataset GSM1084076
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep1_SigmaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 15 for dataset GSM1084077
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep1_SigmaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 16 for dataset GSM1084078
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 17 for dataset GSM1084079
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep2_AbnovaAb
Location of target site ENST00000372873.4 | 3UTR | CUAGGCCUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 18 for dataset GSM1084083
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep2_SigmaAb
Location of target site ENST00000372873.4 | 3UTR | GGCCUGUGUGUGUGUGUGUGUGUGU
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
62 hsa-miR-4650-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT064263 KIAA1804 mitogen-activated protein kinase kinase kinase 21 2 2
MIRT082508 CALM3 calmodulin 3 2 10
MIRT456061 SLC25A28 solute carrier family 25 member 28 2 2
MIRT463521 ZBTB7B zinc finger and BTB domain containing 7B 2 2
MIRT465449 TP53 tumor protein p53 2 2
MIRT469517 RBFOX2 RNA binding protein, fox-1 homolog 2 2 8
MIRT470967 PKM pyruvate kinase, muscle 2 2
MIRT471902 NUAK2 NUAK family kinase 2 2 2
MIRT479924 CBX5 chromobox 5 2 2
MIRT483045 C15orf52 chromosome 15 open reading frame 52 2 13
MIRT493184 MKNK2 MAP kinase interacting serine/threonine kinase 2 2 2
MIRT496615 IKZF2 IKAROS family zinc finger 2 2 2
MIRT496980 DNAJC27 DnaJ heat shock protein family (Hsp40) member C27 2 2
MIRT522489 MFSD9 major facilitator superfamily domain containing 9 2 2
MIRT527859 SMOC1 SPARC related modular calcium binding 1 2 2
MIRT528540 TTC22 tetratricopeptide repeat domain 22 2 2
MIRT528860 PKP1 plakophilin 1 2 2
MIRT529389 NSFL1C NSFL1 cofactor 2 2
MIRT533523 TRIM13 tripartite motif containing 13 2 2
MIRT538056 DNAH3 dynein axonemal heavy chain 3 2 2
MIRT541480 ARF3 ADP ribosylation factor 3 2 6
MIRT576737 Wars tryptophanyl-tRNA synthetase 2 2
MIRT610462 SYNPO2L synaptopodin 2 like 2 4
MIRT614189 GGT7 gamma-glutamyltransferase 7 2 2
MIRT626341 PCSK7 proprotein convertase subtilisin/kexin type 7 2 2
MIRT627547 SNIP1 Smad nuclear interacting protein 1 2 2
MIRT628605 TMEM251 transmembrane protein 251 2 2
MIRT630827 YTHDC1 YTH domain containing 1 2 4
MIRT633419 TMEM120B transmembrane protein 120B 2 2
MIRT635354 CSMD2 CUB and Sushi multiple domains 2 2 2
MIRT636418 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT637031 SPTLC3 serine palmitoyltransferase long chain base subunit 3 2 2
MIRT638032 TMEM109 transmembrane protein 109 2 2
MIRT642847 ZBTB7C zinc finger and BTB domain containing 7C 2 2
MIRT644389 CD59 CD59 molecule (CD59 blood group) 2 2
MIRT645167 NOL9 nucleolar protein 9 2 2
MIRT645601 MRPS15 mitochondrial ribosomal protein S15 2 2
MIRT649169 IQSEC1 IQ motif and Sec7 domain 1 2 2
MIRT659166 DCTN5 dynactin subunit 5 2 4
MIRT660814 AHCY adenosylhomocysteinase 2 2
MIRT663640 HM13 histocompatibility minor 13 2 2
MIRT663848 TRIM72 tripartite motif containing 72 2 2
MIRT666535 RNF157 ring finger protein 157 2 2
MIRT667885 IP6K1 inositol hexakisphosphate kinase 1 2 2
MIRT671613 C6orf25 megakaryocyte and platelet inhibitory receptor G6b 2 2
MIRT673800 MALL mal, T-cell differentiation protein like 2 2
MIRT676281 ZNF260 zinc finger protein 260 2 2
MIRT687008 RPL35 ribosomal protein L35 2 2
MIRT689090 ACVR1 activin A receptor type 1 2 2
MIRT689259 WDR83OS WD repeat domain 83 opposite strand 2 2
MIRT697458 ZC3H4 zinc finger CCCH-type containing 4 2 2
MIRT699223 SLCO3A1 solute carrier organic anion transporter family member 3A1 2 2
MIRT710222 JMJD4 jumonji domain containing 4 2 2
MIRT710935 ING5 inhibitor of growth family member 5 2 2
MIRT715830 ZNF598 zinc finger protein 598 2 2
MIRT716134 THOC5 THO complex 5 2 2
MIRT717518 HRNR hornerin 2 2
MIRT717918 LRRC15 leucine rich repeat containing 15 2 2
MIRT718307 XPOT exportin for tRNA 2 2
MIRT721350 LIF LIF, interleukin 6 family cytokine 2 2
MIRT724503 MSMO1 methylsterol monooxygenase 1 2 2
MIRT724993 FSTL3 follistatin like 3 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4650 Gemcitabine 60750 NSC613327 approved resistant Low Pancreatic Cancer cell line (SW1990)
hsa-miR-4650 Gemcitabine 60750 NSC613327 approved sensitive High Pancreatic Cancer cell line (SW1990)
hsa-miR-4650-5p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-4650-5p Tripterygium wilfordii Hook F resistant tissue

Error report submission