pre-miRNA Information
pre-miRNA hsa-mir-640   
Genomic Coordinates chr19: 19435063 - 19435158
Synonyms MIRN640, hsa-mir-640, MIR640
Description Homo sapiens miR-640 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-640
Sequence 61| AUGAUCCAGGAACCUGCCUCU |81
Evidence Experimental
Experiments RT-PCR
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN30153378 1 COSMIC
COSN23015356 12 COSMIC
COSN30513185 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs111726405 1 dbSNP
rs765622881 2 dbSNP
rs1249744889 6 dbSNP
rs752995186 12 dbSNP
rs758746736 13 dbSNP
rs918887970 19 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ZNF708   
Synonyms KOX8, ZNF15, ZNF15L1
Description zinc finger protein 708
Transcript NM_021269   
Expression
Putative miRNA Targets on ZNF708
3'UTR of ZNF708
(miRNA target sites are highlighted)
>ZNF708|NM_021269|3'UTR
   1 TGTGTCAAATCCTTTAGTGTATTTTCAACTTTTATTAAAACACAAGATAATTCATACTGGAGAGAAATCCTACAAATGTG
  81 ATAAATGTGGCAAAGCCTTTAACTGGCTCTTAATCCTTATGAAACAAAAGATAATTCATACTAGAGAGAAACCCTACAAA
 161 TGTAAAGAATGTGGCAAAGCATTTAACTGGTCCCTAAATCTTACTAAACATAAAAAAACTTAAACTGGAGAGAAACTACA
 241 AAGCTGGAAGACATCACAGTAATTCTGACAACACCTCAAACTTTTCTAAACATAAAATAAATCATACTGGTGAGGAACTT
 321 TAAAAATGCGAAAAATGTGACAAAATCTTTAAATGATTGTCACACTTGATTGTAGGTAAGATAATTCTTACTAGAAAAAC
 401 TCTTACAAGTGTGAAGAATGTGGCAAAATTTTTAATGAATACTCACACCTTATTGCCAGGAAAGCATTTATACTTGAGAA
 481 AAATTGTACCAATATAAAGACTGTGAAAAAGCCATTAATGTCTGCTCACATCTTACTCAACATCAGAGAGTACTTAAAAA
 561 AAGTATTATAAATTTAATTACTGTCAAAAAGTATTTCAGAAAATATAAGCTTTTAAAGTATTTATTTTGAAGACAAACAT
 641 TACAAATAAAAGAGGATTGTAATACCTTTATTTGTATCACAGATCTTATTGTACACATTTTGTACTAGAGAAAACCCTGA
 721 AGCAGTTACTTAAACTTTGTTCAACATCAGGGAATTCAGATTGGAGAAAAACCCTGCAAATGTAATAAATTTGAAAAAAA
 801 AGTTTTCCAAAACTACAACTTAGACAACACCAGAGGGTTCATACTGAGATATATTTTTGCAGATGCAGTATATATTTAAA
 881 ACATTTAATCCAAAATAAGTCTATGTAAATATCAGAGAATTCACAGTGGAAATATCTAAGGTAGGGCCGGGCATGGTGGC
 961 TCACGCCTGTAATGCCAGCACTTTGGGAGGCTGAGGTGGGCAGATCATGAGGTCAACAGATTGAGACCATCCTGGTCAAC
1041 ATGGTAAAACCCTGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTGGCGGCACGTGCCTGTAGTCTCAGCTACTTGGG
1121 ACGCTGAGGCAGGAAAATCCGTTGAACCCAGGAGGCAGAGGTTGTAGTGAGCCGAGATTGCACCACTGCACTCCAGCCGG
1201 GTGACAGAGTGAGACTCCATCTCAAAAACAAACAAACTAAGGTATGGATGCTTCAGACATTACACTATATCAAAGTGCTG
1281 ACTGTTAAAAATGATCCCAAACTAACGGTAGATAAATTTATTTGTACATAACTTTAAAAGGAGTAGAAGATTTTTTGGAA
1361 GTTTGTAATTACATTCAAAGTATACTTTTTTTGTTTGTTTGTTTTCCTTGAGACAGAGTCTCTCTCTGTCGTCCAGGCTG
1441 GAGTGCAGTGGCACAATCTCAGCTCGCTGCAACCTCTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTACTGAGT
1521 AGCTGAGATTACAGGTGCACACCACCACGTCCGGCTGACTTTTGTATTTTTAGTAGGGACGGGGTTTCACCATATTGGTC
1601 AGGGTAGTCTTGAACTCCTGACCTCATGCTCTGCCCAGCTTGGCTTCCCAAAGTGCTGTGATTACAGGCTTAAGCCACAG
1681 CGCCCGGCCCAAAGTGTTCTTTTTTCCTTGAAAAGAAGTACAGATTTTTTAAAAAGCTAATATTGCTGTGATTCAACTCT
1761 CTAGTTACTTGATGCTATTTCTTCATTTCTATTGTATTCACATGTGAAAGCATGTGATCAGTTGTCACGGCATCAAAGAT
1841 AGGAGAGTTTCTTTTTTTTTAGGTGGGCATTATTTATGACCTTTTCTTTGGAAGAGTAAGGACATTAAAATGTAACATGC
1921 ATGATGAAAATCTAAGTGGAGATGGTATTTGTGGTTAATTATGATATTGAGTGGTGCATGAGGTAGGTGTTTAGAGTAAT
2001 ATTCTTTTGCATTATAGTAAGAACATTTAAGTTTTGTTAAAATTAAAAAATTAGTACGTTATTTTACTATTTGTACTTTT
2081 ATGTAATAAAATGCAGTACATTTTTAAATTTTC
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' ucUCC--GUCC-AAGGACCUAGUa 5'
            |||  |:||  |  ||| ||| 
Target 5' gtAGGGCCGGGCATGGTGGCTCAc 3'
941 - 964 117.00 -12.00
2
miRNA  3' ucUCCGUCCAAGGAC-CUAGUa 5'
            :|||| | || || |:||| 
Target 5' gtGGGCA-GATCATGAGGTCAa 3'
996 - 1016 114.00 -13.30
3
miRNA  3' ucuccguccaaGGAC-CUAGUa 5'
                     | || ||||| 
Target 5' acatgtgaaagCATGTGATCAg 3'
1800 - 1821 110.00 -8.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN29461212 5 COSMIC
COSN31497833 13 COSMIC
COSN30498756 24 COSMIC
COSN30458245 69 COSMIC
COSN31581739 72 COSMIC
COSN30128956 75 COSMIC
COSN27006439 82 COSMIC
COSN27006438 83 COSMIC
COSN8257298 94 COSMIC
COSN30541835 115 COSMIC
COSN30527585 129 COSMIC
COSN8605327 130 COSMIC
COSN27006437 143 COSMIC
COSN31505441 155 COSMIC
COSN30114962 211 COSMIC
COSN30474632 212 COSMIC
COSN31521328 235 COSMIC
COSN28690895 282 COSMIC
COSN31996565 532 COSMIC
COSN1762779 581 COSMIC
COSN8552270 771 COSMIC
COSN27137712 964 COSMIC
COSN28357564 974 COSMIC
COSN24902808 1036 COSMIC
COSN7118169 1141 COSMIC
COSN16718294 1493 COSMIC
COSN16447642 1693 COSMIC
COSN15150858 1723 COSMIC
COSN29679511 1852 COSMIC
COSN20115630 2051 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1459107255 2 dbSNP
rs1296302462 5 dbSNP
rs1399288210 8 dbSNP
rs759200177 9 dbSNP
rs1304715616 10 dbSNP
rs1456126823 12 dbSNP
rs1019424636 19 dbSNP
rs181100343 26 dbSNP
rs374803496 28 dbSNP
rs746471956 31 dbSNP
rs778394299 32 dbSNP
rs1193642888 36 dbSNP
rs371204394 37 dbSNP
rs368086999 39 dbSNP
rs779133798 41 dbSNP
rs553780567 44 dbSNP
rs1348477869 46 dbSNP
rs780385540 47 dbSNP
rs533868517 50 dbSNP
rs994762612 60 dbSNP
rs79205479 62 dbSNP
rs189532403 72 dbSNP
rs1323355866 73 dbSNP
rs1248364176 77 dbSNP
rs1289881717 82 dbSNP
rs769317696 91 dbSNP
rs948790275 93 dbSNP
rs1205993843 103 dbSNP
rs1225190097 106 dbSNP
rs917436135 120 dbSNP
rs925263935 123 dbSNP
rs551582864 128 dbSNP
rs1228846162 132 dbSNP
rs143269680 134 dbSNP
rs775646551 135 dbSNP
rs1169915517 141 dbSNP
rs1352324522 142 dbSNP
rs772643384 143 dbSNP
rs1345762647 146 dbSNP
rs1380998078 151 dbSNP
rs1450211303 154 dbSNP
rs1230951926 155 dbSNP
rs924845768 162 dbSNP
rs375087864 164 dbSNP
rs978429446 171 dbSNP
rs975775364 172 dbSNP
rs947006852 174 dbSNP
rs1389695095 181 dbSNP
rs1204353256 183 dbSNP
rs1168247447 210 dbSNP
rs549016806 213 dbSNP
rs1182103068 219 dbSNP
rs1421373880 219 dbSNP
rs184160345 223 dbSNP
rs139345174 226 dbSNP
rs1269883728 228 dbSNP
rs975182593 248 dbSNP
rs986300494 254 dbSNP
rs781176955 260 dbSNP
rs115298258 271 dbSNP
rs1176642591 291 dbSNP
rs1360858034 295 dbSNP
rs1450053334 302 dbSNP
rs1335813298 303 dbSNP
rs1389178385 304 dbSNP
rs114881279 305 dbSNP
rs994160575 308 dbSNP
rs897803832 318 dbSNP
rs1302122498 321 dbSNP
rs192657519 324 dbSNP
rs1342169393 328 dbSNP
rs544370999 329 dbSNP
rs575762098 330 dbSNP
rs1465635653 336 dbSNP
rs1014336171 339 dbSNP
rs1240026705 340 dbSNP
rs1026874454 341 dbSNP
rs1474772764 342 dbSNP
rs894588297 346 dbSNP
rs1430852266 352 dbSNP
rs994819557 353 dbSNP
rs1433894836 354 dbSNP
rs2997224 362 dbSNP
rs1022910547 366 dbSNP
rs1412346189 368 dbSNP
rs542159870 371 dbSNP
rs1320476523 372 dbSNP
rs1343682165 388 dbSNP
rs895897175 391 dbSNP
rs1430342529 399 dbSNP
rs1294181880 400 dbSNP
rs1392914266 419 dbSNP
rs1222150749 422 dbSNP
rs868092865 429 dbSNP
rs779651113 436 dbSNP
rs903687451 436 dbSNP
rs575933247 449 dbSNP
rs1330522639 452 dbSNP
rs1225866445 455 dbSNP
rs1043626386 458 dbSNP
rs771042227 460 dbSNP
rs945298540 474 dbSNP
rs913553905 475 dbSNP
rs1430123181 476 dbSNP
rs749350613 483 dbSNP
rs903446032 488 dbSNP
rs1174368298 503 dbSNP
rs1252475927 506 dbSNP
rs1471014560 514 dbSNP
rs944454824 517 dbSNP
rs910333934 519 dbSNP
rs368133511 527 dbSNP
rs952210105 536 dbSNP
rs1028258630 547 dbSNP
rs972314934 550 dbSNP
rs1303035026 552 dbSNP
rs1288949590 555 dbSNP
rs1351610161 556 dbSNP
rs962638167 558 dbSNP
rs1278131370 563 dbSNP
rs1350493687 563 dbSNP
rs947599854 563 dbSNP
rs1024294392 567 dbSNP
rs1293505546 567 dbSNP
rs1377283447 571 dbSNP
rs920959528 574 dbSNP
rs1014304913 589 dbSNP
rs1182996949 591 dbSNP
rs894556890 595 dbSNP
rs1439481974 604 dbSNP
rs1179661449 606 dbSNP
rs1459327664 610 dbSNP
rs975074068 616 dbSNP
rs1184390404 618 dbSNP
rs1387350113 645 dbSNP
rs1423020914 649 dbSNP
rs1162986701 653 dbSNP
rs598959 656 dbSNP
rs1327440519 657 dbSNP
rs1335482609 659 dbSNP
rs537034763 674 dbSNP
rs912280226 683 dbSNP
rs553475653 689 dbSNP
rs775410342 698 dbSNP
rs1380078372 707 dbSNP
rs983035445 716 dbSNP
rs1274727825 737 dbSNP
rs1043980732 739 dbSNP
rs1193947967 739 dbSNP
rs951224911 743 dbSNP
rs1442748667 747 dbSNP
rs892420146 749 dbSNP
rs1040007550 761 dbSNP
rs1442994089 766 dbSNP
rs1781871 778 dbSNP
rs7246339 779 dbSNP
rs1279702508 786 dbSNP
rs557905957 788 dbSNP
rs1374318241 790 dbSNP
rs1330391283 794 dbSNP
rs1166609963 796 dbSNP
rs969270410 801 dbSNP
rs1050160855 802 dbSNP
rs930404647 802 dbSNP
rs780794548 806 dbSNP
rs1408193383 810 dbSNP
rs1295871636 816 dbSNP
rs1336322934 819 dbSNP
rs1224651146 829 dbSNP
rs754989868 831 dbSNP
rs1269120980 833 dbSNP
rs920761430 835 dbSNP
rs537998160 836 dbSNP
rs1261015299 837 dbSNP
rs1460707881 838 dbSNP
rs1203205677 840 dbSNP
rs1262718604 850 dbSNP
rs1412770648 853 dbSNP
rs1191070152 863 dbSNP
rs972666451 866 dbSNP
rs1022959664 872 dbSNP
rs1159318480 872 dbSNP
rs1441961339 873 dbSNP
rs1378894808 876 dbSNP
rs1481049296 880 dbSNP
rs751585867 886 dbSNP
rs568960802 888 dbSNP
rs1427571225 890 dbSNP
rs895893851 898 dbSNP
rs1289046362 899 dbSNP
rs917540292 900 dbSNP
rs1380221366 901 dbSNP
rs1317007238 903 dbSNP
rs1345666165 926 dbSNP
rs1225194272 932 dbSNP
rs1281311598 933 dbSNP
rs189427913 935 dbSNP
rs1228806762 936 dbSNP
rs184676776 943 dbSNP
rs1353081919 946 dbSNP
rs958656730 948 dbSNP
rs999448198 949 dbSNP
rs1490538978 952 dbSNP
rs1202168527 955 dbSNP
rs1267424437 956 dbSNP
rs566791876 964 dbSNP
rs192140993 965 dbSNP
rs1365973234 968 dbSNP
rs533176028 981 dbSNP
rs1451174453 983 dbSNP
rs1157637122 987 dbSNP
rs1365596424 990 dbSNP
rs903374968 1005 dbSNP
rs1406266970 1016 dbSNP
rs1301169127 1027 dbSNP
rs1043233735 1028 dbSNP
rs187221407 1029 dbSNP
rs1308337935 1040 dbSNP
rs878915331 1046 dbSNP
rs796083763 1052 dbSNP
rs550667355 1053 dbSNP
rs1040226608 1054 dbSNP
rs1285611068 1061 dbSNP
rs865843302 1067 dbSNP
rs1314990863 1068 dbSNP
rs1360211936 1068 dbSNP
rs1224778962 1069 dbSNP
rs1396899380 1076 dbSNP
rs1445943729 1076 dbSNP
rs1339908537 1085 dbSNP
rs900047776 1086 dbSNP
rs1253014690 1088 dbSNP
rs1417717555 1090 dbSNP
rs531084796 1091 dbSNP
rs566087555 1093 dbSNP
rs1358839893 1095 dbSNP
rs562136934 1096 dbSNP
rs1426202353 1097 dbSNP
rs1008790264 1107 dbSNP
rs1158488178 1109 dbSNP
rs888756510 1111 dbSNP
rs1364471283 1114 dbSNP
rs766395338 1122 dbSNP
rs1050545382 1123 dbSNP
rs1370848859 1124 dbSNP
rs1390640407 1127 dbSNP
rs943690137 1128 dbSNP
rs542447610 1130 dbSNP
rs1383771687 1140 dbSNP
rs1248519031 1141 dbSNP
rs28688205 1141 dbSNP
rs1046837128 1142 dbSNP
rs1036526141 1148 dbSNP
rs929704843 1155 dbSNP
rs1479839374 1156 dbSNP
rs749943898 1160 dbSNP
rs373113613 1163 dbSNP
rs919795426 1173 dbSNP
rs866785976 1174 dbSNP
rs2992091 1178 dbSNP
rs1446067499 1180 dbSNP
rs1195198784 1190 dbSNP
rs917425836 1193 dbSNP
rs1384019698 1195 dbSNP
rs764943955 1197 dbSNP
rs1428621576 1198 dbSNP
rs1284783191 1199 dbSNP
rs1352663647 1202 dbSNP
rs916462303 1204 dbSNP
rs1337135232 1215 dbSNP
rs991909987 1225 dbSNP
rs1408113735 1229 dbSNP
rs1454722378 1233 dbSNP
rs958972062 1238 dbSNP
rs761310989 1239 dbSNP
rs1215269630 1241 dbSNP
rs1297862166 1241 dbSNP
rs775942523 1241 dbSNP
rs750000083 1246 dbSNP
rs927259783 1252 dbSNP
rs145809204 1255 dbSNP
rs998976586 1265 dbSNP
rs967446361 1267 dbSNP
rs1486014027 1269 dbSNP
rs764854684 1271 dbSNP
rs1021805935 1272 dbSNP
rs968821997 1273 dbSNP
rs1278976427 1275 dbSNP
rs1401914489 1280 dbSNP
rs1427848734 1295 dbSNP
rs1011718913 1306 dbSNP
rs1455701409 1307 dbSNP
rs1010320627 1316 dbSNP
rs900098681 1318 dbSNP
rs1334918517 1328 dbSNP
rs577724511 1349 dbSNP
rs1431806931 1351 dbSNP
rs141944629 1360 dbSNP
rs1360036617 1361 dbSNP
rs767736969 1365 dbSNP
rs890828156 1372 dbSNP
rs1326052194 1373 dbSNP
rs1222032342 1376 dbSNP
rs1278421310 1377 dbSNP
rs1405357022 1384 dbSNP
rs1420844432 1389 dbSNP
rs1047164004 1392 dbSNP
rs1487685311 1393 dbSNP
rs1476523852 1395 dbSNP
rs1262053949 1403 dbSNP
rs1199648424 1405 dbSNP
rs1270997230 1407 dbSNP
rs1008757800 1412 dbSNP
rs929782996 1424 dbSNP
rs543970079 1426 dbSNP
rs1161558508 1428 dbSNP
rs144961826 1431 dbSNP
rs555254264 1432 dbSNP
rs898840520 1445 dbSNP
rs1347916264 1450 dbSNP
rs756952528 1457 dbSNP
rs940440401 1460 dbSNP
rs535666875 1461 dbSNP
rs566625490 1465 dbSNP
rs947859255 1466 dbSNP
rs183369901 1478 dbSNP
rs1057342513 1482 dbSNP
rs371217744 1486 dbSNP
rs12984321 1488 dbSNP
rs1293374568 1496 dbSNP
rs1308070586 1499 dbSNP
rs1233175572 1505 dbSNP
rs937572952 1514 dbSNP
rs927568033 1529 dbSNP
rs979044007 1535 dbSNP
rs1220556934 1548 dbSNP
rs992112198 1552 dbSNP
rs539404141 1553 dbSNP
rs928685396 1557 dbSNP
rs1323498320 1561 dbSNP
rs1355431707 1564 dbSNP
rs774890894 1564 dbSNP
rs1220073562 1566 dbSNP
rs1375661206 1568 dbSNP
rs1369987595 1574 dbSNP
rs1292218551 1580 dbSNP
rs967464192 1581 dbSNP
rs570513048 1596 dbSNP
rs1021689982 1602 dbSNP
rs1355639522 1618 dbSNP
rs1011771002 1623 dbSNP
rs771418559 1625 dbSNP
rs964230307 1633 dbSNP
rs1273654756 1639 dbSNP
rs965465675 1658 dbSNP
rs550605952 1661 dbSNP
rs1333901817 1662 dbSNP
rs1202157085 1668 dbSNP
rs530898624 1676 dbSNP
rs1439315367 1677 dbSNP
rs1184450318 1678 dbSNP
rs1387109709 1681 dbSNP
rs1422348731 1682 dbSNP
rs1176490641 1685 dbSNP
rs891370977 1686 dbSNP
rs8112775 1687 dbSNP
rs1329706530 1696 dbSNP
rs1400105654 1706 dbSNP
rs1452827336 1707 dbSNP
rs1190410217 1713 dbSNP
rs1379877187 1720 dbSNP
rs993758446 1723 dbSNP
rs150315400 1724 dbSNP
rs1341372397 1730 dbSNP
rs1212805337 1739 dbSNP
rs111651784 1749 dbSNP
rs994768435 1756 dbSNP
rs1196631353 1757 dbSNP
rs489845 1762 dbSNP
rs1245238326 1764 dbSNP
rs895012176 1767 dbSNP
rs1186901043 1768 dbSNP
rs1056692340 1772 dbSNP
rs192594092 1773 dbSNP
rs939321449 1774 dbSNP
rs923820672 1782 dbSNP
rs1476670270 1789 dbSNP
rs1234050794 1790 dbSNP
rs1014619952 1801 dbSNP
rs532903506 1805 dbSNP
rs946006985 1806 dbSNP
rs564062365 1824 dbSNP
rs1318401347 1828 dbSNP
rs2928190 1828 dbSNP
rs1428487671 1829 dbSNP
rs11542488 1839 dbSNP
rs767976992 1842 dbSNP
rs964120057 1845 dbSNP
rs1323944602 1846 dbSNP
rs188210297 1859 dbSNP
rs1343117198 1861 dbSNP
rs1400189065 1861 dbSNP
rs1043675483 1864 dbSNP
rs987336368 1881 dbSNP
rs947673976 1891 dbSNP
rs1302985176 1892 dbSNP
rs1467068376 1901 dbSNP
rs488125 1903 dbSNP
rs988799095 1904 dbSNP
rs1202027383 1918 dbSNP
rs1465174466 1929 dbSNP
rs377351660 1942 dbSNP
rs487991 1945 dbSNP
rs151184464 1963 dbSNP
rs1417357966 1971 dbSNP
rs1297090002 1977 dbSNP
rs898188401 1992 dbSNP
rs1346042871 1996 dbSNP
rs1016541405 1997 dbSNP
rs1011985728 1998 dbSNP
rs1439082219 1999 dbSNP
rs1261551440 2006 dbSNP
rs894884268 2016 dbSNP
rs953295367 2017 dbSNP
rs1243608888 2025 dbSNP
rs1056302243 2034 dbSNP
rs1028844221 2035 dbSNP
rs1285474370 2046 dbSNP
rs1484249680 2046 dbSNP
rs973700840 2047 dbSNP
rs1202232573 2048 dbSNP
rs1254520310 2049 dbSNP
rs200190623 2051 dbSNP
rs142936365 2054 dbSNP
rs138452031 2056 dbSNP
rs1157512213 2057 dbSNP
rs3051927 2057 dbSNP
rs79406182 2057 dbSNP
rs552799540 2058 dbSNP
rs939153992 2059 dbSNP
rs1291727238 2062 dbSNP
rs1288669411 2070 dbSNP
rs902447828 2072 dbSNP
rs1042351406 2073 dbSNP
rs1391789892 2075 dbSNP
rs1308928293 2092 dbSNP
rs1379367495 2096 dbSNP
rs1035399025 2099 dbSNP
rs111928703 2105 dbSNP
rs1001300529 2107 dbSNP
Experimental Support 1 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 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ucUCCG--UCCAAGGACCUAGUa 5'
            ||||  ||||   ||||||| 
Target 5' ggAGGCUGAGGUGGGUGGAUCAc 3'
2 - 24
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 GSM1084043
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep2
Location of target site ENST00000356929.3 | 3UTR | GGGAGGCUGAGGUGGGUGGAUCACCUGAGGUCAGGAG
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
GSE19350 CNS germ cell tumors -0.584 2.3e-2 0.168 3.0e-1 12 Click to see details
GSE27834 Pluripotent stem cells -0.481 3.0e-2 -0.350 9.2e-2 16 Click to see details
GSE19783 ER- ER- breast cancer 0.196 4.2e-2 0.095 2.0e-1 79 Click to see details
GSE28260 Renal cortex and medulla 0.497 4.2e-2 0.573 2.0e-2 13 Click to see details
GSE19536 Breast cancer 0.165 5.0e-2 0.136 8.9e-2 100 Click to see details
GSE17306 Multiple myeloma -0.217 6.7e-2 -0.084 2.8e-1 49 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.265 1.0e-1 0.198 1.7e-1 25 Click to see details
GSE38226 Liver fibrosis 0.274 1.1e-1 -0.185 2.1e-1 21 Click to see details
GSE28544 Breast cancer 0.24 1.3e-1 0.351 4.6e-2 24 Click to see details
GSE19783 ER+ ER+ breast cancer -0.174 2.3e-1 -0.075 3.8e-1 20 Click to see details
GSE35602 Colorectal cancer stromal tissue -0.149 2.4e-1 -0.043 4.2e-1 25 Click to see details
GSE26953 Aortic valvular endothelial cells 0.095 3.3e-1 0.052 4.0e-1 24 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis -0.071 3.8e-1 -0.191 2.1e-1 20 Click to see details
GSE21687 Ependynoma primary tumors 0.017 4.5e-1 0.112 1.9e-1 64 Click to see details
GSE14794 Lymphoblastoid cells 0.013 4.5e-1 0.078 2.3e-1 90 Click to see details
GSE21849 B cell lymphoma -0.014 4.7e-1 -0.215 1.3e-1 29 Click to see details
GSE42095 Differentiated embryonic stem cells -0.007 4.9e-1 0.000 5.0e-1 23 Click to see details
GSE32688 Pancreatic cancer -0.005 4.9e-1 -0.125 2.5e-1 32 Click to see details
GSE32688 Pancreatic cancer -0.005 4.9e-1 -0.125 2.5e-1 32 Click to see details
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
194 hsa-miR-640 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT097121 TNPO1 transportin 1 2 2
MIRT115090 ARIH1 ariadne RBR E3 ubiquitin protein ligase 1 2 4
MIRT204603 HSPE1-MOB4 HSPE1-MOB4 readthrough 2 8
MIRT204634 MOB4 MOB family member 4, phocein 2 8
MIRT344451 MTRNR2L1 MT-RNR2-like 1 2 2
MIRT405772 EIF5 eukaryotic translation initiation factor 5 2 2
MIRT445876 SENP6 SUMO1/sentrin specific peptidase 6 2 2
MIRT497418 FAM46A family with sequence similarity 46 member A 2 2
MIRT504394 HMX2 H6 family homeobox 2 2 4
MIRT504691 SLCO2B1 solute carrier organic anion transporter family member 2B1 2 8
MIRT512386 MTRNR2L3 MT-RNR2-like 3 2 6
MIRT513003 MAN1A2 mannosidase alpha class 1A member 2 2 2
MIRT513084 USP9X ubiquitin specific peptidase 9, X-linked 2 2
MIRT519122 ALDH2 aldehyde dehydrogenase 2 family (mitochondrial) 2 2
MIRT523836 F2RL1 F2R like trypsin receptor 1 2 2
MIRT565356 TMCC1 transmembrane and coiled-coil domain family 1 2 2
MIRT575895 Dis3 DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease 2 3
MIRT576894 Poteg POTE ankyrin domain family, member G 2 2
MIRT613780 RPS6 ribosomal protein S6 2 2
MIRT613934 POLR3A RNA polymerase III subunit A 2 2
MIRT614348 LOH12CR1 BLOC-1 related complex subunit 5 2 2
MIRT614534 NOA1 nitric oxide associated 1 2 2
MIRT617019 ZBTB8B zinc finger and BTB domain containing 8B 2 2
MIRT618247 MANEAL mannosidase endo-alpha like 2 2
MIRT619051 TTC4 tetratricopeptide repeat domain 4 2 2
MIRT619442 ZNF517 zinc finger protein 517 2 2
MIRT619723 FPR2 formyl peptide receptor 2 2 2
MIRT620179 TRIM72 tripartite motif containing 72 2 2
MIRT620370 ANKRD62 ankyrin repeat domain 62 2 2
MIRT621263 RTN2 reticulon 2 2 2
MIRT621463 APOH apolipoprotein H 2 2
MIRT621571 ZBTB43 zinc finger and BTB domain containing 43 2 2
MIRT621683 TSPYL1 TSPY like 1 2 2
MIRT622866 PDE7A phosphodiesterase 7A 2 2
MIRT624669 ARHGEF39 Rho guanine nucleotide exchange factor 39 2 2
MIRT625607 ZNF84 zinc finger protein 84 2 2
MIRT626111 IL23R interleukin 23 receptor 2 2
MIRT628380 CACNB2 calcium voltage-gated channel auxiliary subunit beta 2 2 2
MIRT628553 MELK maternal embryonic leucine zipper kinase 2 2
MIRT628671 C2orf72 chromosome 2 open reading frame 72 2 2
MIRT628747 TRPV2 transient receptor potential cation channel subfamily V member 2 2 2
MIRT628776 TMEM154 transmembrane protein 154 2 2
MIRT628918 ZNF430 zinc finger protein 430 2 2
MIRT629174 ALDOA aldolase, fructose-bisphosphate A 2 2
MIRT629209 C12orf66 chromosome 12 open reading frame 66 2 2
MIRT629267 SLC5A8 solute carrier family 5 member 8 2 2
MIRT629498 AS3MT arsenite methyltransferase 2 2
MIRT629665 USP1 ubiquitin specific peptidase 1 2 2
MIRT629760 STK25 serine/threonine kinase 25 2 2
MIRT630899 GATAD1 GATA zinc finger domain containing 1 2 2
MIRT631105 SLC15A2 solute carrier family 15 member 2 2 2
MIRT631112 ATCAY ATCAY, caytaxin 2 2
MIRT631450 DLEU1 deleted in lymphocytic leukemia 1 (non-protein coding) 2 2
MIRT631505 FFAR4 free fatty acid receptor 4 2 2
MIRT631580 ITGAL integrin subunit alpha L 2 2
MIRT631836 CMBL carboxymethylenebutenolidase homolog 2 2
MIRT632342 SWSAP1 SWIM-type zinc finger 7 associated protein 1 2 2
MIRT633214 ZNF584 zinc finger protein 584 2 2
MIRT633223 ZNF43 zinc finger protein 43 2 2
MIRT633480 ARIH2OS ariadne RBR E3 ubiquitin protein ligase 2 opposite strand 2 2
MIRT633511 LRRC27 leucine rich repeat containing 27 2 2
MIRT633615 CWF19L1 CWF19 like 1, cell cycle control (S. pombe) 2 2
MIRT633652 SLC28A1 solute carrier family 28 member 1 2 2
MIRT633677 ZNF576 zinc finger protein 576 2 2
MIRT634196 TMOD2 tropomodulin 2 2 4
MIRT634388 PLSCR1 phospholipid scramblase 1 2 2
MIRT635817 OPA3 OPA3, outer mitochondrial membrane lipid metabolism regulator 2 2
MIRT635962 TTC31 tetratricopeptide repeat domain 31 2 2
MIRT636114 YPEL1 yippee like 1 2 2
MIRT636164 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT636768 CLUAP1 clusterin associated protein 1 2 2
MIRT637092 CXorf23 BCLAF1 and THRAP3 family member 3 2 2
MIRT637316 FAM9B family with sequence similarity 9 member B 2 2
MIRT637540 CHST6 carbohydrate sulfotransferase 6 2 2
MIRT637628 ZNF431 zinc finger protein 431 2 2
MIRT637826 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT637945 IVD isovaleryl-CoA dehydrogenase 2 2
MIRT637968 IRF1 interferon regulatory factor 1 2 2
MIRT638321 RNF11 ring finger protein 11 2 2
MIRT638386 RAB11FIP1 RAB11 family interacting protein 1 2 2
MIRT639244 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT642608 APOPT1 apoptogenic 1, mitochondrial 2 2
MIRT642793 SLC1A5 solute carrier family 1 member 5 2 2
MIRT643847 LACTB lactamase beta 2 4
MIRT644705 ZNF321P zinc finger protein 321, pseudogene 2 2
MIRT645148 DIS3 DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease 2 3
MIRT646671 CCDC69 coiled-coil domain containing 69 2 2
MIRT647780 ASB8 ankyrin repeat and SOCS box containing 8 2 2
MIRT648554 WDR92 WD repeat domain 92 2 2
MIRT648990 MRPL49 mitochondrial ribosomal protein L49 2 2
MIRT649099 KCNMB1 potassium calcium-activated channel subfamily M regulatory beta subunit 1 2 2
MIRT650141 ZNF426 zinc finger protein 426 2 2
MIRT650791 GSR glutathione-disulfide reductase 2 2
MIRT654967 PLEKHA2 pleckstrin homology domain containing A2 2 2
MIRT655099 PHLDA3 pleckstrin homology like domain family A member 3 2 2
MIRT655516 PAG1 phosphoprotein membrane anchor with glycosphingolipid microdomains 1 2 2
MIRT656289 METTL14 methyltransferase like 14 2 2
MIRT656497 MAP3K9 mitogen-activated protein kinase kinase kinase 9 2 2
MIRT657074 JPH2 junctophilin 2 2 2
MIRT657314 HOOK3 hook microtubule tethering protein 3 2 2
MIRT657419 HIF1AN hypoxia inducible factor 1 alpha subunit inhibitor 2 4
MIRT659032 DHTKD1 dehydrogenase E1 and transketolase domain containing 1 2 2
MIRT659535 CHCHD5 coiled-coil-helix-coiled-coil-helix domain containing 5 2 2
MIRT661532 NWD1 NACHT and WD repeat domain containing 1 2 2
MIRT662029 FUT2 fucosyltransferase 2 2 2
MIRT663206 DARS2 aspartyl-tRNA synthetase 2, mitochondrial 2 2
MIRT663357 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT663557 CCR6 C-C motif chemokine receptor 6 2 2
MIRT663650 POLM DNA polymerase mu 2 2
MIRT663694 ABHD17B abhydrolase domain containing 17B 2 2
MIRT664370 CYB5A cytochrome b5 type A 2 2
MIRT664783 LIAS lipoic acid synthetase 2 4
MIRT665561 TXNL1 thioredoxin like 1 2 2
MIRT665950 TAOK1 TAO kinase 1 2 2
MIRT667338 MSANTD3 Myb/SANT DNA binding domain containing 3 2 2
MIRT667804 ITIH5 inter-alpha-trypsin inhibitor heavy chain family member 5 2 2
MIRT668804 CYP20A1 cytochrome P450 family 20 subfamily A member 1 2 2
MIRT669470 ARPC2 actin related protein 2/3 complex subunit 2 2 2
MIRT669599 AGO3 argonaute 3, RISC catalytic component 2 2
MIRT669806 STOML1 stomatin like 1 2 2
MIRT669944 FBXL2 F-box and leucine rich repeat protein 2 2 2
MIRT670292 RBBP4 RB binding protein 4, chromatin remodeling factor 2 2
MIRT670381 EMP2 epithelial membrane protein 2 2 2
MIRT670481 DCUN1D2 defective in cullin neddylation 1 domain containing 2 2 2
MIRT670531 KIF1C kinesin family member 1C 2 4
MIRT670565 GLTP glycolipid transfer protein 2 2
MIRT670603 NPHP1 nephrocystin 1 2 2
MIRT670880 CYTIP cytohesin 1 interacting protein 2 2
MIRT670931 LIPG lipase G, endothelial type 2 2
MIRT671261 MTRNR2L5 MT-RNR2-like 5 2 2
MIRT671794 FLVCR1 feline leukemia virus subgroup C cellular receptor 1 2 2
MIRT671897 GBP4 guanylate binding protein 4 2 2
MIRT672000 SLC35F6 solute carrier family 35 member F6 2 4
MIRT672074 KIR3DX1 killer cell immunoglobulin like receptor, three Ig domains X1 2 2
MIRT672319 C9orf3 chromosome 9 open reading frame 3 2 2
MIRT672853 C22orf29 retrotransposon Gag like 10 2 2
MIRT673395 WNT7B Wnt family member 7B 2 2
MIRT673537 DEGS1 delta 4-desaturase, sphingolipid 1 2 2
MIRT674285 ZNF724P zinc finger protein 724 2 2
MIRT674494 TIRAP TIR domain containing adaptor protein 2 2
MIRT675460 NUBPL nucleotide binding protein like 2 2
MIRT675569 TRIP11 thyroid hormone receptor interactor 11 2 2
MIRT676068 TIMM50 translocase of inner mitochondrial membrane 50 2 2
MIRT676254 PBOV1 prostate and breast cancer overexpressed 1 2 2
MIRT676377 SEC24D SEC24 homolog D, COPII coat complex component 2 2
MIRT676758 SNX2 sorting nexin 2 2 2
MIRT676773 NPHS1 NPHS1, nephrin 2 2
MIRT676874 ENSA endosulfine alpha 2 2
MIRT676918 KLHDC8A kelch domain containing 8A 2 2
MIRT676944 S1PR3 sphingosine-1-phosphate receptor 3 2 2
MIRT676957 HFE hemochromatosis 2 2
MIRT676967 RNF19B ring finger protein 19B 2 2
MIRT676972 ZNF708 zinc finger protein 708 2 2
MIRT677042 ZNF34 zinc finger protein 34 2 2
MIRT677070 VMAC vimentin type intermediate filament associated coiled-coil protein 2 2
MIRT677093 MFSD11 major facilitator superfamily domain containing 11 2 4
MIRT677134 P2RX7 purinergic receptor P2X 7 2 2
MIRT677179 ZNF786 zinc finger protein 786 2 2
MIRT677228 C15orf40 chromosome 15 open reading frame 40 2 2
MIRT677320 PIGO phosphatidylinositol glycan anchor biosynthesis class O 2 2
MIRT677455 PDLIM3 PDZ and LIM domain 3 2 2
MIRT677809 MRPS10 mitochondrial ribosomal protein S10 2 2
MIRT677937 ZNF519 zinc finger protein 519 2 2
MIRT678063 UBN2 ubinuclein 2 2 4
MIRT678072 EIF2A eukaryotic translation initiation factor 2A 2 2
MIRT678252 FXN frataxin 2 2
MIRT678315 FBLIM1 filamin binding LIM protein 1 2 2
MIRT678367 XIAP X-linked inhibitor of apoptosis 2 4
MIRT678372 RNF115 ring finger protein 115 2 2
MIRT678410 ANKRD36 ankyrin repeat domain 36 2 2
MIRT678518 ZNF347 zinc finger protein 347 2 2
MIRT678566 CDK4 cyclin dependent kinase 4 2 2
MIRT678580 PPP1R3B protein phosphatase 1 regulatory subunit 3B 2 2
MIRT678820 PDE6A phosphodiesterase 6A 2 2
MIRT678917 XPOT exportin for tRNA 2 2
MIRT679217 MAN2A2 mannosidase alpha class 2A member 2 2 2
MIRT679437 C19orf52 translocase of inner mitochondrial membrane 29 2 2
MIRT679595 HILPDA hypoxia inducible lipid droplet associated 2 2
MIRT679755 TLR6 toll like receptor 6 2 2
MIRT679800 APOBEC3A apolipoprotein B mRNA editing enzyme catalytic subunit 3A 2 2
MIRT680057 CD96 CD96 molecule 2 2
MIRT680116 CCDC30 coiled-coil domain containing 30 2 4
MIRT680181 ZNF554 zinc finger protein 554 2 2
MIRT680439 WDR12 WD repeat domain 12 2 2
MIRT680789 ZNF578 zinc finger protein 578 2 2
MIRT692464 APEX2 apurinic/apyrimidinic endodeoxyribonuclease 2 2 2
MIRT702952 HIP1 huntingtin interacting protein 1 2 2
MIRT706016 ZSCAN2 zinc finger and SCAN domain containing 2 2 2
MIRT706032 F2R coagulation factor II thrombin receptor 2 2
MIRT706135 MTRNR2L10 MT-RNR2-like 10 2 2
MIRT706394 HAS2 hyaluronan synthase 2 2 2
MIRT713293 DCP2 decapping mRNA 2 2 2
MIRT716583 BRAP BRCA1 associated protein 2 2
MIRT720433 C19orf47 chromosome 19 open reading frame 47 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-640 Paclitaxel 36314 NSC125973 approved resistant High Ovarian Cancer tissue and cell line (SKOV3)
hsa-miR-640 Cetuximab resistant High Colon Cancer cell line
hsa-miR-640 Trametinib 11707110 NSC758246 approved resistant High Melanoma cell line (WM266) (1uM)
hsa-miR-640 Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (WM266) (1uM)
hsa-miR-640 Mitoxantrone 4212 NSC279836 approved resistant High Breast Cancer cell line (BT-20, BT-474, BT-549, CAMA-1, HCC1143, HCC1395, HCC1569, HCC1806, HCC-1937, HCC1954, HCC202, HCC38, HCC70, Hs578T, MCF-7, MDA-MB-175VII, MDA-MB-231, MDA-MB-361, MDA-MB-415, MDA-MB-436, MDA-MB-468, SKBR3, T47D, UACC812, EVSA-T, MPE-600 , SK-BR-
hsa-miR-640 Sorafenib 216239 NSC747971 approved sensitive Low Clear Cell Renal Cell Carcinoma cell line (786-O)
hsa-mir-640 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-mir-640 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-mir-640 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-640 Sunitinib 5329102 NSC750690 approved resistant tissue (CardB)
hsa-miR-640 Paclitaxel 36314 NSC125973 approved sensitive cell line (SKOV3)
hsa-miR-640 Tamoxifen 2733525 NSC180973 approved sensitive cell line (TamR8)
hsa-miR-640 Oxaliplatin 6857599 NSC266046 approved sensitive cell line (IGROV-1)
hsa-miR-640 Cisplatin 5460033 NSC119875 approved sensitive cell line (IGROV-1)
hsa-miR-640 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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