pre-miRNA Information
pre-miRNA hsa-mir-4640   
Genomic Coordinates chr6: 30890883 - 30890972
Description Homo sapiens miR-4640 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4640-5p
Sequence 9| UGGGCCAGGGAGCAGCUGGUGGG |31
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1392105945 7 dbSNP
rs939712790 9 dbSNP
rs762825841 15 dbSNP
rs71552023 20 dbSNP
rs1305909531 21 dbSNP
rs750017220 21 dbSNP
rs1375436057 23 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Biomarker Information
Biomarker ID Name Type Discovered From Mode Level Source Testing Methods
B32FZJ miR-4640 Safety Biomarker (SAF) Clinical/Experimental Data Expression lower Urine Quantitative polymerase chain reaction
Gene Information
Gene Symbol EIF1AD   
Synonyms haponin
Description eukaryotic translation initiation factor 1A domain containing
Transcript NM_032325   
Expression
Putative miRNA Targets on EIF1AD
3'UTR of EIF1AD
(miRNA target sites are highlighted)
>EIF1AD|NM_032325|3'UTR
   1 GACTCCAGGACCCAATTCTCCACTTGCTCAGGGACTGGCCCCTGGCTCTTCTGGGCTTGGACATTCCCAGGGTGCTCTGC
  81 ACATCTTCACCCCTGCATGAGGACAAAGCAGGGCTCCTCTCTGAACTGATCTTTTGATTCAGAGAATTAAACCCCTGGTG
 161 GGTTGGTGACTTGTTCTGGTGTCTGAGTGGCTCTCTCGGGGGAGGGAGATTGTGATGAAGTGAAAAACTGCTCCCTATTT
 241 ATTAGAGACCTTGTGGGTGGGTGGGCTGAATGGGGAGGAAATGGGAAATGGCTGGAGTCTTTCCCAGGTGGTTTGTTCTT
 321 TCTTATTGGGCACTTAGAAAGTGCCAGGCCGTGCTCTGGGCCTTCTTGCATGTGTTTAACAGCTGGGAGCACTCCTGCTT
 401 CCTTGCCTGCTTGCAGTTCATACCAATTTAAGCATTCAGGATGACAGCCCTAGGACCTAACACCCACCTGCCTCTAAGAG
 481 ACGCTCAGGAGCCCATGGTGCCTCGTGCTGTTCTCCCCGCCTTTCTAGTCACCCTGTGTACGGGAGTGCTCACCTCCAGC
 561 TACTGTGTCCATCCCCACATACGACCTCATCTCTCCCACTCTGCACCATCTATCACTTCCAGAAGGTGGCTGGCAAATCT
 641 CTCTATCCTTAACTTTGTTTTGAATGGTCCATCCATCTCCTGACTTTATTTGAAACCTGATTATTCCCTGAGGACATTGA
 721 TTGTCTTATAACCTTTTAAATAGAGGCTGCTTTTCCACCCTCACCCTTCATTCTTCTAACCAGCCCTGACATTCTCATGA
 801 GTAACCTTCTGCCTTCACTTCCCTCTTGTGTAGCATCAATTCCGTAGTCCACCCTACACCCCTCTGTCTCCCTCCATTCT
 881 GTTCCGCTAGTAAAACCCTAACCCTGGGTAAACCCAATCATTCACCTCTGTGCCCAAACCCAAGTCACCATCATTAGGTG
 961 AGAAAACAGCCAGCCTGGCCACCAGTTGTACCTTACGTTTATCATTACAAACCTCAGATGGACACTAAGCACTGCCCAGC
1041 AGATCTACTCTGGGATGTCTGTTTCAAAACTTCTGTCTTATCTATCAATTCCCCCTTGTGGTAGTTACCACAACACATGC
1121 CTCATTAAGAAACAGCAACCATCAGAGGGAATGCCTGCCTCCCTGTTACCAGCTCTGCAGATGTGCACATATCTTCCTGT
1201 CGTAAGCCAATGGGACTTAAACCTTACCTCTTGTGTTTTGGAGACTATCTTTTTTTTTTTTTTTTTTTTTTTGAGAGAGT
1281 GTCTCCCTGTGTTGCTCAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGTAACCTTCACCTACTGGGTTCAAGTAAC
1361 TCTCCTGCCTCAGCCTCCCGAGTAGCTTGGACTACAGGCGTGCACCACCACACCTGGCTAACTTTTTGTATTTTTAGTAG
1441 AGACGGGGTTTTGCCATGTTGCCCGGGCTGGTCTCGAACTCCTGACCTTAAATGAGCCTCCTGCCTCAGCCTCCCAAACT
1521 GCTGGGATTACAGGCGTGTGCCACCATGCCTGGCTAATTTTTATATTTTCAGTAGAGACGAGGTTTTGCCATGTTGGCCA
1601 GGCTGGTCTCGAACTCCTGACCTCAAGTGGTCCACCCACCTTGGCCTCCTAGAGTGCTGGGATTACAGGTGTGAGCCACT
1681 GTGCCCGGCCTCTTTTGCTTTCTTAAAGACTTTGGTCGGGTATTTGTGTTGTTGAGTATTGTGTCTGGGTGTGGGTATTT
1761 GATTCTTTTTTTGTTTTGTGTTTTTGGCTGTCCTGTCTATTGGATGTGATATGTTATGGATGTGATGTGTTAGTGTCGAG
1841 CGTGCTGTAGAATCTCCCATTTCTGAAACAGGCGTGAAAACCTGTACTGATTCCCACGTCCTCCAGCTACCACTTCATTT
1921 GTCTGTTTCTCATTTACTTTCTCTTATAGCGTGGCTTTAAACATATATACATTTGTATATATGTATATATGAATATAATG
2001 TATAAAATGTATGTAGATGTATATACAAAAAATAAACGAGATGGGTTAAAGATA
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' ggGUGGUCGACGAG----GGACCGGGu 5'
            | ||| :|||||     ||||||| 
Target 5' ttCTCCACTTGCTCAGGGACTGGCCCc 3'
16 - 42 163.00 -26.30
2
miRNA  3' gggUGGUCGACGAGGGACCGGgu 5'
             | ||||  |  |||||||  
Target 5' gaaAACAGC--CAGCCTGGCCac 3'
962 - 982 136.00 -18.70
3
miRNA  3' ggGUGGU-CGACGAGGGACCGGGu 5'
            ::||| || |: |:|||| || 
Target 5' agTGCCAGGCCGTGCTCTGGGCCt 3'
340 - 363 133.00 -21.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30115898 18 COSMIC
COSN20084561 48 COSMIC
COSN30455599 92 COSMIC
COSN30451805 104 COSMIC
COSN30108048 146 COSMIC
COSN30505852 147 COSMIC
COSN31509618 195 COSMIC
COSN30182871 208 COSMIC
COSN20108399 1249 COSMIC
COSN1540965 1324 COSMIC
COSN7017183 1332 COSMIC
COSN23122134 1704 COSMIC
COSN23726337 1850 COSMIC
rs117625825 345 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs946707399 6 dbSNP
rs746672827 9 dbSNP
rs144821407 15 dbSNP
rs771813466 18 dbSNP
rs1231757341 22 dbSNP
rs1241691430 23 dbSNP
rs117109892 29 dbSNP
rs765448409 32 dbSNP
rs1194593999 34 dbSNP
rs373921367 40 dbSNP
rs1048647516 63 dbSNP
rs937684527 69 dbSNP
rs1430728205 72 dbSNP
rs1470020900 80 dbSNP
rs148638917 82 dbSNP
rs1399808953 88 dbSNP
rs1263819393 101 dbSNP
rs1218705751 118 dbSNP
rs981954919 126 dbSNP
rs1325765288 153 dbSNP
rs538129722 157 dbSNP
rs569580326 158 dbSNP
rs949310103 160 dbSNP
rs1324288180 161 dbSNP
rs1223150438 173 dbSNP
rs1261484961 181 dbSNP
rs913707002 183 dbSNP
rs1353373681 187 dbSNP
rs571018182 192 dbSNP
rs1206054688 193 dbSNP
rs546833104 197 dbSNP
rs975849496 198 dbSNP
rs1202170322 199 dbSNP
rs958132416 202 dbSNP
rs540584 204 dbSNP
rs567203273 208 dbSNP
rs181777145 230 dbSNP
rs1375543992 232 dbSNP
rs1455201172 250 dbSNP
rs1028337746 253 dbSNP
rs983243903 256 dbSNP
rs527244564 257 dbSNP
rs1304818666 261 dbSNP
rs901444558 265 dbSNP
rs1300652917 270 dbSNP
rs1015877713 281 dbSNP
rs1299515459 282 dbSNP
rs1004371540 286 dbSNP
rs888646211 288 dbSNP
rs1279368004 298 dbSNP
rs1048140893 303 dbSNP
rs1351872627 304 dbSNP
rs1035277034 309 dbSNP
rs370488809 314 dbSNP
rs937760300 315 dbSNP
rs1293120447 319 dbSNP
rs1003708820 320 dbSNP
rs143921533 322 dbSNP
rs531499293 328 dbSNP
rs1420540207 336 dbSNP
rs115177326 337 dbSNP
rs769138226 342 dbSNP
rs117625825 345 dbSNP
rs1052328513 350 dbSNP
rs936507486 351 dbSNP
rs932657249 353 dbSNP
rs1195825226 354 dbSNP
rs763428936 356 dbSNP
rs925114125 358 dbSNP
rs978836569 359 dbSNP
rs954284986 361 dbSNP
rs921244140 362 dbSNP
rs1248615192 368 dbSNP
rs907741322 372 dbSNP
rs375050534 382 dbSNP
rs951804055 383 dbSNP
rs775728010 384 dbSNP
rs866626063 387 dbSNP
rs1254550908 400 dbSNP
rs1196075946 409 dbSNP
rs1237183913 410 dbSNP
rs990464987 414 dbSNP
rs965400093 420 dbSNP
rs1385577289 423 dbSNP
rs1209659569 429 dbSNP
rs1318754527 439 dbSNP
rs1374872749 447 dbSNP
rs1462546991 448 dbSNP
rs1297885063 450 dbSNP
rs1035270747 452 dbSNP
rs986178500 462 dbSNP
rs1015846577 470 dbSNP
rs1280137901 476 dbSNP
rs1004912072 482 dbSNP
rs952871530 483 dbSNP
rs1308819188 494 dbSNP
rs1227480877 500 dbSNP
rs878924639 505 dbSNP
rs1205129522 515 dbSNP
rs1243532706 517 dbSNP
rs72930945 518 dbSNP
rs610497 519 dbSNP
rs1169860417 521 dbSNP
rs1011511082 523 dbSNP
rs1297206631 532 dbSNP
rs1270839517 534 dbSNP
rs117036432 541 dbSNP
rs1046153261 542 dbSNP
rs377479635 543 dbSNP
rs866795572 544 dbSNP
rs377649077 552 dbSNP
rs936595572 554 dbSNP
rs1277051805 557 dbSNP
rs1337679054 571 dbSNP
rs925113833 578 dbSNP
rs1263358057 579 dbSNP
rs1207717838 582 dbSNP
rs901205266 582 dbSNP
rs577743413 583 dbSNP
rs1486173664 589 dbSNP
rs188324805 591 dbSNP
rs1261147045 595 dbSNP
rs1172236549 596 dbSNP
rs1463551509 601 dbSNP
rs1200503416 602 dbSNP
rs1424689958 604 dbSNP
rs944596808 605 dbSNP
rs1161761827 612 dbSNP
rs907800460 615 dbSNP
rs1453679375 616 dbSNP
rs1296825544 624 dbSNP
rs931858745 626 dbSNP
rs771612780 636 dbSNP
rs1283568844 637 dbSNP
rs976868444 641 dbSNP
rs1366438238 643 dbSNP
rs930478329 648 dbSNP
rs1308890945 650 dbSNP
rs920347166 656 dbSNP
rs149463234 664 dbSNP
rs908547152 670 dbSNP
rs1283793116 673 dbSNP
rs937644715 674 dbSNP
rs1223291592 675 dbSNP
rs983020159 684 dbSNP
rs1477179544 688 dbSNP
rs1425391577 696 dbSNP
rs1289525288 698 dbSNP
rs778883708 713 dbSNP
rs569407997 715 dbSNP
rs927645102 716 dbSNP
rs1387592293 724 dbSNP
rs1426058107 725 dbSNP
rs1303252674 726 dbSNP
rs1433870745 729 dbSNP
rs556027745 732 dbSNP
rs981788404 733 dbSNP
rs1239122840 738 dbSNP
rs1307056505 740 dbSNP
rs1027130957 746 dbSNP
rs1002763637 760 dbSNP
rs552416641 764 dbSNP
rs1289247897 765 dbSNP
rs969556902 767 dbSNP
rs1449878543 770 dbSNP
rs1196848309 790 dbSNP
rs1317304896 795 dbSNP
rs1024670124 798 dbSNP
rs1457628811 801 dbSNP
rs1266616378 806 dbSNP
rs1013326031 813 dbSNP
rs1387412564 816 dbSNP
rs1445775041 823 dbSNP
rs892099813 827 dbSNP
rs535644647 829 dbSNP
rs1052546084 835 dbSNP
rs1412521619 838 dbSNP
rs1000767201 839 dbSNP
rs903752931 843 dbSNP
rs114146217 844 dbSNP
rs931796158 847 dbSNP
rs1384636310 848 dbSNP
rs1453303297 852 dbSNP
rs901716296 854 dbSNP
rs1283512341 860 dbSNP
rs751481879 866 dbSNP
rs1447933710 870 dbSNP
rs547246843 871 dbSNP
rs1041112213 874 dbSNP
rs754923148 879 dbSNP
rs1332877288 884 dbSNP
rs527357109 885 dbSNP
rs1196936865 886 dbSNP
rs527767594 887 dbSNP
rs1245371120 895 dbSNP
rs983205527 897 dbSNP
rs1395121043 899 dbSNP
rs996915341 904 dbSNP
rs931351724 912 dbSNP
rs920157685 917 dbSNP
rs1471552437 919 dbSNP
rs1163817860 926 dbSNP
rs376146940 928 dbSNP
rs981078212 948 dbSNP
rs969523585 949 dbSNP
rs1019549012 952 dbSNP
rs1168021592 981 dbSNP
rs571408803 986 dbSNP
rs1414820847 988 dbSNP
rs12796976 990 dbSNP
rs1004170999 993 dbSNP
rs991843588 995 dbSNP
rs1432745839 996 dbSNP
rs72930942 996 dbSNP
rs1048140584 997 dbSNP
rs531342881 1004 dbSNP
rs12796959 1007 dbSNP
rs1324773253 1017 dbSNP
rs183944683 1018 dbSNP
rs12795055 1019 dbSNP
rs1449264422 1022 dbSNP
rs12795607 1025 dbSNP
rs1194437801 1028 dbSNP
rs1263286521 1039 dbSNP
rs1477201434 1042 dbSNP
rs12795592 1045 dbSNP
rs903553208 1050 dbSNP
rs542924153 1053 dbSNP
rs1054870301 1060 dbSNP
rs529208736 1061 dbSNP
rs114257741 1064 dbSNP
rs1268120144 1070 dbSNP
rs180883008 1071 dbSNP
rs901642605 1077 dbSNP
rs540085137 1080 dbSNP
rs1212197133 1081 dbSNP
rs1354904795 1082 dbSNP
rs750658547 1084 dbSNP
rs927718690 1084 dbSNP
rs1040244923 1088 dbSNP
rs775076346 1089 dbSNP
rs945045751 1093 dbSNP
rs1273451358 1096 dbSNP
rs914151061 1096 dbSNP
rs1353213893 1098 dbSNP
rs990178878 1099 dbSNP
rs1311068191 1101 dbSNP
rs1444090421 1103 dbSNP
rs1487696807 1104 dbSNP
rs767672716 1105 dbSNP
rs1270352902 1110 dbSNP
rs1451853294 1113 dbSNP
rs1323680559 1118 dbSNP
rs12791731 1132 dbSNP
rs1197635652 1133 dbSNP
rs189716003 1135 dbSNP
rs1028880682 1138 dbSNP
rs564248409 1148 dbSNP
rs1420151048 1152 dbSNP
rs931296397 1155 dbSNP
rs1019663597 1157 dbSNP
rs1381924596 1168 dbSNP
rs1391460608 1169 dbSNP
rs1386438687 1173 dbSNP
rs1321812456 1180 dbSNP
rs1157135569 1187 dbSNP
rs1241284557 1193 dbSNP
rs919975569 1201 dbSNP
rs1469793346 1202 dbSNP
rs981389141 1208 dbSNP
rs1248754034 1210 dbSNP
rs1266702669 1211 dbSNP
rs1356364477 1213 dbSNP
rs544232047 1231 dbSNP
rs1004159622 1233 dbSNP
rs1378387564 1233 dbSNP
rs1439395524 1240 dbSNP
rs1179048244 1241 dbSNP
rs1237302943 1242 dbSNP
rs887144132 1247 dbSNP
rs1449882100 1248 dbSNP
rs1165334077 1249 dbSNP
rs201718473 1249 dbSNP
rs1369184187 1250 dbSNP
rs1457464670 1250 dbSNP
rs1161716249 1251 dbSNP
rs918064025 1253 dbSNP
rs1217971135 1264 dbSNP
rs1398875530 1264 dbSNP
rs1447731954 1265 dbSNP
rs1489501528 1266 dbSNP
rs1284280375 1267 dbSNP
rs1223537579 1268 dbSNP
rs1349533013 1269 dbSNP
rs78956256 1269 dbSNP
rs1275014095 1270 dbSNP
rs1234786201 1271 dbSNP
rs1243406060 1273 dbSNP
rs1263113676 1273 dbSNP
rs1311774582 1273 dbSNP
rs1314064432 1273 dbSNP
rs1314279518 1273 dbSNP
rs1319600100 1273 dbSNP
rs1321839862 1273 dbSNP
rs1331135173 1273 dbSNP
rs1375053669 1273 dbSNP
rs1491017349 1273 dbSNP
rs566592920 1273 dbSNP
rs71837467 1273 dbSNP
rs779184189 1273 dbSNP
rs1374825125 1274 dbSNP
rs1466340932 1275 dbSNP
rs1170166365 1277 dbSNP
rs1398629851 1277 dbSNP
rs1471144305 1280 dbSNP
rs1303984017 1287 dbSNP
rs1379111674 1288 dbSNP
rs1394759552 1291 dbSNP
rs992269405 1294 dbSNP
rs1026214627 1295 dbSNP
rs1218930079 1301 dbSNP
rs956899900 1309 dbSNP
rs184834964 1311 dbSNP
rs1328843922 1316 dbSNP
rs1282629647 1320 dbSNP
rs1400510936 1324 dbSNP
rs1362265900 1328 dbSNP
rs867496329 1336 dbSNP
rs1198593611 1342 dbSNP
rs1265442655 1346 dbSNP
rs752094659 1353 dbSNP
rs1478180471 1354 dbSNP
rs995193677 1367 dbSNP
rs1421728993 1371 dbSNP
rs371323098 1379 dbSNP
rs1399849913 1380 dbSNP
rs1177289111 1392 dbSNP
rs1358883292 1393 dbSNP
rs1464999189 1394 dbSNP
rs1403201101 1398 dbSNP
rs555747553 1399 dbSNP
rs1400043865 1400 dbSNP
rs1174528455 1403 dbSNP
rs536128540 1409 dbSNP
rs1220552726 1412 dbSNP
rs1301724962 1412 dbSNP
rs1477113423 1412 dbSNP
rs979245391 1413 dbSNP
rs1311334815 1417 dbSNP
rs1231051494 1419 dbSNP
rs1288069764 1424 dbSNP
rs1488687569 1439 dbSNP
rs968078615 1440 dbSNP
rs1216016529 1441 dbSNP
rs573605258 1444 dbSNP
rs553599891 1445 dbSNP
rs1028665921 1453 dbSNP
rs764634418 1454 dbSNP
rs1479106145 1456 dbSNP
rs1431800623 1457 dbSNP
rs1161018820 1460 dbSNP
rs377133349 1461 dbSNP
rs192938086 1462 dbSNP
rs540048948 1464 dbSNP
rs187281951 1465 dbSNP
rs1438187891 1471 dbSNP
rs886306772 1475 dbSNP
rs184734060 1476 dbSNP
rs945059262 1481 dbSNP
rs995605373 1482 dbSNP
rs1282056613 1485 dbSNP
rs770108510 1487 dbSNP
rs1342321327 1500 dbSNP
rs1354364754 1502 dbSNP
rs1053469234 1504 dbSNP
rs936894084 1505 dbSNP
rs1045066512 1513 dbSNP
rs1222676895 1517 dbSNP
rs948081514 1523 dbSNP
rs9735063 1532 dbSNP
rs1056676646 1535 dbSNP
rs935496705 1536 dbSNP
rs374504457 1542 dbSNP
rs924135938 1548 dbSNP
rs1439623621 1549 dbSNP
rs772918926 1550 dbSNP
rs1405237891 1552 dbSNP
rs568820110 1553 dbSNP
rs1336450058 1556 dbSNP
rs1165088615 1559 dbSNP
rs967836163 1561 dbSNP
rs138756103 1565 dbSNP
rs1433808087 1569 dbSNP
rs1405569150 1579 dbSNP
rs1377289535 1580 dbSNP
rs529185962 1582 dbSNP
rs1171503049 1586 dbSNP
rs974386840 1589 dbSNP
rs1306990889 1601 dbSNP
rs1381484629 1603 dbSNP
rs560058384 1608 dbSNP
rs1228943426 1610 dbSNP
rs192655078 1611 dbSNP
rs1018863719 1623 dbSNP
rs796302358 1627 dbSNP
rs532963134 1635 dbSNP
rs564213109 1638 dbSNP
rs868373559 1639 dbSNP
rs1189240513 1640 dbSNP
rs773857272 1646 dbSNP
rs1459728060 1650 dbSNP
rs1473384946 1651 dbSNP
rs1262072812 1652 dbSNP
rs769503050 1654 dbSNP
rs995540115 1661 dbSNP
rs566542910 1665 dbSNP
rs577056834 1666 dbSNP
rs1172361631 1670 dbSNP
rs1400853593 1671 dbSNP
rs1033604880 1674 dbSNP
rs995975293 1678 dbSNP
rs1326832312 1682 dbSNP
rs1213894224 1686 dbSNP
rs200722314 1687 dbSNP
rs3016868 1687 dbSNP
rs906403850 1694 dbSNP
rs1045156625 1695 dbSNP
rs1376989122 1696 dbSNP
rs575680356 1703 dbSNP
rs1220754075 1704 dbSNP
rs1009701991 1705 dbSNP
rs1285762147 1705 dbSNP
rs1197115461 1708 dbSNP
rs1450123867 1714 dbSNP
rs1382324905 1717 dbSNP
rs1012196894 1718 dbSNP
rs1449177223 1720 dbSNP
rs1398188774 1735 dbSNP
rs749207401 1736 dbSNP
rs936356791 1737 dbSNP
rs1406431932 1738 dbSNP
rs921507708 1739 dbSNP
rs1056603375 1741 dbSNP
rs562088939 1743 dbSNP
rs187739624 1744 dbSNP
rs1043918496 1749 dbSNP
rs946898468 1751 dbSNP
rs921665964 1754 dbSNP
rs1242156104 1762 dbSNP
rs974524186 1765 dbSNP
rs965697070 1768 dbSNP
rs1299082502 1773 dbSNP
rs1458747109 1773 dbSNP
rs982985920 1776 dbSNP
rs1230642339 1778 dbSNP
rs1225435518 1779 dbSNP
rs573566762 1780 dbSNP
rs983331670 1786 dbSNP
rs950684155 1792 dbSNP
rs1028010167 1795 dbSNP
rs1277088899 1799 dbSNP
rs1484433827 1802 dbSNP
rs779874505 1811 dbSNP
rs970330948 1812 dbSNP
rs1487758937 1813 dbSNP
rs1310392815 1822 dbSNP
rs974448106 1823 dbSNP
rs1379207257 1824 dbSNP
rs1478230677 1826 dbSNP
rs1171967173 1827 dbSNP
rs1393169856 1829 dbSNP
rs1243502281 1833 dbSNP
rs1358457863 1837 dbSNP
rs2030 1838 dbSNP
rs1359917145 1839 dbSNP
rs1012290124 1841 dbSNP
rs896456900 1842 dbSNP
rs1332083774 1846 dbSNP
rs1436183278 1847 dbSNP
rs182668996 1856 dbSNP
rs1000161750 1859 dbSNP
rs1009404393 1872 dbSNP
rs892174730 1873 dbSNP
rs1053572663 1874 dbSNP
rs1297714490 1880 dbSNP
rs1203076204 1884 dbSNP
rs879840963 1897 dbSNP
rs1352138685 1898 dbSNP
rs1452015362 1900 dbSNP
rs1197930814 1901 dbSNP
rs1044398088 1909 dbSNP
rs1250836211 1912 dbSNP
rs946896545 1914 dbSNP
rs900708890 1915 dbSNP
rs1159169654 1919 dbSNP
rs1038761394 1920 dbSNP
rs868312518 1921 dbSNP
rs1165271312 1923 dbSNP
rs1391757513 1927 dbSNP
rs899529081 1931 dbSNP
rs1324304233 1936 dbSNP
rs1379498312 1937 dbSNP
rs2847698 1940 dbSNP
rs1334699912 1943 dbSNP
rs1158911686 1947 dbSNP
rs911529755 1950 dbSNP
rs944267715 1951 dbSNP
rs1356650443 1962 dbSNP
rs983121594 1963 dbSNP
rs928994040 1964 dbSNP
rs1047636145 1965 dbSNP
rs1176137958 1966 dbSNP
rs370912081 1970 dbSNP
rs1248452584 1979 dbSNP
rs1189749531 1987 dbSNP
rs919997464 1992 dbSNP
rs1472597310 2001 dbSNP
rs1163032624 2002 dbSNP
rs192666326 2007 dbSNP
rs973769580 2009 dbSNP
rs1220140131 2011 dbSNP
rs1394995118 2012 dbSNP
rs937306349 2015 dbSNP
rs756976626 2017 dbSNP
rs537925429 2019 dbSNP
rs772952724 2036 dbSNP
rs981458278 2038 dbSNP
rs1291025229 2043 dbSNP
rs970593940 2045 dbSNP
rs1024899498 2053 dbSNP
rs1315377085 2055 dbSNP
rs1479622434 2055 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 Chi_124B_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + B ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ggguggucgacgaggGACCGGGu 5'
                         ||||||| 
Target 5' --------ucagggaCUGGCCCc 3'
1 - 15
Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
CLIP-seq Support 1 for dataset Chi_124B_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell miR-124 + B
Location of target site ENST00000526451.1 | 3UTR | UCAGGGACUGGCCCCUGGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
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
87 hsa-miR-4640-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT100106 ABT1 activator of basal transcription 1 2 8
MIRT248144 LMBR1L limb development membrane protein 1 like 2 2
MIRT327062 KLHL15 kelch like family member 15 2 2
MIRT347231 GATAD2A GATA zinc finger domain containing 2A 2 2
MIRT450221 CENPN centromere protein N 2 2
MIRT451264 NDUFA11 NADH:ubiquinone oxidoreductase subunit A11 2 2
MIRT452701 C1orf226 chromosome 1 open reading frame 226 2 2
MIRT453212 CERS1 ceramide synthase 1 2 2
MIRT454822 POLR2J3 RNA polymerase II subunit J3 2 2
MIRT454883 RAD50 RAD50 double strand break repair protein 2 2
MIRT455783 TAF8 TATA-box binding protein associated factor 8 2 2
MIRT455858 TMEM254 transmembrane protein 254 2 2
MIRT457615 UPK3BL uroplakin 3B like 1 2 2
MIRT457822 ITPRIP inositol 1,4,5-trisphosphate receptor interacting protein 2 4
MIRT458344 NOC2L NOC2 like nucleolar associated transcriptional repressor 2 2
MIRT458376 ITM2C integral membrane protein 2C 2 2
MIRT458928 SAMD4B sterile alpha motif domain containing 4B 2 2
MIRT459066 WFIKKN2 WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2 2 2
MIRT460138 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT460818 FSTL4 follistatin like 4 2 2
MIRT461285 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 2
MIRT462738 EFNB1 ephrin B1 2 2
MIRT464556 UBTF upstream binding transcription factor, RNA polymerase I 2 2
MIRT477910 DUSP2 dual specificity phosphatase 2 2 2
MIRT479073 CNNM4 cyclin and CBS domain divalent metal cation transport mediator 4 2 4
MIRT479534 CDC5L cell division cycle 5 like 2 4
MIRT485628 EEPD1 endonuclease/exonuclease/phosphatase family domain containing 1 2 2
MIRT489896 PPIC peptidylprolyl isomerase C 2 4
MIRT490737 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT491201 MLLT1 MLLT1, super elongation complex subunit 2 4
MIRT492681 PHYHIP phytanoyl-CoA 2-hydroxylase interacting protein 2 2
MIRT494593 ATG7 autophagy related 7 2 2
MIRT495061 PADI3 peptidyl arginine deiminase 3 2 4
MIRT496623 TMEM67 transmembrane protein 67 2 2
MIRT497177 ZBTB40 zinc finger and BTB domain containing 40 2 2
MIRT498217 TLN2 talin 2 2 2
MIRT498306 BCL11B B-cell CLL/lymphoma 11B 2 2
MIRT499668 NPHP3 nephrocystin 3 2 2
MIRT508080 ANKRD52 ankyrin repeat domain 52 2 2
MIRT509707 ANKRD23 ankyrin repeat domain 23 2 2
MIRT509841 FOS Fos proto-oncogene, AP-1 transcription factor subunit 2 2
MIRT512814 ARRDC2 arrestin domain containing 2 2 2
MIRT513353 SLIT1 slit guidance ligand 1 2 2
MIRT514293 FXYD5 FXYD domain containing ion transport regulator 5 2 2
MIRT516598 FAM89A family with sequence similarity 89 member A 2 4
MIRT516616 DARS2 aspartyl-tRNA synthetase 2, mitochondrial 2 2
MIRT518348 CCL5 C-C motif chemokine ligand 5 2 2
MIRT520130 WSB1 WD repeat and SOCS box containing 1 2 2
MIRT522072 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT526461 OSBPL5 oxysterol binding protein like 5 2 2
MIRT528278 MBL2 mannose binding lectin 2 2 2
MIRT534844 RAB15 RAB15, member RAS oncogene family 2 4
MIRT542245 HSPA4L heat shock protein family A (Hsp70) member 4 like 2 2
MIRT543299 ZNF585B zinc finger protein 585B 2 2
MIRT552456 ZNF410 zinc finger protein 410 2 2
MIRT553641 TJAP1 tight junction associated protein 1 2 2
MIRT557103 HOXA3 homeobox A3 2 2
MIRT570782 FANCA Fanconi anemia complementation group A 2 2
MIRT630912 ZMAT2 zinc finger matrin-type 2 2 2
MIRT631034 ZNF878 zinc finger protein 878 2 2
MIRT639017 AAK1 AP2 associated kinase 1 2 2
MIRT648596 ZYG11B zyg-11 family member B, cell cycle regulator 2 2
MIRT648939 ATP5A1 ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle 2 2
MIRT652834 TACO1 translational activator of cytochrome c oxidase I 2 2
MIRT659347 CSRP1 cysteine and glycine rich protein 1 2 2
MIRT664163 APOBEC3F apolipoprotein B mRNA editing enzyme catalytic subunit 3F 2 2
MIRT670511 ZSCAN22 zinc finger and SCAN domain containing 22 2 2
MIRT671246 TMEM41B transmembrane protein 41B 2 2
MIRT672120 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT672313 CD3D CD3d molecule 2 2
MIRT672543 BRMS1L breast cancer metastasis-suppressor 1 like 2 2
MIRT673036 SGPL1 sphingosine-1-phosphate lyase 1 2 2
MIRT673814 DARS aspartyl-tRNA synthetase 2 2
MIRT674858 GINM1 glycoprotein integral membrane 1 2 2
MIRT674970 SH3BP2 SH3 domain binding protein 2 2 2
MIRT675185 KIF1C kinesin family member 1C 2 2
MIRT675219 UGDH UDP-glucose 6-dehydrogenase 2 2
MIRT675558 MED16 mediator complex subunit 16 2 2
MIRT682566 EIF4EBP1 eukaryotic translation initiation factor 4E binding protein 1 2 2
MIRT684640 PDE4C phosphodiesterase 4C 2 2
MIRT689722 ATXN2 ataxin 2 2 2
MIRT693594 SLC39A1 solute carrier family 39 member 1 2 2
MIRT704745 CDKN2B cyclin dependent kinase inhibitor 2B 2 2
MIRT712779 ZNF154 zinc finger protein 154 2 2
MIRT718118 OTOF otoferlin 2 2
MIRT720115 SAMD4A sterile alpha motif domain containing 4A 2 2
MIRT720275 EIF1AD eukaryotic translation initiation factor 1A domain containing 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4640 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4640 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4640 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-4640-5p Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-4640-5p Paclitaxel 36314 NSC125973 approved resistant High Non-Small Cell Lung Cancer cell line (A549)
hsa-miR-4640-5p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (AsPC-1)
hsa-miR-4640-5p Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4640-5p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-4640-5p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4640-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4640-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4640-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4640-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-4640-5p Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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