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 ZSCAN22   
Synonyms HKR2, ZNF50
Description zinc finger and SCAN domain containing 22
Transcript NM_181846   
Expression
Putative miRNA Targets on ZSCAN22
3'UTR of ZSCAN22
(miRNA target sites are highlighted)
>ZSCAN22|NM_181846|3'UTR
   1 CCGGAAGTCGCCCCTGGGGGCGTAGCACAGCGTCTTCTCGGAGGCTCGAGGTCTAAGAGAAACGCTGAGTTCCTGAAGAG
  81 CCACAGACAGGGTGGGTGATTGATGAGTTGTCAAAATGATAGGTGCCTGAGGGCAGACTCGGGCTGTCTAGGAACCACTC
 161 TGCATTTGAGGAACCCTGATGAGCACAAGGTGATTCAGGCCAGCTGGAGAAGCTTCCAGAAGGGCCCTGCACTGCTACCC
 241 TCTATTTCCCACTCAGGGCTGTCCCAGAGAGAAGGCAGCCGAACTGAGGATTTAGACTGGTTCTGAGGGCCAGGGCAAAT
 321 GAAGGCGCATGTCTCTCAGAACTCAGCGTCCCAAGACGCTCTGGGCGGGCCAACTGTAGCTTGTTCTCATGTGGTTCTTC
 401 TTGCCTGCTTTTCTGCTGCTTAGCCCAGAACGGACACCTGCCATGCCCACCTCTGTGCCTTGGCACCTACTATTTCCACT
 481 CCAGACTATTTTGTGCCTAACTGCAAGGCTGACTTTTGAGACTGCCTCTTCCACGATGCCTTTTCTACACTCTGCCTCTC
 561 TCATGGTTTCCTGTCGTAATCAGTGGTGCTGCTTGACACCTGCCCAGCATGTTCCTGTCTCTCCTTTTCCTTCCACATCC
 641 CACCAGTCACCAGCGCTATTGTTTTAACCTAAAGCTTATCTGTAATTCACCTCCTTTTCCACCACTGCTACCTTATGTGA
 721 GCCCTCATTGCCTCTTGCCTGGATTATAGCCGGGGTCTCCTTCCTGACCACTTCCTGCCTTTATTCTCTGCCCCTGTATC
 801 ACTCTCCAGGGGACTCTTGATATTACTTAGATCTGACTGTGTCACTCCAAGGTGGAAAGCTCTCCAACCCATCTTCTACA
 881 GCACAGCTTCCTGAACAGGGTATAAGTATGCTGAGATGCAGGCTGCTCTGGGCCCCGAGCAACCTCTCCAGTTATCCTCA
 961 TATGCATGTATGAATACTGTCATTTTTCTGTGCGTGCAGTGAAAATGGCCTCATCTCATACCATGGCTCCACCTTCCATA
1041 CACCAGCCACACGGAACTACTGTGGTCCCTGAAGGAGCCATACATTTTCCCACTTATGTGCCTTTGTACCTGTGCCTGGA
1121 ACCCTCCTCTTCTTTTTCTTTTTCTTTTCTTTTCTTTTTTTTTTTTTGAGATGGAGTCTCGCTCTGTCGCCCAGGCTGGA
1201 GTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCTGCCTCCCGGGTTCATGCCATTCTCCTGCCTCAGCCTCCCAAGTAG
1281 CTGGGACTACAGGCGCCTGCCACCACGCCCAGCTAGTTTTTTTTTTTTTTTGTATTTTTAGTAGAGATGGAGTTTCACCA
1361 TGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTG
1441 AGCCACCGCACCTGGCCCTCCTTTTTCATCTAAGGTGTTTCAAATGTTGCCCAAAGAAACCTCCCTGCTCTCCGGGAGCA
1521 GACTTCAGCTTGCCCTCTCTGCTTCCAGAGCACCTCCTAGATACCTCTCTTACAACTCCTGCCACCTTGTTTTACTTATT
1601 TGCTCCTTGTAGAGCTGCCTTTTCCAAGGATACCATAAACTCCTGAGAGCAGGGGCCATGTCTTACTCTCAGTATCTACA
1681 ACACACAAGACTCAGTAGGCCCTGACTGATGTCTCTTACATGAATGTGACTGGTGCCCCCAGGAGGCAGTCACCGTGCTG
1761 TCTCTGCCCCACATTGTCCTTATGTATGTTTACATGGATGTCTCCCCAGCAGCTTGAACCCTGGAGAGCAAGAATAATCT
1841 GATTTTCCTGGGGGCCAGCACCCAAATAAGCCTGGCATGCAGTGGCCTCAATAAAATGTGACTGTATTGAGTCATTTTCT
1921 AGGGCCCCAGATCCCCTGGTGTCATGGACTTAGTCTTTGCCAGCATTCTGTCCATGTGTTCTCTGGTCTTCTCTCACAAT
2001 GCTGCATCCCTGTCCCATTTTTAGGGTCCCTGTCTATCACTGGATGCTGCAGCTTCTGTTCATTACTGTTAGTGTATCAT
2081 TCTTCATGCCTCTGTTTCTGTGATGGTCTCATCATATGTGAACCATTTGACCTGGCGTATTGTGTACTAGTCACCGTCAC
2161 CATCTCTCCATATGTATCTCCCTGTATTTCGGGCCCATTCCCTCTATGTCAAGAGTAAATAGAGGCACAGAGACTGATGA
2241 GAAACGTTCATAACATGAAGGTAAGACTCAGGGAGACAGAGACTTTGTGGAAGTATCTCTGAGGGAGTCCCAGACACAGG
2321 CAGAGAGGGCCACATATCGTGTGCCAGAGGCTGAGAGACTGAGAGGGATGACAGGCTTAGGGGAAAACTCAGAGAGGAGA
2401 GATGCACATTCCTAGTGAAATTGCACAGGCTTCCAGCATGCTGGAGGGAACAGAAAAGGCATGGGCCTGAATTCAGGCTG
2481 CAGAGCCTGACTCCTCCCTGTGGCTACTTTTGGGACCTAAGATAAGTGACTTTCCTGAACCTCCATGACCTCCTCATATG
2561 TAAACCAGGGACAGGACCCACCTTGTGTAGTGCCTGACCCAAAGCCTGGCCCTGCACACTGTCTCTGACTCACAGCAATC
2641 ATCAGCACCTCTCTTTGCCTCCTACTTGCTCAGTCTCTGTCACAAGAACTGGATCTCCATCCCCTTGATGCTCTGAGCAT
2721 CTTCACCCATTTGGTCGTTGAGACATATCTGTCCATGTCTGTCTAAAAGGGGAGGAGATGAGGGAGAAAAAAGGGAATCT
2801 ACTCAGAGCCTGTGTGTGCTGCCCAGTCTACCAAATAATTTATATACATCTCAGTCCTCACACAACCATCCCTGTTTTAT
2881 AGAGGAGGAAGTGGCTTAGAGAATGTAACTGACCAAAGTCACACTGCCAGGAACTGGAAGCACTAGGATTTGACAGCATA
2961 TCCAAATATGTCAGCAATTTCAATAAACATGACTGTACTCAACAAACCAAGTGTAAAGAC
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' gggUGGUCGACGAGGGACCGGGu 5'
             :||| | ||  |||||||| 
Target 5' tgaGCCA-CCGC-ACCTGGCCCt 3'
1439 - 1459 154.00 -27.00
2
miRNA  3' ggGUGGU-CGACG-AGGGACCGGGu 5'
            ||| | ||||| |||||| ||| 
Target 5' ctCACAATGCTGCATCCCTGTCCCa 3'
1993 - 2017 149.00 -31.90
3
miRNA  3' ggGUGGUCGAC-GAG----GGACCGGGu 5'
            :| :: ||| | |    |||||||| 
Target 5' tgTAGTGCCTGACCCAAAGCCTGGCCCt 3'
2586 - 2613 147.00 -21.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN13840510 11 COSMIC
COSN30653187 21 COSMIC
COSN21643950 22 COSMIC
COSN30490060 32 COSMIC
COSN17167514 40 COSMIC
COSN30147695 58 COSMIC
COSN15069763 241 COSMIC
COSN30165893 296 COSMIC
COSN31588529 322 COSMIC
COSN31490981 338 COSMIC
COSN31518592 359 COSMIC
COSN7451299 404 COSMIC
COSN31533725 405 COSMIC
COSN17468111 437 COSMIC
COSN30176972 615 COSMIC
COSN14550493 718 COSMIC
COSN24616930 848 COSMIC
COSN17882480 908 COSMIC
COSN19248302 1043 COSMIC
COSN25006742 1155 COSMIC
COSN31932009 1168 COSMIC
COSN25271725 1270 COSMIC
COSN23922332 1341 COSMIC
COSN21139826 1979 COSMIC
COSN1772949 2056 COSMIC
COSN1772950 2328 COSMIC
COSN26772966 2389 COSMIC
COSN22436698 2530 COSMIC
COSN29447844 2578 COSMIC
COSN24547454 2886 COSMIC
COSN21573569 2935 COSMIC
COSN21693221 2953 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs148701172 3 dbSNP
rs1006391294 4 dbSNP
rs765651024 10 dbSNP
rs1029810295 11 dbSNP
rs1303602667 12 dbSNP
rs767492586 15 dbSNP
rs959876122 16 dbSNP
rs1381572711 18 dbSNP
rs752915548 22 dbSNP
rs373226845 23 dbSNP
rs185676131 27 dbSNP
rs747140160 32 dbSNP
rs757318675 33 dbSNP
rs1425438526 36 dbSNP
rs1305510461 40 dbSNP
rs199724083 41 dbSNP
rs1163031452 43 dbSNP
rs1256278152 44 dbSNP
rs1486440294 46 dbSNP
rs1354840472 47 dbSNP
rs369945926 48 dbSNP
rs576717152 49 dbSNP
rs373598212 52 dbSNP
rs924022237 56 dbSNP
rs1471908959 58 dbSNP
rs936550374 64 dbSNP
rs16988668 65 dbSNP
rs1264476745 71 dbSNP
rs1218941254 73 dbSNP
rs1243852247 74 dbSNP
rs1318428954 81 dbSNP
rs1307487095 83 dbSNP
rs981174670 101 dbSNP
rs1040736011 102 dbSNP
rs1034260340 109 dbSNP
rs1405627097 115 dbSNP
rs1365101066 127 dbSNP
rs1291945406 132 dbSNP
rs1455544099 135 dbSNP
rs958598581 140 dbSNP
rs77539350 141 dbSNP
rs1158808003 142 dbSNP
rs1214733312 147 dbSNP
rs917052152 149 dbSNP
rs1200849450 154 dbSNP
rs929724356 158 dbSNP
rs572072402 170 dbSNP
rs1189063915 176 dbSNP
rs1262497411 182 dbSNP
rs1261002763 187 dbSNP
rs888178979 189 dbSNP
rs190827056 192 dbSNP
rs941063822 198 dbSNP
rs1196468565 199 dbSNP
rs1224063439 211 dbSNP
rs1344890508 219 dbSNP
rs757241845 221 dbSNP
rs1423577210 238 dbSNP
rs1288577976 241 dbSNP
rs1455960941 256 dbSNP
rs959665426 258 dbSNP
rs1165870423 270 dbSNP
rs564087774 281 dbSNP
rs934200884 282 dbSNP
rs533103407 285 dbSNP
rs745669006 299 dbSNP
rs978062368 325 dbSNP
rs924053489 328 dbSNP
rs1051270696 330 dbSNP
rs1261991640 332 dbSNP
rs892599039 332 dbSNP
rs1187605669 336 dbSNP
rs1244751391 348 dbSNP
rs771794716 348 dbSNP
rs1204177040 355 dbSNP
rs531710643 358 dbSNP
rs183053464 359 dbSNP
rs1400121947 362 dbSNP
rs911023422 365 dbSNP
rs903924480 367 dbSNP
rs375455092 368 dbSNP
rs563202700 374 dbSNP
rs922542370 375 dbSNP
rs769713220 387 dbSNP
rs1400656268 392 dbSNP
rs1300492568 396 dbSNP
rs1463060585 404 dbSNP
rs1373165934 405 dbSNP
rs1167499435 409 dbSNP
rs1313076126 419 dbSNP
rs929651309 431 dbSNP
rs529058701 432 dbSNP
rs1014092527 433 dbSNP
rs1417020558 434 dbSNP
rs972955070 437 dbSNP
rs397941166 439 dbSNP
rs60266420 439 dbSNP
rs1218952215 450 dbSNP
rs1197495978 463 dbSNP
rs1005280691 466 dbSNP
rs1274048821 467 dbSNP
rs1037874452 468 dbSNP
rs1182962816 473 dbSNP
rs1316048200 483 dbSNP
rs568533778 491 dbSNP
rs1417774137 498 dbSNP
rs951279970 523 dbSNP
rs1392485552 529 dbSNP
rs549135291 535 dbSNP
rs906779071 536 dbSNP
rs1427308398 540 dbSNP
rs999511930 541 dbSNP
rs1176361373 545 dbSNP
rs1379348841 546 dbSNP
rs56688575 547 dbSNP
rs1366497612 551 dbSNP
rs1159888178 554 dbSNP
rs527773323 556 dbSNP
rs975087196 559 dbSNP
rs989933456 567 dbSNP
rs1465436025 568 dbSNP
rs920894670 573 dbSNP
rs934231950 576 dbSNP
rs547504858 577 dbSNP
rs1292766049 581 dbSNP
rs914134324 582 dbSNP
rs1209485682 587 dbSNP
rs1354610575 589 dbSNP
rs142859523 595 dbSNP
rs1377864804 599 dbSNP
rs1240328320 600 dbSNP
rs1350375304 605 dbSNP
rs1044266768 606 dbSNP
rs879183741 607 dbSNP
rs79543143 608 dbSNP
rs1299202238 615 dbSNP
rs1311736433 617 dbSNP
rs1323730158 624 dbSNP
rs1002216867 625 dbSNP
rs1211432261 629 dbSNP
rs553542542 640 dbSNP
rs1160060274 647 dbSNP
rs771497266 651 dbSNP
rs982462206 654 dbSNP
rs570334442 655 dbSNP
rs536070243 657 dbSNP
rs1198349919 660 dbSNP
rs941127273 671 dbSNP
rs1055983724 679 dbSNP
rs1450107469 682 dbSNP
rs894220858 685 dbSNP
rs372266260 686 dbSNP
rs948246781 699 dbSNP
rs1046549179 705 dbSNP
rs1432163484 716 dbSNP
rs1176669224 717 dbSNP
rs1360875019 720 dbSNP
rs906808684 728 dbSNP
rs999711259 744 dbSNP
rs1030964308 752 dbSNP
rs774650680 753 dbSNP
rs893774847 760 dbSNP
rs1328971586 765 dbSNP
rs61460516 771 dbSNP
rs1387657773 780 dbSNP
rs1004067493 794 dbSNP
rs1017148707 795 dbSNP
rs1470935351 795 dbSNP
rs962458963 797 dbSNP
rs1172047519 799 dbSNP
rs1449262208 805 dbSNP
rs571028803 807 dbSNP
rs977003282 808 dbSNP
rs572074941 809 dbSNP
rs975118109 811 dbSNP
rs1464675548 813 dbSNP
rs921015167 821 dbSNP
rs955061624 822 dbSNP
rs534712544 826 dbSNP
rs1324861102 832 dbSNP
rs1366959674 842 dbSNP
rs951277954 853 dbSNP
rs986453566 856 dbSNP
rs1271518389 868 dbSNP
rs914184209 875 dbSNP
rs1228692866 880 dbSNP
rs945597229 882 dbSNP
rs1364146840 897 dbSNP
rs982660222 901 dbSNP
rs909790283 913 dbSNP
rs1303523096 916 dbSNP
rs1316547268 921 dbSNP
rs979639257 926 dbSNP
rs1421743677 929 dbSNP
rs941060099 930 dbSNP
rs79715336 937 dbSNP
rs938100757 938 dbSNP
rs1055171288 943 dbSNP
rs896561367 944 dbSNP
rs1185774603 947 dbSNP
rs1462095683 949 dbSNP
rs1237403037 958 dbSNP
rs1208660366 963 dbSNP
rs1440134377 966 dbSNP
rs1459418792 967 dbSNP
rs949410360 968 dbSNP
rs879920872 971 dbSNP
rs887042115 972 dbSNP
rs1294999503 973 dbSNP
rs188501404 987 dbSNP
rs1247879001 989 dbSNP
rs1487862514 994 dbSNP
rs57201473 995 dbSNP
rs928097612 1003 dbSNP
rs1356301264 1007 dbSNP
rs1016768000 1011 dbSNP
rs556877624 1016 dbSNP
rs1429229877 1019 dbSNP
rs1368938598 1024 dbSNP
rs1476763085 1031 dbSNP
rs372133070 1034 dbSNP
rs1052671026 1039 dbSNP
rs905868565 1043 dbSNP
rs996676346 1044 dbSNP
rs1011353780 1053 dbSNP
rs542968605 1058 dbSNP
rs955091171 1060 dbSNP
rs899932335 1068 dbSNP
rs986502504 1076 dbSNP
rs1162920351 1078 dbSNP
rs1413482031 1080 dbSNP
rs1021011995 1089 dbSNP
rs1253232747 1094 dbSNP
rs192017027 1098 dbSNP
rs998240313 1111 dbSNP
rs1271967158 1124 dbSNP
rs1224257651 1129 dbSNP
rs145420586 1130 dbSNP
rs753347395 1130 dbSNP
rs767235150 1130 dbSNP
rs1375397157 1132 dbSNP
rs1288983310 1139 dbSNP
rs761238109 1140 dbSNP
rs1305120985 1144 dbSNP
rs1348727215 1144 dbSNP
rs373738879 1145 dbSNP
rs386811411 1149 dbSNP
rs61343444 1149 dbSNP
rs1338535277 1150 dbSNP
rs201267437 1150 dbSNP
rs1163097578 1152 dbSNP
rs1402850275 1153 dbSNP
rs1029508931 1155 dbSNP
rs1219100467 1155 dbSNP
rs1264529207 1155 dbSNP
rs374526192 1155 dbSNP
rs779224811 1155 dbSNP
rs1399914186 1158 dbSNP
rs59626465 1160 dbSNP
rs1327119743 1167 dbSNP
rs368442520 1169 dbSNP
rs1320414841 1170 dbSNP
rs372389959 1171 dbSNP
rs1387476240 1173 dbSNP
rs1367134376 1175 dbSNP
rs1227017281 1181 dbSNP
rs1289649150 1182 dbSNP
rs1320699846 1189 dbSNP
rs1159021511 1190 dbSNP
rs537843694 1197 dbSNP
rs1456133367 1203 dbSNP
rs1432144405 1204 dbSNP
rs1177562064 1206 dbSNP
rs573567181 1209 dbSNP
rs1266211164 1211 dbSNP
rs542494695 1212 dbSNP
rs1487059811 1213 dbSNP
rs1004044520 1214 dbSNP
rs373925773 1219 dbSNP
rs377139833 1220 dbSNP
rs1257729737 1224 dbSNP
rs991576908 1228 dbSNP
rs547876331 1229 dbSNP
rs1299378684 1235 dbSNP
rs112072625 1237 dbSNP
rs1433395654 1238 dbSNP
rs1406108678 1242 dbSNP
rs1165766253 1243 dbSNP
rs764494531 1244 dbSNP
rs1358699913 1251 dbSNP
rs971559461 1259 dbSNP
rs1450972622 1260 dbSNP
rs981123100 1262 dbSNP
rs924356087 1272 dbSNP
rs1342887022 1288 dbSNP
rs1258168234 1291 dbSNP
rs113825309 1295 dbSNP
rs1482943826 1296 dbSNP
rs1283902678 1298 dbSNP
rs1052535213 1299 dbSNP
rs1207444653 1303 dbSNP
rs550163139 1307 dbSNP
rs1297222276 1308 dbSNP
rs946966547 1316 dbSNP
rs1300548950 1317 dbSNP
rs374173001 1317 dbSNP
rs374592323 1317 dbSNP
rs1431148826 1319 dbSNP
rs1350832076 1321 dbSNP
rs1040111704 1326 dbSNP
rs899795629 1331 dbSNP
rs56067347 1332 dbSNP
rs892011597 1333 dbSNP
rs1010419847 1335 dbSNP
rs1254043751 1336 dbSNP
rs1185342126 1339 dbSNP
rs1236664276 1340 dbSNP
rs1473040672 1341 dbSNP
rs1185624425 1344 dbSNP
rs1483454075 1348 dbSNP
rs998176749 1349 dbSNP
rs1203285054 1352 dbSNP
rs1358865718 1357 dbSNP
rs1266430549 1358 dbSNP
rs1378755425 1374 dbSNP
rs1439345754 1379 dbSNP
rs925556028 1380 dbSNP
rs1290824645 1381 dbSNP
rs183938362 1387 dbSNP
rs1487544073 1390 dbSNP
rs1350586789 1392 dbSNP
rs187687966 1395 dbSNP
rs191214688 1399 dbSNP
rs1392492261 1400 dbSNP
rs1019112387 1402 dbSNP
rs1457277495 1405 dbSNP
rs1366628358 1406 dbSNP
rs1161295362 1407 dbSNP
rs1334153620 1408 dbSNP
rs1472919078 1410 dbSNP
rs539923696 1411 dbSNP
rs369316910 1413 dbSNP
rs1268373783 1415 dbSNP
rs886398957 1416 dbSNP
rs942037018 1419 dbSNP
rs757529828 1420 dbSNP
rs1374148961 1422 dbSNP
rs898404968 1428 dbSNP
rs184128364 1429 dbSNP
rs1023061997 1434 dbSNP
rs1028138242 1438 dbSNP
rs1439442010 1439 dbSNP
rs557435237 1448 dbSNP
rs1198654552 1449 dbSNP
rs1332460037 1451 dbSNP
rs1323867679 1454 dbSNP
rs1385952374 1456 dbSNP
rs775582477 1457 dbSNP
rs1161231722 1476 dbSNP
rs1008359988 1478 dbSNP
rs1205281118 1484 dbSNP
rs1236172143 1488 dbSNP
rs1439247023 1511 dbSNP
rs1020621439 1514 dbSNP
rs761031176 1515 dbSNP
rs1450166741 1517 dbSNP
rs1250326901 1524 dbSNP
rs1209799903 1533 dbSNP
rs1464815342 1534 dbSNP
rs577291640 1535 dbSNP
rs150543982 1538 dbSNP
rs1346518675 1540 dbSNP
rs975722080 1543 dbSNP
rs959591321 1562 dbSNP
rs1232112770 1565 dbSNP
rs990960683 1571 dbSNP
rs186993906 1574 dbSNP
rs556525951 1579 dbSNP
rs1435599746 1581 dbSNP
rs1387815580 1587 dbSNP
rs921511290 1588 dbSNP
rs1416187678 1606 dbSNP
rs1403009211 1607 dbSNP
rs970838334 1609 dbSNP
rs983978132 1612 dbSNP
rs1452784076 1618 dbSNP
rs907942824 1619 dbSNP
rs879942126 1620 dbSNP
rs942057456 1620 dbSNP
rs1449303087 1624 dbSNP
rs77927144 1637 dbSNP
rs1400040056 1638 dbSNP
rs1212862269 1640 dbSNP
rs1445561190 1643 dbSNP
rs919861168 1644 dbSNP
rs764173684 1645 dbSNP
rs1228855533 1670 dbSNP
rs542907803 1671 dbSNP
rs1364209257 1674 dbSNP
rs887205677 1680 dbSNP
rs1336981429 1683 dbSNP
rs1049598226 1699 dbSNP
rs1333552635 1718 dbSNP
rs139858456 1718 dbSNP
rs35328570 1723 dbSNP
rs898296305 1730 dbSNP
rs191482820 1744 dbSNP
rs1008058817 1755 dbSNP
rs1042565196 1756 dbSNP
rs902241818 1777 dbSNP
rs1473398083 1786 dbSNP
rs185196613 1790 dbSNP
rs1237456208 1795 dbSNP
rs768960641 1795 dbSNP
rs1000958073 1799 dbSNP
rs1276266824 1806 dbSNP
rs1457199780 1811 dbSNP
rs190095441 1814 dbSNP
rs533444249 1818 dbSNP
rs117754867 1819 dbSNP
rs1012412774 1821 dbSNP
rs955791080 1825 dbSNP
rs1198201436 1827 dbSNP
rs751205412 1830 dbSNP
rs1025177578 1849 dbSNP
rs73572641 1850 dbSNP
rs1021782416 1851 dbSNP
rs983623718 1852 dbSNP
rs907978655 1855 dbSNP
rs963472830 1877 dbSNP
rs1353024492 1883 dbSNP
rs1481669436 1885 dbSNP
rs1406387547 1886 dbSNP
rs112040706 1890 dbSNP
rs1163423994 1891 dbSNP
rs968282077 1903 dbSNP
rs796607356 1910 dbSNP
rs1253385538 1915 dbSNP
rs1182391599 1926 dbSNP
rs1480095164 1928 dbSNP
rs1230886944 1930 dbSNP
rs1223474467 1932 dbSNP
rs1169232300 1934 dbSNP
rs1288969010 1937 dbSNP
rs529606371 1940 dbSNP
rs1423345760 1941 dbSNP
rs1466503907 1942 dbSNP
rs1289041556 1943 dbSNP
rs1409328966 1950 dbSNP
rs545721321 1953 dbSNP
rs1398129788 1956 dbSNP
rs758325967 1971 dbSNP
rs1322236991 1973 dbSNP
rs1349669827 1981 dbSNP
rs921556545 1994 dbSNP
rs1459308280 2008 dbSNP
rs549654425 2019 dbSNP
rs1345611144 2030 dbSNP
rs1413411864 2030 dbSNP
rs932559972 2041 dbSNP
rs1159250270 2053 dbSNP
rs1418058259 2055 dbSNP
rs1405268054 2062 dbSNP
rs143183057 2067 dbSNP
rs1276304705 2072 dbSNP
rs779865027 2074 dbSNP
rs1252171677 2078 dbSNP
rs1227825896 2079 dbSNP
rs1466173160 2081 dbSNP
rs1268769039 2086 dbSNP
rs943892605 2097 dbSNP
rs1227849693 2104 dbSNP
rs182239521 2107 dbSNP
rs1303593877 2114 dbSNP
rs902273456 2114 dbSNP
rs940096561 2115 dbSNP
rs1220070105 2116 dbSNP
rs768372973 2128 dbSNP
rs551529141 2130 dbSNP
rs894851780 2134 dbSNP
rs1437778149 2136 dbSNP
rs146174796 2137 dbSNP
rs377432936 2138 dbSNP
rs1452346838 2148 dbSNP
rs556576964 2150 dbSNP
rs970986971 2156 dbSNP
rs1342952294 2157 dbSNP
rs1177724953 2163 dbSNP
rs1192087448 2170 dbSNP
rs1005482197 2177 dbSNP
rs1394140322 2183 dbSNP
rs1191509320 2191 dbSNP
rs907145846 2192 dbSNP
rs562439788 2193 dbSNP
rs963805627 2200 dbSNP
rs1031305514 2201 dbSNP
rs973445939 2203 dbSNP
rs1257861449 2205 dbSNP
rs1210978340 2207 dbSNP
rs1347392484 2207 dbSNP
rs1278542990 2229 dbSNP
rs1230993315 2230 dbSNP
rs1195731747 2235 dbSNP
rs1366379301 2236 dbSNP
rs1367092231 2237 dbSNP
rs535834637 2246 dbSNP
rs1029080346 2247 dbSNP
rs953394190 2248 dbSNP
rs1011654547 2252 dbSNP
rs1021395444 2257 dbSNP
rs987456945 2270 dbSNP
rs964802298 2285 dbSNP
rs912486930 2290 dbSNP
rs1162347987 2293 dbSNP
rs1390593055 2296 dbSNP
rs769125557 2304 dbSNP
rs1192325922 2311 dbSNP
rs369806820 2313 dbSNP
rs1426643519 2314 dbSNP
rs1182517866 2315 dbSNP
rs975618844 2318 dbSNP
rs772847078 2319 dbSNP
rs1485392036 2321 dbSNP
rs1278377712 2322 dbSNP
rs1207594385 2329 dbSNP
rs1343251327 2337 dbSNP
rs978337428 2339 dbSNP
rs1225747460 2342 dbSNP
rs923758670 2344 dbSNP
rs531650195 2350 dbSNP
rs1053499040 2359 dbSNP
rs1426055174 2363 dbSNP
rs1414806334 2364 dbSNP
rs553249601 2378 dbSNP
rs1310657907 2379 dbSNP
rs1411303596 2388 dbSNP
rs1167078432 2391 dbSNP
rs1339707282 2391 dbSNP
rs1370844667 2391 dbSNP
rs139760652 2404 dbSNP
rs947745151 2405 dbSNP
rs1165399122 2406 dbSNP
rs1338543853 2408 dbSNP
rs908789050 2417 dbSNP
rs1184499602 2422 dbSNP
rs961409662 2429 dbSNP
rs1194421714 2432 dbSNP
rs1046024605 2437 dbSNP
rs1292827949 2438 dbSNP
rs370084876 2442 dbSNP
rs920052662 2459 dbSNP
rs906792876 2460 dbSNP
rs948787483 2462 dbSNP
rs1290884220 2463 dbSNP
rs185636705 2464 dbSNP
rs772687797 2469 dbSNP
rs777544295 2473 dbSNP
rs1044238723 2488 dbSNP
rs150050960 2491 dbSNP
rs1389390865 2494 dbSNP
rs145401719 2495 dbSNP
rs543930563 2505 dbSNP
rs1293986399 2508 dbSNP
rs994997265 2511 dbSNP
rs1415632746 2515 dbSNP
rs1029111695 2518 dbSNP
rs1161456548 2518 dbSNP
rs373656136 2522 dbSNP
rs149204178 2523 dbSNP
rs987481462 2526 dbSNP
rs1453646874 2527 dbSNP
rs1423668219 2531 dbSNP
rs1018912410 2532 dbSNP
rs965677152 2536 dbSNP
rs900269355 2543 dbSNP
rs1186365722 2547 dbSNP
rs996291540 2556 dbSNP
rs978071707 2559 dbSNP
rs1385534830 2560 dbSNP
rs1278547702 2567 dbSNP
rs1028506223 2570 dbSNP
rs955560616 2574 dbSNP
rs1303835124 2576 dbSNP
rs1008398398 2580 dbSNP
rs923845375 2588 dbSNP
rs749141981 2591 dbSNP
rs1359359816 2593 dbSNP
rs1384390557 2595 dbSNP
rs368061697 2599 dbSNP
rs879055241 2600 dbSNP
rs1156996642 2603 dbSNP
rs1454232886 2623 dbSNP
rs1479117175 2631 dbSNP
rs961918084 2632 dbSNP
rs989253615 2640 dbSNP
rs762177956 2654 dbSNP
rs919881084 2658 dbSNP
rs1250387163 2667 dbSNP
rs1268538 2672 dbSNP
rs1395288537 2678 dbSNP
rs947779140 2688 dbSNP
rs1202892648 2691 dbSNP
rs1346678163 2699 dbSNP
rs59083468 2700 dbSNP
rs1280671289 2702 dbSNP
rs1233218111 2705 dbSNP
rs1046497800 2707 dbSNP
rs542620263 2720 dbSNP
rs1431424144 2732 dbSNP
rs760907785 2734 dbSNP
rs1316275260 2737 dbSNP
rs560015542 2738 dbSNP
rs1173265923 2739 dbSNP
rs1238255151 2747 dbSNP
rs1433178786 2748 dbSNP
rs1392440306 2750 dbSNP
rs561886361 2757 dbSNP
rs940348573 2764 dbSNP
rs1240933713 2770 dbSNP
rs1218559222 2776 dbSNP
rs1036650642 2779 dbSNP
rs764381689 2781 dbSNP
rs1345412706 2795 dbSNP
rs1276486659 2799 dbSNP
rs1214985986 2801 dbSNP
rs913163141 2805 dbSNP
rs995028375 2805 dbSNP
rs374402180 2813 dbSNP
rs1450231387 2814 dbSNP
rs1356185428 2830 dbSNP
rs947266678 2831 dbSNP
rs1413137916 2833 dbSNP
rs889211448 2843 dbSNP
rs528757514 2849 dbSNP
rs762080741 2850 dbSNP
rs1042733725 2851 dbSNP
rs1417920462 2853 dbSNP
rs900135297 2854 dbSNP
rs1475878672 2864 dbSNP
rs765299640 2867 dbSNP
rs1483117841 2872 dbSNP
rs1186667458 2878 dbSNP
rs551590922 2879 dbSNP
rs1051554463 2880 dbSNP
rs1253612048 2892 dbSNP
rs1204657517 2904 dbSNP
rs142392227 2909 dbSNP
rs1437035787 2914 dbSNP
rs890191327 2919 dbSNP
rs571496187 2927 dbSNP
rs530563870 2933 dbSNP
rs1292714271 2935 dbSNP
rs1015743189 2941 dbSNP
rs1245356376 2945 dbSNP
rs1462328973 2947 dbSNP
rs961669252 2957 dbSNP
rs1298975247 2959 dbSNP
rs1441848848 2967 dbSNP
rs1353151929 2976 dbSNP
rs1176453053 2982 dbSNP
rs550274189 2986 dbSNP
rs567217746 2995 dbSNP
rs750470094 2998 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 GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gggUGGUCGACGAGGGACCGGGu 5'
             :||| | ||  |||||||| 
Target 5' ugaGCCA-CCGC-ACCUGGCCC- 3'
18 - 37
2
miRNA  3' ggguggucgacgaggGACCgggu 5'
                         ||||    
Target 5' -------------ugCUGGgauu 3'
1 - 10
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 GSM4903830
Method / RBP HITS-CLIP / AGO
Cell line / Condition Human neurons / CTLTD_shCTL_b
Location of target site NM_181846 | 3UTR | CUCCUUUUUCAUCUAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161238
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903831
Method / RBP HITS-CLIP / AGO
Cell line / Condition Human neurons / 124TD_shELAVL3_a
Location of target site NM_181846 | 3UTR | CUCCUUUUUCAUCUAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161238
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_181846 | 3UTR | CCCAAAGCCUGGCCCUGCACACUGUCUCUGACUCACAGCAAUCAUCAGCACCUCUCUUUGCCUCCUACUUGCUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_181846 | 3UTR | CUGGCCCUGCACACUGUCUCUGACUCACAGCAAUCAUCAGCACCUCUCUUUGCCUCCUACUUGCUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000329665.4 | 3UTR | UGCUGGGAUUACAGGCGUGAGCCACCGCACCUGGCCC
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
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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