miRTarBase - #MIRT670545


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pre-miRNA Information
pre-miRNA hsa-mir-4697   
Genomic Coordinates chr11: 133898504 - 133898581
Description Homo sapiens miR-4697 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4697-5p
Sequence 10| AGGGGGCGCAGUCACUGACGUG |31
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs549326907 2 dbSNP
rs897782230 7 dbSNP
rs748950280 8 dbSNP
rs978998780 15 dbSNP
rs968922289 19 dbSNP
rs3802919 20 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SHISA2   
Synonyms C13orf13, PRO28631, TMEM46, WGAR9166, bA398O19.2, hShisa
Description shisa family member 2
Transcript NM_001007538   
Expression
Putative miRNA Targets on SHISA2
3'UTR of SHISA2
(miRNA target sites are highlighted)		 
>SHISA2|NM_001007538|3'UTR
   1 CCGAGAGTCACTGGTGGGTTCCTTTACTGAAGGGAGACGAAGGCAGGGGTGGATTCTCGAGGTGGAAGTCCGCACATGTC
  81 GGTGGTATTTATGGCACGATTCCTTTGGATGGCTTCATTTGCCCCCAGACTGTATGAAAACATCTCCGAATTAGCATTTC
 161 TGGATATGTTTCATCCAGGGTATCATTGATTTATGATGGAAAACCGGCCTCAGCTGGAGATGACTGTGATGTTGCTGATG
 241 GGTGTATAACAAATGCTTGAGTCCGAAGTGCCCTTGAGATATGGTTGACGAAAGAATTTTATAAACTGATAAATTAAGGA
 321 TTTTTATTATGTTGTTATTATTATTTCTTTTTTGTTGTTGACTGCACAGGATCAAAATGCCTGTTATCTCCCTTTTACCT
 401 GGGACTTTTTTTTTTTTTTTTTTTTTTTTTAATCAGACAGGGTCTTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGCGA
 481 TCTCGGCTCACTGCAACTTCAGCCTCCTGGATTCAGGCAACACTCCTGCCTCAGCCTCCCACGTGGCTGGGATTACAGGT
 561 GCCTGCCCCCATGGCTAATTTTTTGTATTTTTTGTAGAGATGGGGTTTCACCATGTTGGCTGGGCTGGTCTCACTCTCCT
 641 GACCTCAAGCAATCTGCCTGTCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCCCCCAGCCTGAGCCTT
 721 TTTTTTTTTCTAATGCATCCAAGGTTAAGGGGAAGACGCAAATAACAGGACTATTCTAAAAGGAAACCTGTTTGAACTCT
 801 GTGAGATCAGTCATCAGTCTCAGTATTCCACAGGCACACCTTAATTTCATTGTAAAAAGATATATATATTTTGTCTATTT
 881 TTGTGCTTTTGGGGGCCTATTTTGTGCTTTTTTACCTTATGTAGAGATCTTATTACAAAGTGATTTTCTACATTAAAAAG
 961 AGACTGAAATAAATTGTATAGTTACTTAACTAATGAAGACATTTCAGAACTCTGGGATGATTTTAATCTTGAAGTAGTAG
1041 GTGGTATAGTCATAAAACCATTCATCCCCTTCTTGATTGTATCTTAATTTTCTGGCTTTAAGGTGACATCTGAGAGGTAA
1121 TGCATTCTTTTTTATATTGAAATCATAAACTATCACCCGCTGCTTCTCTGAGTTACTTTTAATTTTGCCTTGTGGTTATG
1201 GTTTGGCGTTTCCTTCTGTTTGGTTTTCAGAGCCCCATGTCTATATAGTCCTGAGTGCAAGTAATTACTATACTTGTAAA
1281 TGAAGATCAGTATTTCTGCCTAGATCTGATAAAAAAATTTTCTTGTCTTAGTTATAAAAATTCAAAGAAATGTGTTACAA
1361 AGATACTTAGTATAGCTCCTCAGCCATAACCTGAGACTTGGGATGAAATTTAAACCAGATACGATTTACTTTGCAGATCA
1441 TAAGGCTTTTTATACTCTTGTTATCAAAATGGCTTATTTTTCAGGCACTAAGGATTGTTAAGAGAAAAGCTTTTCAACGA
1521 AGGATTGCCTTTCTTCTCCCACACTGTTCTTGATTTCCTCTCTCTTTCAGGCCTCAACAGGCACTGTATTCATTGCCAAT
1601 GTTCCAAATTATCAAATTCAAGTGAATTTATTTGTGTGTTCTTTACTTATATAAAAAAAGATAACTTTAAGGATGTGCAA
1681 GTACATTTCCAACTGCTAGCACAACCAGTATTTTGTAATTAAACAAATCGCTGTATGGTATGGTCTTCTACACATTTATG
1761 TCTATAGATATCTATCGATCATCTTTCTATTCTGTTTCATGACTGAATAATGTAAAACCAGTGTTGGCAATTGGTATCAT
1841 CAATGATACTCATTTTTTAATAACCAAAGGCAGGGGAAAATCATTTTACTTATTAATAAATATTTTATGATGTGAA
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' guGCAGUCACUGACGCGGGGGa 5'
            ||| ||  ||  ||||||| 
Target 5' ggCGTGAGCCAC--CGCCCCCa 3'
 690 - 709 156.00 -21.10
2 
miRNA  3' guGCAGUC-ACUG----ACGCGGGGGa 5'
            | |::| ||:|    | :|||||| 
Target 5' tcCTTTGGATGGCTTCATTTGCCCCCa 3'
 101 - 127 134.00 -16.00
3 
miRNA  3' gugcaGU-CACUGACGCGGGGGa 5'
               || ||| |  :|||||| 
Target 5' gattaCAGGTGCC--TGCCCCCa 3'
 551 - 571 133.00 -18.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30128676 11 COSMIC
COSN30452610 16 COSMIC
COSN30156942 21 COSMIC
COSN30103799 38 COSMIC
COSN30497558 48 COSMIC
COSN30503989 57 COSMIC
COSN5190072 58 COSMIC
COSN30127388 71 COSMIC
COSN5723279 76 COSMIC
COSN28966685 97 COSMIC
COSN30144823 117 COSMIC
COSN31537351 199 COSMIC
COSN17509690 364 COSMIC
COSN6225083 657 COSMIC
COSN6620985 692 COSMIC
COSN28286845 821 COSMIC
COSN6225082 828 COSMIC
COSN1604655 843 COSMIC
COSN21667452 852 COSMIC
COSN7396985 1015 COSMIC
COSN7396984 1016 COSMIC
COSN17403600 1318 COSMIC
COSN16508377 1394 COSMIC
COSN15847467 1395 COSMIC
COSN32055893 1422 COSMIC
COSN27623240 1653 COSMIC
COSN1604654 1911 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs146403601 2 dbSNP
rs1380318465 3 dbSNP
rs1333053151 6 dbSNP
rs768214860 11 dbSNP
rs779522832 13 dbSNP
rs372782057 16 dbSNP
rs755767538 18 dbSNP
rs961958258 21 dbSNP
rs745692161 24 dbSNP
rs193050920 34 dbSNP
rs368445846 38 dbSNP
rs375747110 39 dbSNP
rs765309472 43 dbSNP
rs759073425 46 dbSNP
rs1439951689 51 dbSNP
rs556931497 52 dbSNP
rs1352344471 58 dbSNP
rs773473299 59 dbSNP
rs1268337829 62 dbSNP
rs1479955650 63 dbSNP
rs776887966 71 dbSNP
rs1401421012 72 dbSNP
rs1013385334 75 dbSNP
rs867788076 80 dbSNP
rs537386967 81 dbSNP
rs936000568 85 dbSNP
rs568397430 90 dbSNP
rs1004644570 96 dbSNP
rs887593828 97 dbSNP
rs188381953 98 dbSNP
rs1041963205 103 dbSNP
rs183885174 113 dbSNP
rs912029576 126 dbSNP
rs986307606 130 dbSNP
rs572324303 134 dbSNP
rs1317674878 142 dbSNP
rs931762755 144 dbSNP
rs565782329 147 dbSNP
rs961658442 148 dbSNP
rs1470618952 154 dbSNP
rs950340089 163 dbSNP
rs913459576 167 dbSNP
rs1407083061 168 dbSNP
rs149430184 177 dbSNP
rs1164849310 179 dbSNP
rs1365489809 191 dbSNP
rs1403538912 204 dbSNP
rs1053297199 205 dbSNP
rs936175442 206 dbSNP
rs551944553 208 dbSNP
rs959069413 213 dbSNP
rs1347930483 222 dbSNP
rs1033085666 224 dbSNP
rs1167574258 227 dbSNP
rs1000211055 229 dbSNP
rs1220029083 232 dbSNP
rs1276551186 234 dbSNP
rs540620077 237 dbSNP
rs1181362083 242 dbSNP
rs903162447 243 dbSNP
rs1473848455 244 dbSNP
rs1184260366 245 dbSNP
rs1473385077 247 dbSNP
rs1041995821 265 dbSNP
rs1170977152 268 dbSNP
rs1397673763 270 dbSNP
rs1409682752 273 dbSNP
rs1327851668 276 dbSNP
rs1333608726 285 dbSNP
rs1454165368 285 dbSNP
rs985595166 286 dbSNP
rs371916687 289 dbSNP
rs745749374 290 dbSNP
rs1276623613 296 dbSNP
rs1339905235 306 dbSNP
rs1194996024 309 dbSNP
rs1271204022 313 dbSNP
rs1444324032 318 dbSNP
rs1204496771 326 dbSNP
rs1242644892 328 dbSNP
rs922630715 330 dbSNP
rs60205166 337 dbSNP
rs1212604800 341 dbSNP
rs1374127098 343 dbSNP
rs1466868674 346 dbSNP
rs932155741 346 dbSNP
rs966001715 347 dbSNP
rs920350549 348 dbSNP
rs1166483170 349 dbSNP
rs192088754 357 dbSNP
rs1470763288 364 dbSNP
rs983319776 365 dbSNP
rs951916727 368 dbSNP
rs1404724549 370 dbSNP
rs1228702168 381 dbSNP
rs1338547972 384 dbSNP
rs1297723863 387 dbSNP
rs1326924623 392 dbSNP
rs1268319920 393 dbSNP
rs1229592476 394 dbSNP
rs1226490410 395 dbSNP
rs1367440374 396 dbSNP
rs1457564165 397 dbSNP
rs1325371558 402 dbSNP
rs1321308888 403 dbSNP
rs951243502 404 dbSNP
rs1392585557 405 dbSNP
rs1460082593 406 dbSNP
rs1027443666 409 dbSNP
rs1001295225 422 dbSNP
rs1406289805 425 dbSNP
rs905577857 426 dbSNP
rs1023988576 427 dbSNP
rs1476677126 428 dbSNP
rs12871243 430 dbSNP
rs1176719846 431 dbSNP
rs1177670886 431 dbSNP
rs1203898262 431 dbSNP
rs1282955267 431 dbSNP
rs1316055407 431 dbSNP
rs1379760519 431 dbSNP
rs1381612958 431 dbSNP
rs1384993004 431 dbSNP
rs1405315714 431 dbSNP
rs1428165539 431 dbSNP
rs1467814415 431 dbSNP
rs1480927494 431 dbSNP
rs1483253302 431 dbSNP
rs199527456 431 dbSNP
rs56664482 431 dbSNP
rs57376936 431 dbSNP
rs1160793156 432 dbSNP
rs1199116659 432 dbSNP
rs1363882614 432 dbSNP
rs144570734 432 dbSNP
rs1490636007 432 dbSNP
rs200852086 432 dbSNP
rs1452362429 433 dbSNP
rs1156803433 434 dbSNP
rs1192488579 434 dbSNP
rs1367364440 434 dbSNP
rs1405373905 435 dbSNP
rs9507641 436 dbSNP
rs1452138462 443 dbSNP
rs371756701 450 dbSNP
rs1307888412 455 dbSNP
rs1335257232 464 dbSNP
rs891447120 467 dbSNP
rs1294642062 468 dbSNP
rs1360771825 477 dbSNP
rs1436999534 478 dbSNP
rs138913454 479 dbSNP
rs763520217 481 dbSNP
rs549788003 484 dbSNP
rs981737272 485 dbSNP
rs778786754 492 dbSNP
rs1179007157 497 dbSNP
rs1342808444 500 dbSNP
rs1387062423 501 dbSNP
rs1298363665 502 dbSNP
rs1053391997 505 dbSNP
rs1363488373 520 dbSNP
rs1463274667 525 dbSNP
rs936228768 527 dbSNP
rs1368925993 534 dbSNP
rs904730784 537 dbSNP
rs1050311224 542 dbSNP
rs932758971 543 dbSNP
rs150656885 545 dbSNP
rs1327285744 549 dbSNP
rs1412083452 566 dbSNP
rs976796924 567 dbSNP
rs916485303 571 dbSNP
rs940054513 572 dbSNP
rs561140334 574 dbSNP
rs757165434 588 dbSNP
rs12870924 595 dbSNP
rs113185350 602 dbSNP
rs951926685 613 dbSNP
rs1027498532 619 dbSNP
rs1432299904 624 dbSNP
rs980316181 624 dbSNP
rs1182922733 628 dbSNP
rs1383287323 630 dbSNP
rs969854404 634 dbSNP
rs1024496348 644 dbSNP
rs12874694 648 dbSNP
rs1170859355 660 dbSNP
rs12864686 666 dbSNP
rs1353660746 668 dbSNP
rs865984408 670 dbSNP
rs559797006 673 dbSNP
rs1469316606 675 dbSNP
rs866432716 679 dbSNP
rs1008884322 682 dbSNP
rs1183754480 683 dbSNP
rs9507640 692 dbSNP
rs891499114 693 dbSNP
rs1215572681 697 dbSNP
rs1208702068 702 dbSNP
rs1345798476 703 dbSNP
rs576301337 704 dbSNP
rs543448272 705 dbSNP
rs1372898957 710 dbSNP
rs879163753 711 dbSNP
rs1306086829 716 dbSNP
rs1216414900 717 dbSNP
rs1264548795 718 dbSNP
rs1031337430 719 dbSNP
rs1351537032 721 dbSNP
rs1000450572 722 dbSNP
rs1286934444 724 dbSNP
rs904740876 729 dbSNP
rs1412124443 730 dbSNP
rs1418538469 730 dbSNP
rs549236923 730 dbSNP
rs879606585 730 dbSNP
rs1312788546 732 dbSNP
rs1433471275 733 dbSNP
rs899290857 737 dbSNP
rs1178926101 741 dbSNP
rs1430240421 742 dbSNP
rs1469392105 745 dbSNP
rs1037419836 754 dbSNP
rs940480380 755 dbSNP
rs576108688 757 dbSNP
rs563374862 758 dbSNP
rs1176177985 759 dbSNP
rs1399710920 760 dbSNP
rs1046073337 763 dbSNP
rs1405385962 763 dbSNP
rs1407130025 763 dbSNP
rs9507639 774 dbSNP
rs574814500 778 dbSNP
rs1472784004 788 dbSNP
rs901327419 790 dbSNP
rs916498947 795 dbSNP
rs1256615437 796 dbSNP
rs1241434891 809 dbSNP
rs990728967 810 dbSNP
rs936505021 811 dbSNP
rs1480245076 820 dbSNP
rs1170996618 828 dbSNP
rs147040963 835 dbSNP
rs535229265 850 dbSNP
rs1159087463 852 dbSNP
rs908553199 859 dbSNP
rs760120916 863 dbSNP
rs1020367294 864 dbSNP
rs987481650 865 dbSNP
rs930576220 869 dbSNP
rs1210947849 870 dbSNP
rs1316452359 891 dbSNP
rs1282393770 894 dbSNP
rs536360509 896 dbSNP
rs1230525706 899 dbSNP
rs1223850389 914 dbSNP
rs954708252 916 dbSNP
rs1029658906 919 dbSNP
rs996408232 921 dbSNP
rs1330230684 928 dbSNP
rs899402611 929 dbSNP
rs1197041170 937 dbSNP
rs1234800022 942 dbSNP
rs1470590337 955 dbSNP
rs1176656635 964 dbSNP
rs1379050258 967 dbSNP
rs1016428363 970 dbSNP
rs1164704370 985 dbSNP
rs1365360023 1002 dbSNP
rs1403945121 1012 dbSNP
rs920486511 1014 dbSNP
rs1004990112 1019 dbSNP
rs1355892393 1022 dbSNP
rs768755594 1035 dbSNP
rs1442364289 1040 dbSNP
rs886221113 1049 dbSNP
rs1373960113 1051 dbSNP
rs1248085641 1058 dbSNP
rs1315574462 1060 dbSNP
rs1358534211 1067 dbSNP
rs376662583 1069 dbSNP
rs1275425813 1076 dbSNP
rs1412425639 1086 dbSNP
rs12100154 1104 dbSNP
rs1429380242 1105 dbSNP
rs1204050404 1110 dbSNP
rs777068755 1115 dbSNP
rs1236443037 1123 dbSNP
rs1446462319 1124 dbSNP
rs894772093 1130 dbSNP
rs1342977869 1135 dbSNP
rs1385156407 1137 dbSNP
rs1322124151 1140 dbSNP
rs141582654 1149 dbSNP
rs1169984912 1150 dbSNP
rs1420608457 1152 dbSNP
rs766850779 1158 dbSNP
rs569747975 1159 dbSNP
rs1397516593 1167 dbSNP
rs775401323 1168 dbSNP
rs1454104281 1169 dbSNP
rs1337381402 1186 dbSNP
rs1339769791 1191 dbSNP
rs1242398124 1193 dbSNP
rs1271734676 1200 dbSNP
rs1339755290 1207 dbSNP
rs1214220845 1208 dbSNP
rs936636011 1211 dbSNP
rs1462767980 1216 dbSNP
rs1204353386 1233 dbSNP
rs1243121903 1237 dbSNP
rs925171941 1239 dbSNP
rs1195905747 1241 dbSNP
rs1243058713 1243 dbSNP
rs1475256303 1244 dbSNP
rs1169591970 1245 dbSNP
rs1416814973 1245 dbSNP
rs1470690626 1246 dbSNP
rs977948396 1251 dbSNP
rs772170803 1272 dbSNP
rs1394226542 1276 dbSNP
rs1320143036 1304 dbSNP
rs77389674 1318 dbSNP
rs1162554833 1335 dbSNP
rs1425444747 1343 dbSNP
rs375811890 1351 dbSNP
rs955734171 1352 dbSNP
rs763348954 1358 dbSNP
rs999832894 1359 dbSNP
rs1185908545 1366 dbSNP
rs1262626634 1379 dbSNP
rs78448835 1381 dbSNP
rs17083086 1393 dbSNP
rs1263028919 1395 dbSNP
rs567577492 1418 dbSNP
rs547330642 1421 dbSNP
rs975147757 1422 dbSNP
rs185289178 1423 dbSNP
rs1272895594 1428 dbSNP
rs1041180633 1434 dbSNP
rs1231882553 1447 dbSNP
rs1376591919 1452 dbSNP
rs1323922410 1460 dbSNP
rs1160300587 1464 dbSNP
rs1385545097 1473 dbSNP
rs564972032 1476 dbSNP
rs1314042019 1485 dbSNP
rs1418922049 1488 dbSNP
rs1296136848 1494 dbSNP
rs1214560809 1496 dbSNP
rs1347120147 1500 dbSNP
rs1405786564 1518 dbSNP
rs748315703 1519 dbSNP
rs1004263148 1521 dbSNP
rs1016459673 1525 dbSNP
rs1005023092 1536 dbSNP
rs1321979078 1538 dbSNP
rs1215022180 1549 dbSNP
rs1294438607 1559 dbSNP
rs1490599904 1562 dbSNP
rs1435302158 1566 dbSNP
rs1393316981 1568 dbSNP
rs886586149 1574 dbSNP
rs1430995968 1575 dbSNP
rs776780815 1577 dbSNP
rs1363821965 1578 dbSNP
rs1048402412 1583 dbSNP
rs1013303959 1592 dbSNP
rs931339372 1596 dbSNP
rs182428372 1599 dbSNP
rs189919042 1605 dbSNP
rs1169648010 1607 dbSNP
rs1425046999 1622 dbSNP
rs1044737938 1629 dbSNP
rs948661062 1639 dbSNP
rs1393260441 1641 dbSNP
rs747894430 1644 dbSNP
rs768565695 1645 dbSNP
rs1426662766 1646 dbSNP
rs1388335450 1649 dbSNP
rs992625855 1650 dbSNP
rs955787077 1651 dbSNP
rs1042305321 1654 dbSNP
rs912363672 1660 dbSNP
rs945191834 1660 dbSNP
rs747087097 1663 dbSNP
rs1197140072 1668 dbSNP
rs1487314780 1668 dbSNP
rs1252580114 1672 dbSNP
rs113992606 1678 dbSNP
rs1176762541 1679 dbSNP
rs1387007676 1696 dbSNP
rs1489664657 1698 dbSNP
rs1051361432 1716 dbSNP
rs1266471797 1719 dbSNP
rs924333394 1725 dbSNP
rs1055252 1729 dbSNP
rs1306284194 1730 dbSNP
rs1298892148 1735 dbSNP
rs1399726319 1739 dbSNP
rs1444653936 1749 dbSNP
rs968823351 1751 dbSNP
rs1027985336 1759 dbSNP
rs757255359 1764 dbSNP
rs1369671406 1765 dbSNP
rs974801906 1770 dbSNP
rs1229174407 1771 dbSNP
rs963682086 1776 dbSNP
rs1316831773 1778 dbSNP
rs1196173692 1783 dbSNP
rs571939713 1787 dbSNP
rs965623105 1802 dbSNP
rs1019752123 1804 dbSNP
rs1388216398 1805 dbSNP
rs749151562 1817 dbSNP
rs185601592 1818 dbSNP
rs950893910 1822 dbSNP
rs1430019319 1825 dbSNP
rs1171476864 1828 dbSNP
rs181294082 1836 dbSNP
rs139016161 1838 dbSNP
rs1178711147 1842 dbSNP
rs752252505 1843 dbSNP
rs1447949588 1844 dbSNP
rs1301545548 1851 dbSNP
rs905234241 1863 dbSNP
rs1169188923 1865 dbSNP
rs1383120892 1866 dbSNP
rs1278488503 1869 dbSNP
rs1430466782 1870 dbSNP
rs1216358555 1871 dbSNP
rs1264487791 1873 dbSNP
rs571886932 1879 dbSNP
rs1045036644 1881 dbSNP
rs549785846 1893 dbSNP
rs531360998 1896 dbSNP
rs1435132842 1897 dbSNP
rs1268426226 1903 dbSNP
rs779667485 1903 dbSNP
rs1194093613 1908 dbSNP
rs1177018429 1909 dbSNP
rs541401472 1914 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' guGCAGUCACUGACGCGGGGga 5'
            ||| ||  ||  ||||||  
Target 5' ggCGUGAGCCAC--CGCCCC-- 3'
 		7 - 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 GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000319420.3 | 3UTR | AUUACAGGCGUGAGCCACCGCCCC
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
67 hsa-miR-4697-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT441332 C19orf26 CACN beta subunit associated regulatory protein 2 4
MIRT451390 FARSA phenylalanyl-tRNA synthetase alpha subunit 2 2
MIRT452310 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 2
MIRT455043 MEN1 menin 1 2 2
MIRT455256 DDX39B DExD-box helicase 39B 2 10
MIRT461279 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 2
MIRT464945 TXLNA taxilin alpha 2 4
MIRT468043 SIK1 salt inducible kinase 1 2 2
MIRT472523 NACC1 nucleus accumbens associated 1 2 2
MIRT472929 MSN moesin 2 2
MIRT473247 MIDN midnolin 2 2
MIRT475828 HDGF heparin binding growth factor 2 2
MIRT478744 CS citrate synthase 2 2
MIRT480081 CALR calreticulin 2 2
MIRT483482 STMN3 stathmin 3 2 4
MIRT483643 QSOX2 quiescin sulfhydryl oxidase 2 2 4
MIRT483721 THSD4 thrombospondin type 1 domain containing 4 2 2
MIRT484539 BARHL1 BarH like homeobox 1 2 6
MIRT486041 WSCD1 WSC domain containing 1 2 4
MIRT486142 SIX5 SIX homeobox 5 2 6
MIRT486498 MYH11 myosin heavy chain 11 2 2
MIRT486977 STEAP3 STEAP3 metalloreductase 2 4
MIRT487279 AGPAT6 glycerol-3-phosphate acyltransferase 4 2 4
MIRT487742 MIB2 mindbomb E3 ubiquitin protein ligase 2 2 2
MIRT487987 RXRB retinoid X receptor beta 2 2
MIRT488338 PAX2 paired box 2 2 2
MIRT488668 WWP2 WW domain containing E3 ubiquitin protein ligase 2 2 4
MIRT488752 FXYD1 FXYD domain containing ion transport regulator 1 2 2
MIRT488812 TBC1D28 TBC1 domain family member 28 2 2
MIRT489380 RAB11B RAB11B, member RAS oncogene family 2 2
MIRT489744 TACC3 transforming acidic coiled-coil containing protein 3 2 2
MIRT489960 GNB2 G protein subunit beta 2 2 2
MIRT490418 VPS51 VPS51, GARP complex subunit 2 4
MIRT490639 FEM1A fem-1 homolog A 2 2
MIRT491086 MSI1 musashi RNA binding protein 1 2 4
MIRT491298 VGF VGF nerve growth factor inducible 2 4
MIRT491366 SLC12A5 solute carrier family 12 member 5 2 2
MIRT492464 RASD1 ras related dexamethasone induced 1 2 4
MIRT492872 NFIX nuclear factor I X 2 2
MIRT492951 NEUROD2 neuronal differentiation 2 2 2
MIRT493704 H2AFX H2A histone family member X 2 2
MIRT493977 EIF1 eukaryotic translation initiation factor 1 2 4
MIRT500360 ZNF385A zinc finger protein 385A 2 2
MIRT501154 SLC10A7 solute carrier family 10 member 7 2 6
MIRT509625 RRP7A ribosomal RNA processing 7 homolog A 2 4
MIRT512232 ATG2A autophagy related 2A 2 8
MIRT529822 ARGFX arginine-fifty homeobox 2 4
MIRT531179 SIGLEC12 sialic acid binding Ig like lectin 12 (gene/pseudogene) 2 2
MIRT538971 BCL7A BCL tumor suppressor 7A 2 2
MIRT548357 ENTPD5 ectonucleoside triphosphate diphosphohydrolase 5 2 4
MIRT553634 TJAP1 tight junction associated protein 1 2 2
MIRT558050 EVI5L ecotropic viral integration site 5 like 2 2
MIRT562548 CCDC71L coiled-coil domain containing 71 like 2 4
MIRT568941 RUNX3 runt related transcription factor 3 2 2
MIRT569114 ONECUT3 one cut homeobox 3 2 2
MIRT573591 CERS1 ceramide synthase 1 2 2
MIRT619317 ARHGAP18 Rho GTPase activating protein 18 2 2
MIRT621202 ARPC1B actin related protein 2/3 complex subunit 1B 2 2
MIRT628844 FAM151B family with sequence similarity 151 member B 2 2
MIRT670497 LYRM4 LYR motif containing 4 2 2
MIRT670545 SHISA2 shisa family member 2 2 2
MIRT671026 PCDHB2 protocadherin beta 2 2 2
MIRT688989 ATP6AP1 ATPase H+ transporting accessory protein 1 2 2
MIRT709275 MAPK8IP2 mitogen-activated protein kinase 8 interacting protein 2 2 2
MIRT715084 ELOF1 elongation factor 1 homolog 2 2
MIRT718348 NPBWR1 neuropeptides B and W receptor 1 2 2
MIRT737406 MMP7 matrix metallopeptidase 7 2 0
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4697 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-4697-5p Fulvestrant 17756771 NSC719276 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-4697-5p Paclitaxel 36314 NSC125973 approved resistant High Breast Cancer cell line (Bads-200, Bats-72, BCap37)
hsa-miR-4697-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (CAL-27) (total RNA)
hsa-miR-4697-5p Osimertinib 71496458 NSC779217 approved resistant cell line (H1975)
hsa-miR-4697-5p Cisplatin 5460033 NSC119875 approved resistant cell line (MGC-803)
hsa-miR-4697-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4697-5p Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4697-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-4697-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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