pre-miRNA Information
pre-miRNA hsa-mir-4707   
Genomic Coordinates chr14: 22956950 - 22957029
Description Homo sapiens miR-4707 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4707-3p
Sequence 52| AGCCCGCCCCAGCCGAGGUUCU |73
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1180125593 2 dbSNP
rs1390998288 5 dbSNP
rs2273626 6 dbSNP
rs765507627 7 dbSNP
rs1299611135 9 dbSNP
rs1158707105 11 dbSNP
rs535691977 15 dbSNP
rs952013388 17 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ZMYM4   
Synonyms CDIR, MYM, ZNF198L3, ZNF262
Description zinc finger MYM-type containing 4
Transcript NM_005095   
Expression
Putative miRNA Targets on ZMYM4
3'UTR of ZMYM4
(miRNA target sites are highlighted)
>ZMYM4|NM_005095|3'UTR
   1 AACGGAAGTGAGGTTCTTATTTTCATACATATTGGTATGCACCAAACTGTGAATGCATCCAGCTGTTGGAAAATGATGTA
  81 TAAGTCTAAGTCCTCTTGACTTGACCATAAGATCATGGAAAACAGATGACTTGTGAACCCCACAGTGTGGATGTGCAAAT
 161 GAAAATTGAAGGAAAGAATATGAACTGAGAAATGTTCTTTGGCAGTGATATAGTTCTTAGACATCTTCAGAATGACTAAT
 241 TTCTCCGAGTGGTGCATAATCTTATTTTGTTTGGGAGTAACAAATCGTGGAATATTTTTAAGGAAAACTGTTGTATAAAA
 321 CTTTACCATAGTAACCTTAGACCTTAGAGAGGTAGCTTTGGAGTGAAACTTTGGCTGCAATAGGCTACTTTGGCAAGCCC
 401 TCCGTAAAAGTCAGAGGAGAGATCAGTACAGAGCTAAGAGTGACATCAAATGAGGACTGTGGGACCCAGATTTGAAGACC
 481 CAATAAAAATACTCAACTTTTTAAAAAAGATAGTGAAGTGGTCTTGATTGATTTTGATTTTCACTGCCAAGCCAATCATG
 561 TGAAGGACAGAAGCTTTTGCCATGGGCCCCTCACATCAGGGAAAATGACCTTCACTGCTGTTAACAGTAATGTGTCCCTT
 641 TCATTTTCTGGATCAAGCCTTCTCAGCGGTGGGTCTGGATGTGGGTAAACTAAGGTAAAGGGGATGATATTCCACAAACT
 721 AATTATGCACACAGAAAATCTGTGGAGCCTATCAGACCCCAAGTGTCTTGAAATGTTTGTAGAAACCCACTAAAATGCCC
 801 CTTCTCTGGGTGTGGGCCCTTATTGCAGCTGTCTCACAGCCTGAGCTGTGGTACAGAGAAATGGGGGTTCTCCTTTTATT
 881 TTCATTTTTTTTCCCCAATGGCAGCTTTTCTCCCGTTGTTTTACCTTCCTATTTCCCAAACAGTTCCTCTTATTTTGTCT
 961 TTTGCACCAGTTTCTGGAGGCCCTTGTCATTTCAAAAAGGATAGTCTCTTTTCTTACTCTGGCAAACCTGTGAGTGATTC
1041 CACAAAGATACAGTATTACTTAGCTATCTGAATTATGATAGAAAAGGTCCTAGTTAGGTTCCTATATAAAGCATTTGGAA
1121 GATGACCTTGTTGCCCTTGAAACTTGAAAATAGGGATTCTGGGGTGAGGATACAAAGACATTGTCTTGCATATCCATAAG
1201 CAGGTCTTAGAGCATTATTCCAAACTCTAGCTGTTTCAGTAGTTCTATGAGGATTGCAAGTCATAGGTGTGTGTGGCATA
1281 TCAGTCCATCTCCCTCATCTCCATTCTCAGTTTCTTCCCCACAAAATTTGGAATCAAAGCTTTTATGACGTTTGCCAATT
1361 GCAGAACTTCTTCAGCTAAGGTTAATTTGACGCTATGATAAAACTGAGAGATGTCAAAAAGCCTCTTAGAAATTTTAATC
1441 TTGAAAGACTTTTCAGGGTATCTCATTTTTTAGGTGGGGGTGGCAGGTGTATTTCTTTTTTAACAAATAAAAGGCATTTA
1521 AGTAAAACTAAAATGAAAAAAGTAGGCCTTCTGACATTGTGTACTTGGTGGTTCTGTCCCTCTGCCTGTAACAAATCTCA
1601 TTTTTGTTACCAAGAACTGTATGAAAGAAGTAAATCCACCCCGATTCTGTATGATTAATTCCATCTGTGTTTGTCATTTC
1681 TGACTGGAAAACTTCTTACTCCATACCTTGTTCGATATGGAGGACAAATAATTGGATTGTCTGATAAGTCTGCCAATAAA
1761 CTATCCAGAAATAGCAAGTGTAATAGTCCCCACTATACGAATTTTATGGTTTGTATAAACACTAACATTTTCCCCTTCTG
1841 TAGTTGTATGAAAAAACAAATATTGTTAGCATAGTAGATAAATTGTTATGAAATACCAGAAAAAAAAATCTGTATCTTTT
1921 ACTGAGAACACCCAATACCCAGATAAATGACTGTATCAGGATTTCATTTGCATGTTAGTCCACAGAGTTGCCCAGAACCC
2001 TAAATTTATTCATAAGAGAAAATATTGATTAATTATTGGTCATTCCTCATAAGTGTAGCTGTTGATGTGTGCGTCTGATT
2081 ATTGCTTTTTTAATTTTATGAAAATTGTGTAAAATTACATTTTTTTTCCAGGGGAGAAAAAAACATCAAACAAAAACATC
2161 TAAATCATCCTTTTTGTTCTTTTTCAGTTTTTAACCACTTTTAGGTTTTCCCCTTACAGAAACCACAGAAATATTCCCTT
2241 AGAATAAAATAGTATATTTGTATTTGAAAAAAAAAAAAAAAAAA
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' ucUUGGAGCCGACCCCGCCCGa 5'
            |:|||:  | | ||:|||: 
Target 5' caAGCCTTCTCAGCGGTGGGTc 3'
654 - 675 128.00 -15.60
2
miRNA  3' ucuuGGAGCCGACCC-CGCCCGa 5'
              |||:  ||||| |:|||| 
Target 5' tgccCCTTCTCTGGGTGTGGGCc 3'
796 - 818 122.00 -24.00
3
miRNA  3' ucuUGGAG--CCGACCCCGCCCga 5'
             |:|||    :|  ||:|||  
Target 5' ggtATCTCATTTTTTAGGTGGGgg 3'
1457 - 1480 109.00 -12.84
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30141967 4 COSMIC
COSN30496336 35 COSMIC
COSN31611708 119 COSMIC
COSN21797152 144 COSMIC
COSN31547959 191 COSMIC
COSN31534902 198 COSMIC
COSN30165561 246 COSMIC
COSN28701048 287 COSMIC
COSN1444261 353 COSMIC
COSN22816021 418 COSMIC
COSN31523621 449 COSMIC
COSN14857354 574 COSMIC
COSN27951336 915 COSMIC
COSN31590558 945 COSMIC
COSN27082052 1034 COSMIC
COSN31483863 1069 COSMIC
COSN31584486 1082 COSMIC
COSN30543829 1450 COSMIC
COSN10047809 1466 COSMIC
COSN30172538 1496 COSMIC
COSN31562576 1636 COSMIC
COSN31521701 1684 COSMIC
COSN31517712 1714 COSMIC
COSN31566329 1800 COSMIC
COSN31487774 1803 COSMIC
COSN29578288 1857 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs761595362 4 dbSNP
rs376508495 5 dbSNP
rs749974117 6 dbSNP
rs762926057 7 dbSNP
rs766344468 8 dbSNP
rs1042627894 14 dbSNP
rs201263391 19 dbSNP
rs1169147632 21 dbSNP
rs1380536156 22 dbSNP
rs1422378102 23 dbSNP
rs754780794 26 dbSNP
rs1309617683 28 dbSNP
rs780890830 28 dbSNP
rs754022232 29 dbSNP
rs1407347197 30 dbSNP
rs757495636 31 dbSNP
rs371101207 33 dbSNP
rs745954469 36 dbSNP
rs753999569 48 dbSNP
rs1301053953 57 dbSNP
rs1367290359 59 dbSNP
rs761826524 60 dbSNP
rs1328158850 61 dbSNP
rs1334008608 66 dbSNP
rs1444496975 69 dbSNP
rs1001124715 70 dbSNP
rs765331241 72 dbSNP
rs1244130677 81 dbSNP
rs889948342 84 dbSNP
rs1187503942 87 dbSNP
rs1195706885 87 dbSNP
rs1007410319 95 dbSNP
rs995950824 104 dbSNP
rs1025718748 116 dbSNP
rs1435503503 122 dbSNP
rs187408630 127 dbSNP
rs1238322915 129 dbSNP
rs1002643722 130 dbSNP
rs1443628021 145 dbSNP
rs1161325832 148 dbSNP
rs1035461757 157 dbSNP
rs1386837467 159 dbSNP
rs1164188345 166 dbSNP
rs958542023 167 dbSNP
rs1167217774 168 dbSNP
rs571355149 183 dbSNP
rs991330509 185 dbSNP
rs532200135 189 dbSNP
rs1394253387 193 dbSNP
rs1399181982 207 dbSNP
rs1463712913 211 dbSNP
rs547619497 212 dbSNP
rs1400431247 213 dbSNP
rs994133875 223 dbSNP
rs1021497301 233 dbSNP
rs1317487611 239 dbSNP
rs779638314 240 dbSNP
rs950732656 246 dbSNP
rs984715035 247 dbSNP
rs909066228 248 dbSNP
rs1196957049 252 dbSNP
rs1258109969 261 dbSNP
rs977526544 270 dbSNP
rs924374739 272 dbSNP
rs1460525743 276 dbSNP
rs959215925 287 dbSNP
rs552668249 288 dbSNP
rs1192217411 293 dbSNP
rs933091105 294 dbSNP
rs987237774 303 dbSNP
rs1317576210 305 dbSNP
rs1171342889 308 dbSNP
rs1405408295 309 dbSNP
rs912707525 312 dbSNP
rs1338896182 317 dbSNP
rs1403201254 322 dbSNP
rs1197013449 325 dbSNP
rs1293881049 328 dbSNP
rs1042078604 336 dbSNP
rs1260197327 338 dbSNP
rs1481004825 343 dbSNP
rs372049177 373 dbSNP
rs1199885413 381 dbSNP
rs923626192 395 dbSNP
rs1254760179 398 dbSNP
rs1257334440 403 dbSNP
rs565935601 404 dbSNP
rs1204250035 405 dbSNP
rs1259356445 411 dbSNP
rs1188732593 415 dbSNP
rs936948411 419 dbSNP
rs1428550616 429 dbSNP
rs748978907 432 dbSNP
rs55850358 435 dbSNP
rs1178665156 436 dbSNP
rs1359888717 440 dbSNP
rs536561832 444 dbSNP
rs1453288641 448 dbSNP
rs1287386501 452 dbSNP
rs533487142 455 dbSNP
rs889970313 458 dbSNP
rs942817934 491 dbSNP
rs188136949 504 dbSNP
rs1225951043 507 dbSNP
rs1041158041 512 dbSNP
rs376580544 521 dbSNP
rs1312304329 522 dbSNP
rs201477944 522 dbSNP
rs1258603958 529 dbSNP
rs994251060 532 dbSNP
rs1217068359 553 dbSNP
rs1025684155 555 dbSNP
rs1172379090 560 dbSNP
rs1201559526 574 dbSNP
rs1400500414 586 dbSNP
rs567681828 589 dbSNP
rs1418602812 591 dbSNP
rs36016233 599 dbSNP
rs1465156190 600 dbSNP
rs1157144454 609 dbSNP
rs1365766943 610 dbSNP
rs751655480 611 dbSNP
rs1300559015 615 dbSNP
rs755153486 660 dbSNP
rs1396511016 661 dbSNP
rs180938573 668 dbSNP
rs556364541 669 dbSNP
rs1390343501 692 dbSNP
rs1016156874 696 dbSNP
rs1355393761 700 dbSNP
rs959478902 701 dbSNP
rs781350857 704 dbSNP
rs1220172660 715 dbSNP
rs990576293 735 dbSNP
rs1223613313 743 dbSNP
rs1024763057 752 dbSNP
rs1480312562 760 dbSNP
rs369532304 762 dbSNP
rs79228706 763 dbSNP
rs977800756 779 dbSNP
rs923625671 792 dbSNP
rs1232715614 800 dbSNP
rs936327489 802 dbSNP
rs1254300181 811 dbSNP
rs1426967093 819 dbSNP
rs990152833 823 dbSNP
rs1166052670 824 dbSNP
rs911445453 836 dbSNP
rs768717105 837 dbSNP
rs1295944225 844 dbSNP
rs1378530115 846 dbSNP
rs768374301 847 dbSNP
rs1041273126 851 dbSNP
rs901333436 854 dbSNP
rs930071749 856 dbSNP
rs1229826832 858 dbSNP
rs1290436765 861 dbSNP
rs1047121997 871 dbSNP
rs1212262776 872 dbSNP
rs1202433978 873 dbSNP
rs1260040092 873 dbSNP
rs1183165843 885 dbSNP
rs1458311216 885 dbSNP
rs879157919 885 dbSNP
rs545267989 893 dbSNP
rs1487519631 895 dbSNP
rs139847064 896 dbSNP
rs1427231048 899 dbSNP
rs1173518407 910 dbSNP
rs867346638 914 dbSNP
rs1016599050 915 dbSNP
rs1423974132 916 dbSNP
rs752799936 917 dbSNP
rs1173400246 919 dbSNP
rs895104432 920 dbSNP
rs1284563541 932 dbSNP
rs1012113495 934 dbSNP
rs1212713251 938 dbSNP
rs1024796072 947 dbSNP
rs1318644593 956 dbSNP
rs970516333 966 dbSNP
rs1261429143 968 dbSNP
rs1444327694 980 dbSNP
rs572363228 987 dbSNP
rs977830122 989 dbSNP
rs1241872814 990 dbSNP
rs1485112378 995 dbSNP
rs1196420992 996 dbSNP
rs1424980480 1001 dbSNP
rs773757527 1001 dbSNP
rs1030722809 1002 dbSNP
rs1422527126 1028 dbSNP
rs1157981831 1033 dbSNP
rs756377454 1034 dbSNP
rs1334454388 1042 dbSNP
rs1344331939 1044 dbSNP
rs957950962 1048 dbSNP
rs989120043 1049 dbSNP
rs1341066791 1059 dbSNP
rs910876124 1064 dbSNP
rs1281421521 1065 dbSNP
rs376924314 1080 dbSNP
rs1347280975 1091 dbSNP
rs964323052 1105 dbSNP
rs1283863554 1107 dbSNP
rs976989301 1119 dbSNP
rs1219268831 1123 dbSNP
rs1337164624 1152 dbSNP
rs1298578475 1157 dbSNP
rs1264424451 1159 dbSNP
rs922786445 1161 dbSNP
rs190168290 1169 dbSNP
rs143291212 1170 dbSNP
rs1478735538 1180 dbSNP
rs575933548 1197 dbSNP
rs1188619 1211 dbSNP
rs777990186 1215 dbSNP
rs1352139575 1221 dbSNP
rs1055835537 1228 dbSNP
rs1219294339 1248 dbSNP
rs894470608 1255 dbSNP
rs1012144659 1258 dbSNP
rs1046276031 1263 dbSNP
rs1279131737 1279 dbSNP
rs1242673422 1283 dbSNP
rs1348798675 1283 dbSNP
rs564828066 1285 dbSNP
rs1359232429 1293 dbSNP
rs1220837009 1297 dbSNP
rs1292677375 1307 dbSNP
rs1243031698 1309 dbSNP
rs1488330194 1318 dbSNP
rs1452768435 1320 dbSNP
rs539608140 1322 dbSNP
rs1268944404 1323 dbSNP
rs547577150 1329 dbSNP
rs1031173115 1330 dbSNP
rs1380631140 1334 dbSNP
rs957850554 1337 dbSNP
rs1011064334 1346 dbSNP
rs140655874 1350 dbSNP
rs1405944369 1351 dbSNP
rs1328268774 1355 dbSNP
rs963689168 1356 dbSNP
rs1310289096 1359 dbSNP
rs1382440277 1363 dbSNP
rs977018648 1369 dbSNP
rs1157515688 1371 dbSNP
rs771398093 1375 dbSNP
rs1378477254 1377 dbSNP
rs1357654680 1380 dbSNP
rs1195794334 1385 dbSNP
rs531917211 1392 dbSNP
rs779447721 1393 dbSNP
rs1421411785 1394 dbSNP
rs150046438 1395 dbSNP
rs951533454 1396 dbSNP
rs1185130691 1399 dbSNP
rs1370046534 1405 dbSNP
rs1349120199 1412 dbSNP
rs1167309755 1428 dbSNP
rs1456134525 1433 dbSNP
rs771531921 1434 dbSNP
rs1467272836 1437 dbSNP
rs1292015800 1439 dbSNP
rs181395009 1445 dbSNP
rs35407644 1454 dbSNP
rs1441819009 1460 dbSNP
rs1394566183 1461 dbSNP
rs1308578656 1466 dbSNP
rs1341484977 1472 dbSNP
rs569965394 1478 dbSNP
rs879292587 1481 dbSNP
rs537840627 1482 dbSNP
rs1315453333 1490 dbSNP
rs776988670 1492 dbSNP
rs1258213193 1496 dbSNP
rs1198416163 1505 dbSNP
rs1460597897 1505 dbSNP
rs1257987380 1515 dbSNP
rs550194976 1536 dbSNP
rs1192327708 1548 dbSNP
rs1056265320 1556 dbSNP
rs915933728 1560 dbSNP
rs1285531473 1565 dbSNP
rs950028747 1568 dbSNP
rs1321504234 1569 dbSNP
rs1464704728 1571 dbSNP
rs1304858991 1576 dbSNP
rs771443594 1588 dbSNP
rs1046308326 1589 dbSNP
rs1382016520 1595 dbSNP
rs550440668 1596 dbSNP
rs1296825613 1599 dbSNP
rs906422001 1612 dbSNP
rs999845791 1615 dbSNP
rs571603016 1618 dbSNP
rs1278247288 1620 dbSNP
rs1266904510 1622 dbSNP
rs1230554692 1630 dbSNP
rs1257423676 1640 dbSNP
rs1052308548 1642 dbSNP
rs186738265 1643 dbSNP
rs1260834944 1644 dbSNP
rs1489227614 1648 dbSNP
rs1010676775 1680 dbSNP
rs1468637885 1687 dbSNP
rs80245192 1697 dbSNP
rs1235807197 1707 dbSNP
rs1178426085 1714 dbSNP
rs963719775 1715 dbSNP
rs1283999079 1717 dbSNP
rs760187228 1732 dbSNP
rs568653889 1738 dbSNP
rs1412904291 1750 dbSNP
rs1401122427 1764 dbSNP
rs1029921031 1773 dbSNP
rs1421895088 1775 dbSNP
rs951644144 1779 dbSNP
rs1384570268 1780 dbSNP
rs41267247 1785 dbSNP
rs1331308080 1794 dbSNP
rs1017125986 1799 dbSNP
rs191861229 1800 dbSNP
rs963180040 1807 dbSNP
rs1217184823 1815 dbSNP
rs1264799662 1819 dbSNP
rs1487514930 1820 dbSNP
rs1351873359 1821 dbSNP
rs991604479 1822 dbSNP
rs1330872069 1854 dbSNP
rs1418694176 1861 dbSNP
rs915964819 1864 dbSNP
rs1382505631 1866 dbSNP
rs1420731286 1880 dbSNP
rs554834048 1884 dbSNP
rs1348657143 1890 dbSNP
rs1449007116 1895 dbSNP
rs981449093 1896 dbSNP
rs1280664322 1897 dbSNP
rs1379068547 1898 dbSNP
rs200375626 1900 dbSNP
rs576721574 1901 dbSNP
rs1445552549 1904 dbSNP
rs776562155 1912 dbSNP
rs543006304 1913 dbSNP
rs775512329 1915 dbSNP
rs1306657984 1945 dbSNP
rs564907547 1951 dbSNP
rs1052761753 1952 dbSNP
rs893656118 1954 dbSNP
rs1319850247 1965 dbSNP
rs946513896 1975 dbSNP
rs1039479970 1982 dbSNP
rs899542896 1986 dbSNP
rs1198800749 1993 dbSNP
rs1196944490 2000 dbSNP
rs576831795 2002 dbSNP
rs1335133200 2003 dbSNP
rs1440637590 2007 dbSNP
rs1181621975 2033 dbSNP
rs1412160599 2038 dbSNP
rs1426040655 2043 dbSNP
rs541151749 2046 dbSNP
rs761738315 2050 dbSNP
rs1255688086 2070 dbSNP
rs1349904763 2072 dbSNP
rs763188855 2073 dbSNP
rs1029363232 2074 dbSNP
rs1402009300 2076 dbSNP
rs1204589193 2086 dbSNP
rs1236901014 2108 dbSNP
rs765241571 2117 dbSNP
rs559515840 2119 dbSNP
rs1216887114 2120 dbSNP
rs1317305199 2120 dbSNP
rs570670775 2120 dbSNP
rs1260138129 2124 dbSNP
rs1418331269 2128 dbSNP
rs1266864544 2131 dbSNP
rs1477348665 2137 dbSNP
rs1478958191 2141 dbSNP
rs1458377894 2144 dbSNP
rs1170245876 2154 dbSNP
rs1004486984 2157 dbSNP
rs529896446 2158 dbSNP
rs1484454836 2165 dbSNP
rs1421685222 2169 dbSNP
rs1411788575 2180 dbSNP
rs1423559798 2186 dbSNP
rs1477162199 2188 dbSNP
rs1425201744 2196 dbSNP
rs962920297 2196 dbSNP
rs991580754 2197 dbSNP
rs1329623722 2199 dbSNP
rs1359136094 2202 dbSNP
rs764278469 2212 dbSNP
rs1194630536 2215 dbSNP
rs1305060525 2220 dbSNP
rs1356539683 2234 dbSNP
rs55641211 2256 dbSNP
rs1218340627 2261 dbSNP
rs1023088867 2269 dbSNP
rs971486802 2271 dbSNP
rs1275971286 2276 dbSNP
rs183663752 2276 dbSNP
rs942855286 2279 dbSNP
rs1214687430 2280 dbSNP
rs1277262342 2281 dbSNP
rs375528612 2288 dbSNP
rs1212187728 2290 dbSNP
rs934631367 2291 dbSNP
rs1263002551 2311 dbSNP
rs988088777 2313 dbSNP
rs1196532412 2327 dbSNP
rs1264650790 2332 dbSNP
rs1475475284 2340 dbSNP
rs1039941008 2344 dbSNP
rs920204909 2348 dbSNP
rs189112020 2351 dbSNP
rs1415874462 2356 dbSNP
rs1039595567 2361 dbSNP
rs1174021626 2361 dbSNP
rs1417763051 2367 dbSNP
rs1299985959 2373 dbSNP
rs1047529217 2381 dbSNP
rs1435852015 2382 dbSNP
rs756999174 2382 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 GSM1084041. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep1 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ucUUGGAGCCG-ACC-CCGCCCGa 5'
            |:||  ||| ||| ||||||| 
Target 5' uuAGCC-GGGCGUGGUGGCGGGCg 3'
4 - 26
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 GSM1084041
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep1
Location of target site ENST00000314607.6 | 3UTR | AAGUUAGCCGGGCGUGGUGGCGGGCGCCUGUAGUCC
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
91 hsa-miR-4707-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT442514 SYT7 synaptotagmin 7 2 4
MIRT457799 NQO2 N-ribosyldihydronicotinamide:quinone reductase 2 2 2
MIRT466318 THRA thyroid hormone receptor, alpha 2 2
MIRT486129 TRAF3 TNF receptor associated factor 3 2 2
MIRT492341 SEPT8 septin 8 2 2
MIRT495690 KCNC3 potassium voltage-gated channel subfamily C member 3 2 2
MIRT496928 DPYSL5 dihydropyrimidinase like 5 2 2
MIRT499518 MAFK MAF bZIP transcription factor K 2 2
MIRT501367 REXO1 RNA exonuclease 1 homolog 2 4
MIRT501636 PIAS4 protein inhibitor of activated STAT 4 2 4
MIRT521071 SLC25A16 solute carrier family 25 member 16 2 2
MIRT525700 PCYT2 phosphate cytidylyltransferase 2, ethanolamine 2 2
MIRT532722 DDTL D-dopachrome tautomerase like 2 2
MIRT533137 WWC1 WW and C2 domain containing 1 2 4
MIRT537288 G3BP1 G3BP stress granule assembly factor 1 2 4
MIRT570555 PHF21B PHD finger protein 21B 2 2
MIRT573469 MTRNR2L9 MT-RNR2-like 9 2 2
MIRT576750 Tmem127 transmembrane protein 127 2 2
MIRT609342 DAAM2 dishevelled associated activator of morphogenesis 2 2 2
MIRT610638 PIGM phosphatidylinositol glycan anchor biosynthesis class M 2 2
MIRT612591 RANGAP1 Ran GTPase activating protein 1 2 2
MIRT614237 WDR53 WD repeat domain 53 2 4
MIRT622784 PGK1 phosphoglycerate kinase 1 2 2
MIRT628880 MED16 mediator complex subunit 16 2 2
MIRT629550 SPN sialophorin 2 2
MIRT634714 DDX19B DEAD-box helicase 19B 2 2
MIRT634932 GTF2H2C GTF2H2 family member C 2 4
MIRT635341 RBL1 RB transcriptional corepressor like 1 2 2
MIRT637838 CPT1A carnitine palmitoyltransferase 1A 2 2
MIRT644311 NFKBID NFKB inhibitor delta 2 2
MIRT649206 KIAA1715 lunapark, ER junction formation factor 2 2
MIRT657262 HSPA4L heat shock protein family A (Hsp70) member 4 like 2 2
MIRT658919 DPY19L4 dpy-19 like 4 2 2
MIRT663608 SEC23B Sec23 homolog B, coat complex II component 2 2
MIRT667425 MFAP2 microfibril associated protein 2 2 2
MIRT667667 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT668144 GDPD1 glycerophosphodiester phosphodiesterase domain containing 1 2 2
MIRT668540 ERGIC1 endoplasmic reticulum-golgi intermediate compartment 1 2 2
MIRT670039 NFRKB nuclear factor related to kappaB binding protein 2 2
MIRT670875 RAB10 RAB10, member RAS oncogene family 2 2
MIRT672694 ZNF677 zinc finger protein 677 2 2
MIRT673107 MFSD2A major facilitator superfamily domain containing 2A 2 2
MIRT673508 TNFAIP8L1 TNF alpha induced protein 8 like 1 2 4
MIRT674244 NUP62 nucleoporin 62 2 4
MIRT676541 IRGQ immunity related GTPase Q 2 2
MIRT676787 CXorf38 chromosome X open reading frame 38 2 4
MIRT677600 PRKX protein kinase, X-linked 2 2
MIRT678607 MRPL17 mitochondrial ribosomal protein L17 2 2
MIRT678940 MYADM myeloid associated differentiation marker 2 2
MIRT679104 CD99 CD99 molecule (Xg blood group) 2 2
MIRT679196 WNT2B Wnt family member 2B 2 2
MIRT679325 ZMYM4 zinc finger MYM-type containing 4 2 2
MIRT679634 BRMS1L breast cancer metastasis-suppressor 1 like 2 2
MIRT679819 TMEM106B transmembrane protein 106B 2 2
MIRT679898 FBXO48 F-box protein 48 2 2
MIRT680579 ZNF784 zinc finger protein 784 2 2
MIRT680600 SZT2 SZT2, KICSTOR complex subunit 2 2
MIRT682991 RNF40 ring finger protein 40 2 4
MIRT683483 ZNF7 zinc finger protein 7 2 2
MIRT683681 MICA MHC class I polypeptide-related sequence A 2 2
MIRT684122 CEP104 centrosomal protein 104 2 2
MIRT684774 MYO1F myosin IF 2 2
MIRT685698 BHMT2 betaine--homocysteine S-methyltransferase 2 2 2
MIRT686471 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT687940 HMGB1 high mobility group box 1 2 2
MIRT688627 CRISPLD2 cysteine rich secretory protein LCCL domain containing 2 2 2
MIRT689110 ZBTB25 zinc finger and BTB domain containing 25 2 2
MIRT690063 MBD1 methyl-CpG binding domain protein 1 2 2
MIRT691067 NUGGC nuclear GTPase, germinal center associated 2 2
MIRT691317 KIAA1841 KIAA1841 2 2
MIRT692778 SYNPO2L synaptopodin 2 like 2 2
MIRT694087 KIAA0930 KIAA0930 2 2
MIRT696148 WDR59 WD repeat domain 59 2 2
MIRT696176 GNB5 G protein subunit beta 5 2 2
MIRT696434 SUGP1 SURP and G-patch domain containing 1 2 2
MIRT697974 TSPAN6 tetraspanin 6 2 2
MIRT698917 SPEM1 spermatid maturation 1 2 2
MIRT699312 SLC35F5 solute carrier family 35 member F5 2 4
MIRT700500 PTPN4 protein tyrosine phosphatase, non-receptor type 4 2 2
MIRT700557 PTBP1 polypyrimidine tract binding protein 1 2 2
MIRT701817 MRPL37 mitochondrial ribosomal protein L37 2 2
MIRT702045 METTL21A methyltransferase like 21A 2 2
MIRT702215 LPCAT1 lysophosphatidylcholine acyltransferase 1 2 2
MIRT702337 KLHL7 kelch like family member 7 2 2
MIRT704139 DNAL1 dynein axonemal light chain 1 2 2
MIRT704189 LDHD lactate dehydrogenase D 2 2
MIRT705344 ATP1B3 ATPase Na+/K+ transporting subunit beta 3 2 2
MIRT706097 ENTPD4 ectonucleoside triphosphate diphosphohydrolase 4 2 2
MIRT709068 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT717579 VTA1 vesicle trafficking 1 2 2
MIRT722440 ZBTB7B zinc finger and BTB domain containing 7B 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4707 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4707 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4707 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-4707 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-4707-3p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4707-3p Tripterygium wilfordii Hook F sensitive tissue
hsa-miR-4707-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4707-3p Tamoxifen 2733525 NSC180973 approved resistant cell line (LCC2)
hsa-miR-4707-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4707-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)

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