pre-miRNA Information
pre-miRNA hsa-mir-3622b   
Genomic Coordinates chr8: 27701673 - 27701767
Description Homo sapiens miR-3622b stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3622b-3p
Sequence 58| UCACCUGAGCUCCCGUGCCUG |78
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1232922758 2 dbSNP
rs530939348 5 dbSNP
rs1439657384 10 dbSNP
rs1157333896 12 dbSNP
rs66683138 14 dbSNP
rs1044808718 15 dbSNP
rs946438979 19 dbSNP
rs551845360 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol COQ7   
Synonyms CAT5, CLK-1, CLK1, COQ10D8
Description coenzyme Q7, hydroxylase
Transcript NM_016138   
Expression
Putative miRNA Targets on COQ7
3'UTR of COQ7
(miRNA target sites are highlighted)
>COQ7|NM_016138|3'UTR
   1 AGTGTGTCCAGTTTTGCCTGTCTATAAAAGATGATAGTAATTTACCAAGTGACATTTGCAGAGAAACAGGTGTACAGTTA
  81 TCGTTGTACTTTTGTACAATGTGAATTTTGTTAATAAATTATAAGGTTTGTTTTTTTTTTTTTAAACTCTGCAGTGTTGA
 161 TTTTTCTCTGGGTTGTTTTTTCTGCCATGAGACCAACAGGTCACCAGCCTTGTTCAAGTTACAGCAAACGAAGCTGGGCC
 241 TTGTTTGGTCTCATACTTAATTTTCTTTTATATACATGTTTTTCTTTTACATGCATATATATATATTTTATTTTATTTTA
 321 TGTTTTTTGGAGACAGGGCCTCGCTCTTTTGTCCAGGCCGGGTCACAACTCACTGCAGCCTGGACCTCCTAGCCTCAAGC
 401 AATCCACCCACCTCAGCCTTCCAAGTAGCTGGGACTACAGGTGTGCACCACCACAGCTGGCTAATTCTATTTTTTTATAG
 481 AGGCGAAGTCTCACTATGTCGCCAGGCTGGTCTCTAACTCCTGGGCTCAGTGATCCTCCCGTTTCGACTTCCCAAAGTGC
 561 TGGGATTACAGGTGTGAGCCACTTCACCAGGCCCATTTTCTCCTAAAACTTCAAGGACAAATCATTAATAATGTAACAGG
 641 AATCTTTAGGAGAAAAAACAATTTGGTTTACTGATAACAAAAGATAATTGGAAACATGAGAGTATTTGAGATTGGCCAAG
 721 CAGAACTATGAAGTCCATCAAGTAAGTCAAAGATCATCGTTTCTGTTTTGAATTGTGGGTGATAATGGGTGGGAGAGTGC
 801 TACAGTCTGTATGTCTGTGTCTCCCTAGAATTCATACGATGAAATCTTCACTCTCAAGTTGATAGAAGGTGGGGCCCTTG
 881 GGAAGTGTGAGGTCATGAGAGTGGAGCCCTCATGAATGGGATCAGTGCCTTATGAAAGGCCCTAGAGAGATACCTCATCC
 961 TCTCCACAGTGTGAGACTTCAAGGGGAAGTATGAGACTTCTCTGAGGAAGCAGACCCTTCACAAGCAAAATCAGCCAGCA
1041 CTTTGATCACGGACTTCCCAGCCTCTAGGACTGTGAGCAATAAATGTTTGATGTTTATAAGCCACCCAGACTGTGGTATT
1121 TTGTTATAGCAGCCTGAACAGACTAAGACGGGGGTGTTGCTTCCATCAAAGGATGTACTAAGTTGTGGATTATTTGTGAA
1201 ATTGAATTACAACCTTTTCCTTAAGGTCTTTTACCACCTCCCCCCCAAAAAAATCCCCCAAAACTGATTCAGATTTTCAT
1281 ACTTTAATGAAATATTTTATAATTTGCAAATTTTTAAGTAATTTATGAAAAACCTAGATCAGTGGATCTCCTCTCTGGCT
1361 GCCCATTAGAATGTCCTGTGGAGATTAAACTTTTTTTTTTCAGTTTATGGACCAAGAGTTTTGATTTATTTAGGGTGGAG
1441 TTCAGGATCAGAATGGTTTCAGAAGCTCCCAGGTGATTCCGGAGTGAGTTGGAGCTGCAAGCCCCTGAGCTAGATTATAA
1521 GATGCTTCTGGGAAAGAACCACATTTTAGGAATTTGCTTCCCACCCAGTGCCCTGCATTTAATCAGCACCTGATGACTTG
1601 GCAGGACTTGCCCCACCAGGGTCTGGCTTTGAAGGGTAGTGGACACCAGGATCCTTTGGATTAATCCTCTGCCACCTCTC
1681 TCTTTTCCTCAACCGAGAGTGAATTTATGTAATTGAGTGAAAGTCTACGAATCATAATTGTAATAAATTAAGGCTGGGCA
1761 TTTGTTTGAAATTAGATAGGATAAAGCCAAAGGTTTGAACAAGTTGTGGATGGTTTGTAAAAATTAATCTTACAAAATAA
1841 ATGCTGTGTGTGAACACGTTGATTAAATTCAAAAGGGTATTATTTGGTTTTTCTGTAAATTGAACCTTGAAATAAAAGCA
1921 CAACAAGGTTTTCTTAAAAAAAA
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' gucCGUG-CCCUCGAGUCCACu 5'
             |::| |||| : |||||| 
Target 5' aaaGTGCTGGGATTACAGGTGt 3'
554 - 575 130.00 -18.80
2
miRNA  3' gucCGUGCCCUCGAGUCCACu 5'
             || :|||| : |||||| 
Target 5' gtaGC-TGGGACTACAGGTGt 3'
425 - 444 129.00 -19.50
3
miRNA  3' guccgugcCCUCGAGUCCacu 5'
                  ||||:|||||   
Target 5' tttagggtGGAGTTCAGGatc 3'
1429 - 1449 121.00 -18.92
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26585526 12 COSMIC
COSN17153920 36 COSMIC
COSN30475168 47 COSMIC
COSN30190558 59 COSMIC
COSN31574492 64 COSMIC
COSN31542092 108 COSMIC
COSN27423415 144 COSMIC
COSN5758866 144 COSMIC
COSN24875320 1051 COSMIC
COSN8493965 1087 COSMIC
COSN23798481 1271 COSMIC
COSN16624207 1602 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1436431229 2 dbSNP
rs1399143388 5 dbSNP
rs1393898436 7 dbSNP
rs1412480502 11 dbSNP
rs780086359 18 dbSNP
rs747175126 20 dbSNP
rs755005491 21 dbSNP
rs202044023 22 dbSNP
rs1306834479 24 dbSNP
rs149173028 36 dbSNP
rs770803214 39 dbSNP
rs778681178 41 dbSNP
rs774161284 43 dbSNP
rs879624282 45 dbSNP
rs936910317 53 dbSNP
rs1256816633 55 dbSNP
rs1353829481 59 dbSNP
rs1211338977 60 dbSNP
rs1267600885 68 dbSNP
rs142332343 72 dbSNP
rs1180433158 73 dbSNP
rs368428708 81 dbSNP
rs8051232 83 dbSNP
rs945472219 83 dbSNP
rs1011718826 84 dbSNP
rs1021898945 85 dbSNP
rs1292084942 86 dbSNP
rs890464479 88 dbSNP
rs1356943994 89 dbSNP
rs1334462461 90 dbSNP
rs531603133 93 dbSNP
rs1039439533 95 dbSNP
rs1299673647 99 dbSNP
rs985691210 100 dbSNP
rs1466025739 101 dbSNP
rs1417108265 102 dbSNP
rs574064449 106 dbSNP
rs995146417 107 dbSNP
rs1047588868 113 dbSNP
rs1181427782 127 dbSNP
rs1369244768 127 dbSNP
rs1164108560 130 dbSNP
rs886245958 130 dbSNP
rs1422750072 131 dbSNP
rs34110874 131 dbSNP
rs74014442 131 dbSNP
rs74269320 131 dbSNP
rs550713638 134 dbSNP
rs1284420463 135 dbSNP
rs1396013777 144 dbSNP
rs776471500 144 dbSNP
rs1237800780 145 dbSNP
rs1409026950 152 dbSNP
rs1305906275 153 dbSNP
rs1352277275 167 dbSNP
rs1023966514 172 dbSNP
rs969702603 189 dbSNP
rs1020060959 193 dbSNP
rs569188224 199 dbSNP
rs1410294373 207 dbSNP
rs1001188327 209 dbSNP
rs1338252166 210 dbSNP
rs193246269 212 dbSNP
rs958339205 217 dbSNP
rs1265708627 218 dbSNP
rs184450957 219 dbSNP
rs544307769 230 dbSNP
rs781203153 231 dbSNP
rs914091873 240 dbSNP
rs1179620808 241 dbSNP
rs966828758 243 dbSNP
rs918638396 244 dbSNP
rs1483671764 250 dbSNP
rs1187952287 254 dbSNP
rs1204062315 273 dbSNP
rs189337490 275 dbSNP
rs1262164041 277 dbSNP
rs1240575040 278 dbSNP
rs1370049590 293 dbSNP
rs1301148939 295 dbSNP
rs943432700 295 dbSNP
rs1331622038 297 dbSNP
rs983889248 308 dbSNP
rs191825438 314 dbSNP
rs1387392814 316 dbSNP
rs930593079 321 dbSNP
rs1434484170 322 dbSNP
rs746103159 325 dbSNP
rs1046304819 326 dbSNP
rs1393586234 335 dbSNP
rs1195913056 339 dbSNP
rs1372748006 341 dbSNP
rs1242076900 342 dbSNP
rs1191805055 343 dbSNP
rs1048081307 344 dbSNP
rs927661202 352 dbSNP
rs112627785 360 dbSNP
rs1430154394 361 dbSNP
rs905659373 364 dbSNP
rs1052622019 365 dbSNP
rs1269578248 369 dbSNP
rs1376852158 372 dbSNP
rs1397301412 384 dbSNP
rs1032707547 394 dbSNP
rs1328350741 397 dbSNP
rs957231611 398 dbSNP
rs1011160615 399 dbSNP
rs1021184907 400 dbSNP
rs1415442475 401 dbSNP
rs893532572 403 dbSNP
rs1166721321 406 dbSNP
rs183996363 407 dbSNP
rs964820542 411 dbSNP
rs1193767482 423 dbSNP
rs555890182 426 dbSNP
rs1485110365 434 dbSNP
rs1043270236 439 dbSNP
rs189081030 447 dbSNP
rs920626802 453 dbSNP
rs1007181912 455 dbSNP
rs374083217 459 dbSNP
rs1019859288 460 dbSNP
rs965759879 465 dbSNP
rs545167426 468 dbSNP
rs907829884 470 dbSNP
rs1484499968 475 dbSNP
rs375187470 478 dbSNP
rs1315065656 480 dbSNP
rs867105147 484 dbSNP
rs949966745 485 dbSNP
rs76799999 497 dbSNP
rs1390999240 498 dbSNP
rs1170723437 499 dbSNP
rs1449895551 499 dbSNP
rs749610839 501 dbSNP
rs536891198 502 dbSNP
rs1467470382 504 dbSNP
rs916450900 508 dbSNP
rs1472926893 512 dbSNP
rs892812172 513 dbSNP
rs1010352313 522 dbSNP
rs1019960316 523 dbSNP
rs1432245725 526 dbSNP
rs1258679330 533 dbSNP
rs969193781 541 dbSNP
rs982440478 542 dbSNP
rs1329456007 546 dbSNP
rs927871384 548 dbSNP
rs1372883019 553 dbSNP
rs1278095816 556 dbSNP
rs1019139017 564 dbSNP
rs572300808 565 dbSNP
rs1325899240 569 dbSNP
rs974855854 570 dbSNP
rs1365432635 573 dbSNP
rs1052085408 588 dbSNP
rs561101308 589 dbSNP
rs1028117933 600 dbSNP
rs952153294 606 dbSNP
rs914891208 609 dbSNP
rs1299577114 630 dbSNP
rs1441364923 631 dbSNP
rs1314472910 638 dbSNP
rs181750614 648 dbSNP
rs983896074 659 dbSNP
rs1267235580 661 dbSNP
rs946475941 662 dbSNP
rs556769815 665 dbSNP
rs1050162129 667 dbSNP
rs1316512852 673 dbSNP
rs1282467920 675 dbSNP
rs1242753391 685 dbSNP
rs889995155 701 dbSNP
rs774976097 702 dbSNP
rs74841864 715 dbSNP
rs1210641346 717 dbSNP
rs1370391030 718 dbSNP
rs1248919238 722 dbSNP
rs981294972 728 dbSNP
rs562587039 730 dbSNP
rs1156562563 738 dbSNP
rs937136371 740 dbSNP
rs994593037 743 dbSNP
rs533145902 747 dbSNP
rs892917264 747 dbSNP
rs1269409036 749 dbSNP
rs1191810242 751 dbSNP
rs1485618932 757 dbSNP
rs1240576145 759 dbSNP
rs1025674509 760 dbSNP
rs551492362 767 dbSNP
rs770596454 769 dbSNP
rs1314426216 780 dbSNP
rs1302648536 782 dbSNP
rs1009173976 786 dbSNP
rs1360745236 787 dbSNP
rs566603880 790 dbSNP
rs527746963 792 dbSNP
rs73528967 803 dbSNP
rs1023635987 807 dbSNP
rs759242262 810 dbSNP
rs764785904 812 dbSNP
rs1035368530 816 dbSNP
rs1379273602 817 dbSNP
rs956671513 819 dbSNP
rs1176793355 824 dbSNP
rs559525939 834 dbSNP
rs988449194 835 dbSNP
rs1417400387 836 dbSNP
rs370288419 838 dbSNP
rs528211784 839 dbSNP
rs983485301 840 dbSNP
rs1209152730 842 dbSNP
rs1484477744 844 dbSNP
rs1160683270 848 dbSNP
rs1388947188 850 dbSNP
rs1435235076 852 dbSNP
rs946359942 852 dbSNP
rs538204851 870 dbSNP
rs1306282875 885 dbSNP
rs1014891257 888 dbSNP
rs1219963841 890 dbSNP
rs762626817 893 dbSNP
rs1311941227 897 dbSNP
rs556809566 898 dbSNP
rs772482468 903 dbSNP
rs571301498 906 dbSNP
rs75907431 907 dbSNP
rs1041193762 909 dbSNP
rs1398064925 913 dbSNP
rs937272288 914 dbSNP
rs990414023 916 dbSNP
rs914400037 921 dbSNP
rs945801155 926 dbSNP
rs1425784269 928 dbSNP
rs1041465980 938 dbSNP
rs764071448 941 dbSNP
rs1479919466 942 dbSNP
rs72777500 943 dbSNP
rs1047301655 945 dbSNP
rs1199954142 948 dbSNP
rs1219730003 948 dbSNP
rs140482392 952 dbSNP
rs900788243 960 dbSNP
rs1341921415 968 dbSNP
rs141953305 976 dbSNP
rs1049723356 981 dbSNP
rs887921623 981 dbSNP
rs376500045 987 dbSNP
rs186924963 989 dbSNP
rs1023691272 1000 dbSNP
rs781258375 1001 dbSNP
rs905254859 1015 dbSNP
rs554467776 1016 dbSNP
rs1369296684 1019 dbSNP
rs1181496506 1020 dbSNP
rs1438280235 1021 dbSNP
rs1365416975 1023 dbSNP
rs576180149 1026 dbSNP
rs1034337615 1041 dbSNP
rs958902970 1043 dbSNP
rs543392701 1051 dbSNP
rs956735464 1052 dbSNP
rs1162320362 1053 dbSNP
rs1278886568 1054 dbSNP
rs914410413 1060 dbSNP
rs1458764877 1063 dbSNP
rs564821208 1070 dbSNP
rs1238049217 1071 dbSNP
rs1374475767 1072 dbSNP
rs1311187694 1073 dbSNP
rs1447346995 1088 dbSNP
rs146504690 1091 dbSNP
rs1307757876 1095 dbSNP
rs1370182938 1100 dbSNP
rs1321623502 1112 dbSNP
rs1388635770 1113 dbSNP
rs140878310 1114 dbSNP
rs1412153615 1116 dbSNP
rs1289524439 1117 dbSNP
rs1022179689 1128 dbSNP
rs1418247911 1135 dbSNP
rs866229907 1142 dbSNP
rs912346225 1144 dbSNP
rs1378613296 1150 dbSNP
rs560075062 1151 dbSNP
rs943764685 1154 dbSNP
rs985764709 1157 dbSNP
rs1292337176 1166 dbSNP
rs910321474 1174 dbSNP
rs1222977316 1175 dbSNP
rs1351067540 1183 dbSNP
rs1287829065 1184 dbSNP
rs1240634382 1195 dbSNP
rs756422660 1197 dbSNP
rs920924653 1202 dbSNP
rs932238150 1203 dbSNP
rs976230967 1212 dbSNP
rs1049293556 1213 dbSNP
rs1299152797 1216 dbSNP
rs1434545478 1221 dbSNP
rs1423674010 1226 dbSNP
rs922834666 1231 dbSNP
rs1004973417 1240 dbSNP
rs887946209 1240 dbSNP
rs930097056 1241 dbSNP
rs72777502 1242 dbSNP
rs907322190 1243 dbSNP
rs888671753 1244 dbSNP
rs1179570440 1245 dbSNP
rs1002901097 1246 dbSNP
rs28591563 1247 dbSNP
rs549454201 1248 dbSNP
rs777237487 1251 dbSNP
rs1432005076 1253 dbSNP
rs1309224429 1254 dbSNP
rs1011913072 1256 dbSNP
rs1359060009 1260 dbSNP
rs1445950072 1264 dbSNP
rs1285977626 1268 dbSNP
rs1021511359 1277 dbSNP
rs1227863537 1281 dbSNP
rs1336575235 1296 dbSNP
rs1415494204 1304 dbSNP
rs905180480 1306 dbSNP
rs150152863 1310 dbSNP
rs1476580527 1316 dbSNP
rs1206996704 1327 dbSNP
rs912380010 1329 dbSNP
rs1194020403 1334 dbSNP
rs1441723432 1352 dbSNP
rs1035510362 1363 dbSNP
rs1207429404 1370 dbSNP
rs1235462268 1383 dbSNP
rs892299753 1387 dbSNP
rs1196819647 1391 dbSNP
rs201112499 1391 dbSNP
rs975159912 1391 dbSNP
rs1320180861 1393 dbSNP
rs1258802179 1401 dbSNP
rs1238638434 1402 dbSNP
rs1444715382 1403 dbSNP
rs1187605859 1404 dbSNP
rs1387914154 1408 dbSNP
rs1451759254 1410 dbSNP
rs531920823 1415 dbSNP
rs1449262906 1419 dbSNP
rs1335657869 1420 dbSNP
rs1022233812 1424 dbSNP
rs1329987561 1447 dbSNP
rs967933227 1449 dbSNP
rs1463600649 1454 dbSNP
rs1401757400 1457 dbSNP
rs920946986 1460 dbSNP
rs1007463140 1470 dbSNP
rs1404354313 1476 dbSNP
rs749709536 1480 dbSNP
rs372040228 1481 dbSNP
rs776603899 1482 dbSNP
rs190518768 1485 dbSNP
rs761741489 1487 dbSNP
rs550249511 1492 dbSNP
rs909507993 1495 dbSNP
rs1176631483 1496 dbSNP
rs940928140 1498 dbSNP
rs975860443 1504 dbSNP
rs1359885034 1509 dbSNP
rs1220962875 1511 dbSNP
rs879481672 1518 dbSNP
rs1318841930 1530 dbSNP
rs779379861 1537 dbSNP
rs1229231214 1538 dbSNP
rs1353521977 1541 dbSNP
rs1307539227 1542 dbSNP
rs1449576544 1552 dbSNP
rs748670274 1556 dbSNP
rs1230367879 1558 dbSNP
rs1435192843 1561 dbSNP
rs1347744008 1563 dbSNP
rs1270496861 1566 dbSNP
rs138577008 1570 dbSNP
rs894473112 1571 dbSNP
rs375253224 1585 dbSNP
rs982891405 1594 dbSNP
rs149280117 1595 dbSNP
rs1217475649 1596 dbSNP
rs146948044 1611 dbSNP
rs1487577903 1613 dbSNP
rs772649165 1614 dbSNP
rs1488092758 1621 dbSNP
rs1284259476 1634 dbSNP
rs965185010 1636 dbSNP
rs562872521 1639 dbSNP
rs8062491 1642 dbSNP
rs1301256490 1644 dbSNP
rs1465934843 1647 dbSNP
rs1218125384 1650 dbSNP
rs111752888 1658 dbSNP
rs1294791504 1676 dbSNP
rs939307695 1678 dbSNP
rs1405128710 1683 dbSNP
rs1359537126 1686 dbSNP
rs952562496 1689 dbSNP
rs1246418798 1693 dbSNP
rs113985138 1695 dbSNP
rs776340595 1696 dbSNP
rs928809046 1702 dbSNP
rs1477594724 1712 dbSNP
rs1261364493 1721 dbSNP
rs758966335 1726 dbSNP
rs8062203 1728 dbSNP
rs1043603164 1729 dbSNP
rs894600622 1731 dbSNP
rs1314491874 1742 dbSNP
rs1456809233 1745 dbSNP
rs1302716134 1751 dbSNP
rs182299531 1758 dbSNP
rs1223635257 1761 dbSNP
rs1156973735 1769 dbSNP
rs1391126366 1773 dbSNP
rs947442461 1784 dbSNP
rs1385317112 1789 dbSNP
rs533564670 1800 dbSNP
rs903157539 1811 dbSNP
rs1360857132 1815 dbSNP
rs1176853763 1830 dbSNP
rs998791905 1833 dbSNP
rs1007522160 1834 dbSNP
rs1019504197 1839 dbSNP
rs773255597 1844 dbSNP
rs1478281004 1847 dbSNP
rs1255854352 1849 dbSNP
rs769529753 1852 dbSNP
rs1257143244 1858 dbSNP
rs997562613 1858 dbSNP
rs996726172 1859 dbSNP
rs1316828796 1862 dbSNP
rs115626993 1873 dbSNP
rs1220028375 1877 dbSNP
rs1265628749 1878 dbSNP
rs369475532 1888 dbSNP
rs1394112302 1889 dbSNP
rs1381239252 1894 dbSNP
rs984494523 1901 dbSNP
rs36051305 1905 dbSNP
rs1337388209 1906 dbSNP
rs540881310 1918 dbSNP
rs1015230219 1919 dbSNP
rs962847010 1922 dbSNP
rs1450290709 1925 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_124A_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + A HITS-CLIP data was present in Chi_124B_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + B HITS-CLIP data was present in Chi_ControlA_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control A HITS-CLIP data was present in Chi_ControlB_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control B ...

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

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_124A_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell miR-124 + A
Location of target site ENST00000321998.5 | 3UTR | AUAGGAAAAAUACAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
CLIP-seq Viewer Link
CLIP-seq Support 2 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 ENST00000321998.5 | 3UTR | AUAGGAAAAAUACAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset Chi_ControlA_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control A
Location of target site ENST00000321998.5 | 3UTR | AUAGGAAAAAUACAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset Chi_ControlB_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control B
Location of target site ENST00000321998.5 | 3UTR | AUAGGAAAAAUACAGG
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
THCA -0.133 0.39 0.036 0.47 7 Click to see details
THCA -0.133 0.39 0.036 0.47 7 Click to see details
THCA -0.133 0.39 0.036 0.47 7 Click to see details
THCA -0.133 0.39 0.036 0.47 7 Click to see details
THCA -0.133 0.39 0.036 0.47 7 Click to see details
THCA -0.133 0.39 0.036 0.47 7 Click to see details
102 hsa-miR-3622b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT076713 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT080212 PRKACB protein kinase cAMP-activated catalytic subunit beta 2 2
MIRT081398 GTPBP3 GTP binding protein 3, mitochondrial 2 2
MIRT107158 ZBTB43 zinc finger and BTB domain containing 43 2 2
MIRT254071 BACH1 BTB domain and CNC homolog 1 2 2
MIRT409790 FOXO3 forkhead box O3 2 2
MIRT448679 MAPK9 mitogen-activated protein kinase 9 2 2
MIRT450206 ABHD15 abhydrolase domain containing 15 2 2
MIRT486621 PDK3 pyruvate dehydrogenase kinase 3 2 2
MIRT489267 TTLL1 tubulin tyrosine ligase like 1 2 2
MIRT493117 MKNK2 MAP kinase interacting serine/threonine kinase 2 2 4
MIRT494570 BAK1 BCL2 antagonist/killer 1 2 2
MIRT497395 RALY RALY heterogeneous nuclear ribonucleoprotein 2 2
MIRT504900 CCDC86 coiled-coil domain containing 86 2 2
MIRT505192 USP46 ubiquitin specific peptidase 46 2 4
MIRT506522 MSANTD4 Myb/SANT DNA binding domain containing 4 with coiled-coils 2 6
MIRT508162 ABCC5 ATP binding cassette subfamily C member 5 2 8
MIRT508545 PARVG parvin gamma 2 4
MIRT509850 BIRC5 baculoviral IAP repeat containing 5 2 6
MIRT510088 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 8
MIRT512094 CRK CRK proto-oncogene, adaptor protein 2 4
MIRT515381 RPL7 ribosomal protein L7 2 2
MIRT519176 SCO1 SCO1, cytochrome c oxidase assembly protein 2 2
MIRT519964 ZCCHC8 zinc finger CCHC-type containing 8 2 2
MIRT522292 NKAP NFKB activating protein 2 2
MIRT523160 HMGB2 high mobility group box 2 2 4
MIRT525314 FANCA Fanconi anemia complementation group A 2 2
MIRT528194 PLEKHM2 pleckstrin homology and RUN domain containing M2 2 2
MIRT532885 ZNF451 zinc finger protein 451 2 2
MIRT538209 CYR61 cysteine rich angiogenic inducer 61 2 2
MIRT539497 ACTN4 actinin alpha 4 2 2
MIRT554600 RRAGC Ras related GTP binding C 2 2
MIRT562444 DCTN6 dynactin subunit 6 2 2
MIRT562748 AOC3 amine oxidase, copper containing 3 2 2
MIRT565798 SEC14L5 SEC14 like lipid binding 5 2 2
MIRT565838 SCML2 Scm polycomb group protein like 2 2 2
MIRT566072 RCC2 regulator of chromosome condensation 2 2 2
MIRT566104 RBPJ recombination signal binding protein for immunoglobulin kappa J region 2 2
MIRT572407 MRPS14 mitochondrial ribosomal protein S14 2 2
MIRT576198 Vsig2 V-set and immunoglobulin domain containing 2 2 2
MIRT576313 Acbd7 acyl-Coenzyme A binding domain containing 7 2 2
MIRT576651 Mill2 MHC I like leukocyte 2 1 1
MIRT576859 Socs6 suppressor of cytokine signaling 6 2 2
MIRT606819 BICD2 BICD cargo adaptor 2 2 2
MIRT610738 NUDT16 nudix hydrolase 16 2 4
MIRT614798 RORA RAR related orphan receptor A 2 2
MIRT619006 NTMT1 N-terminal Xaa-Pro-Lys N-methyltransferase 1 2 2
MIRT619420 NOS1AP nitric oxide synthase 1 adaptor protein 2 2
MIRT620405 MYO1H myosin IH 2 2
MIRT624869 ABHD13 abhydrolase domain containing 13 2 2
MIRT633527 ZFP30 ZFP30 zinc finger protein 2 2
MIRT633927 DNAH9 dynein axonemal heavy chain 9 2 2
MIRT636611 CLIC5 chloride intracellular channel 5 2 2
MIRT640616 MIOX myo-inositol oxygenase 2 2
MIRT642605 C14orf180 chromosome 14 open reading frame 180 2 2
MIRT644624 SRSF2 serine and arginine rich splicing factor 2 2 2
MIRT655113 PHLDA3 pleckstrin homology like domain family A member 3 2 2
MIRT658976 DNAJB5 DnaJ heat shock protein family (Hsp40) member B5 2 4
MIRT661495 CHMP1B charged multivesicular body protein 1B 2 2
MIRT662996 TMEM59 transmembrane protein 59 2 2
MIRT663075 SFR1 SWI5 dependent homologous recombination repair protein 1 2 2
MIRT665405 WEE1 WEE1 G2 checkpoint kinase 2 2
MIRT666106 SSR1 signal sequence receptor subunit 1 2 2
MIRT669562 ALDOA aldolase, fructose-bisphosphate A 2 2
MIRT670070 ZNF783 zinc finger family member 783 2 2
MIRT671192 ZNF891 zinc finger protein 891 2 2
MIRT675361 KLHL26 kelch like family member 26 2 2
MIRT678857 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT679443 C19orf52 translocase of inner mitochondrial membrane 29 2 2
MIRT684163 ALDH1B1 aldehyde dehydrogenase 1 family member B1 2 2
MIRT684543 ZNF460 zinc finger protein 460 2 2
MIRT684674 SLC2A11 solute carrier family 2 member 11 2 2
MIRT684971 MINOS1 mitochondrial inner membrane organizing system 1 2 2
MIRT686006 NEK4 NIMA related kinase 4 2 2
MIRT687758 KIAA1328 KIAA1328 2 2
MIRT688961 ATXN3 ataxin 3 2 2
MIRT689409 UQCR11 ubiquinol-cytochrome c reductase, complex III subunit XI 2 2
MIRT690001 MMP17 matrix metallopeptidase 17 2 2
MIRT690165 ELP3 elongator acetyltransferase complex subunit 3 2 2
MIRT690202 C5orf45 MRN complex interacting protein 2 2
MIRT690477 ZNF33A zinc finger protein 33A 2 2
MIRT690566 MICA MHC class I polypeptide-related sequence A 2 2
MIRT692160 C10orf111 chromosome 10 open reading frame 111 2 2
MIRT693430 PLGLB2 plasminogen-like B2 2 2
MIRT693547 ZNF708 zinc finger protein 708 2 2
MIRT693697 PLGLB1 plasminogen-like B1 2 2
MIRT695006 HSPA6 heat shock protein family A (Hsp70) member 6 2 2
MIRT698525 TFRC transferrin receptor 2 2
MIRT699574 SIKE1 suppressor of IKBKE 1 2 2
MIRT703446 FYTTD1 forty-two-three domain containing 1 2 2
MIRT704397 CTSS cathepsin S 2 2
MIRT704485 CPT1A carnitine palmitoyltransferase 1A 2 2
MIRT709822 STPG1 sperm tail PG-rich repeat containing 1 2 2
MIRT710859 COQ7 coenzyme Q7, hydroxylase 2 2
MIRT711893 INSIG2 insulin induced gene 2 2 2
MIRT713796 CPLX2 complexin 2 2 2
MIRT718800 C1GALT1C1 C1GALT1 specific chaperone 1 2 2
MIRT719501 SEC24B SEC24 homolog B, COPII coat complex component 2 2
MIRT719722 PDE6B phosphodiesterase 6B 2 2
MIRT722204 URM1 ubiquitin related modifier 1 2 2
MIRT723523 CLPTM1L CLPTM1 like 2 2
MIRT725471 GRAP2 GRB2-related adaptor protein 2 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3622b-3p Platinum 23939 sensitive tissue
hsa-miR-3622b-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3622b-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3622b-3p Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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