miRTarBase - #MIRT671225


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pre-miRNA Information
pre-miRNA hsa-mir-3937   
Genomic Coordinates chrX: 39661216 - 39661321
Description Homo sapiens miR-3937 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3937
Sequence 61| ACAGGCGGCUGUAGCAAUGGGGG |83
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1430604115 6 dbSNP
rs776622162 7 dbSNP
rs1283731816 11 dbSNP
rs1029784871 13 dbSNP
rs750525479 20 dbSNP
rs956488517 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol CLSTN1   
Synonyms ALC-ALPHA, CDHR12, CST-1, CSTN1, PIK3CD, XB31alpha, alcalpha1, alcalpha2
Description calsyntenin 1
Transcript NM_001009566   
Other Transcripts NM_014944   
Expression
Putative miRNA Targets on CLSTN1
3'UTR of CLSTN1
(miRNA target sites are highlighted)		 
>CLSTN1|NM_001009566|3'UTR
   1 CCCGTGCCCCCGGCCACCTCGGTTTCTGCTTTCGAAGACTCTGCTGCCATCCGTTCTCCCAGTCCCAAGGGTCCACGATG
  81 TACAAAGTCATTTCGGCCAGTAGGTGTGCAGACCCCTCCCCGCCACGATCGTCGCTGTGCTTGGTGTGTAGGACCCTAGG
 161 CTCCCCGCCCACCCTCTGCCTGGTCGCGCTCTTCAGTCCCACGAGGAGCTGACACGTCCTCTCTGGCCGCCATCCGGCTC
 241 GCACAGGGGCCTCCCAGCGCCTCAGGCCCCGCGTTTGTGTCTGGAGTCTCCCCCCGGGGAGAGGACACTGGCCCCTCGCA
 321 CTCCAGAAAAGCCATGCCAGCTGGGCTCGTTGACAAAGGGTAAAACATGCTCACTCCCACCCGGTAATCATTTTTTTCTT
 401 TTTTTAAAAAAAGTTTTTATTTTTTCCAAACTAGTGCATGTATAAATAATGGCAGGATGGGGGGTACTGTGTAGATGATT
 481 AACTGACTTTTTAATATTTTGTAAATAAATCGGATTCCTTGTGTCCTTTGTGCTAGTGTAACCCGGGACTGGAATGTAAA
 561 GTGAAGTTCGGAGCTCTGAGCACGGGCTCTTCCCGCCGGGTCCTCCCTCCCCAGACCCCAGAGGGAGAGGCCCACCCCGC
 641 CCAGCCCCGCCCCAGCCCCTGCTCAGGTCTGAGTATGGCTGGGAGTCGGGGGCCACAGGCCTCTAGCTGTGCTGCTCAAG
 721 AGACTGGATCAGGGTAGCTACAAGTGGCCGGGCCTTGCCTTTGGGATTCTACCTGTTCCTAATTTGGTGTGGGGTGCGGG
 801 GTCCCTGGCCCCTTTTCCACACTCCTCCTCCGACAGCAGCTCCCTGGGCAGTGGCCTGGTCTCACCGTGTGCAGCCTTGT
 881 GGTTTATGCTTAAATGTACATTTTCCTGCTGGTAAAAGGAGAAACTGAGAGGTGTCCTGCAGACCGGCTGACCACTCCTT
 961 TTGGAGACGGCAGGAGGCCTGAGCGATCCGTACTCAGAACGTCCAGGAGAGACGCATGGCCCGAAGTCAAAGTGCTGGAA
1041 TTTTCCAAAACAGCCTGTTCTCTCCTCTCTCCTCCCCAGAGCACCCCCTGCCATCAGGGGGGTTGAAATCCCTCTCCCCC
1121 AGGAGCCCTGCTGCTTTGCTTGGTGGTAGGGCAGGAGAGCAAACAAACAGTCATGGTCTAAAACCCACATAGCACTTTGC
1201 TCTTAGTTACATGTAAAATTTTAGATTTCTAAAACAGGTGGGCAATCATTTTGAATACTGTTCTGTGACCCTGACTGCTA
1281 GTTCTGAGGACACTGGTGGCTGTGCTATGTGTGGCCATCCTCCATGTCCCGTCCCTGTAGCTGCTCTGTTTAGACAGCGG
1361 ACAGACGCTCACGCCCAGGGGATGTCCTCACGCTGTCGCCGCGCGGTTTCCCTTCGCAGATGTGTATACTCATGATAGGT
1441 CAGAAAGTGTATCCGCTACAATAAAGTTCTGGTTCTAACTAACTCCAAAAAAAAAAAAAAAAAA
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' ggGGGUAACGAUGUCGGCG-GACa 5'
            |||:|  ||::|||:|| ||| 
Target 5' gtCCCGTCCCTGTAGCTGCTCTGt 3'
 1326 - 1349 129.00 -27.30
2 
miRNA  3' ggggguaACGAUGUC-GGCGGACa 5'
                 | ||:||| ||| ||| 
Target 5' agaggtgTCCTGCAGACCGGCTGa 3'
 928 - 951 128.00 -17.30
3 
miRNA  3' ggGGGUAACGAUGUCGGCGGACa 5'
            ||||   |  |  |:||||| 
Target 5' cgCCCA---C--CCTCTGCCTGg 3'
 166 - 183 126.00 -15.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26971042 3 COSMIC
COSN26971043 4 COSMIC
COSN26971035 11 COSMIC
COSN13569106 33 COSMIC
COSN31489765 43 COSMIC
COSN31598679 47 COSMIC
COSN30162667 76 COSMIC
COSN507647 77 COSMIC
COSN30108966 83 COSMIC
COSN26971037 112 COSMIC
COSN30103014 117 COSMIC
COSN30454675 120 COSMIC
COSN31498821 144 COSMIC
COSN26677991 170 COSMIC
COSN6954036 256 COSMIC
COSN17182975 271 COSMIC
COSN31531783 272 COSMIC
COSN30176067 919 COSMIC
COSN31534906 1019 COSMIC
COSN20806246 1569 COSMIC
rs14271 1416 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1319059059 1 dbSNP
rs759672760 2 dbSNP
rs200668377 3 dbSNP
rs771099481 4 dbSNP
rs760905356 6 dbSNP
rs1177881293 7 dbSNP
rs773956382 11 dbSNP
rs201581912 12 dbSNP
rs1451472788 13 dbSNP
rs1246279628 15 dbSNP
rs373087974 20 dbSNP
rs556240045 21 dbSNP
rs1256346474 22 dbSNP
rs1212021542 29 dbSNP
rs769162588 33 dbSNP
rs745409451 34 dbSNP
rs1245950489 35 dbSNP
rs532822000 43 dbSNP
rs780882170 43 dbSNP
rs756922857 48 dbSNP
rs963092144 50 dbSNP
rs1033955357 52 dbSNP
rs1002842741 53 dbSNP
rs537961353 58 dbSNP
rs1377745901 60 dbSNP
rs567410594 63 dbSNP
rs1439055393 64 dbSNP
rs1390258190 66 dbSNP
rs1163664307 68 dbSNP
rs1459270852 70 dbSNP
rs117948097 76 dbSNP
rs1003832329 78 dbSNP
rs1381693798 80 dbSNP
rs951279470 82 dbSNP
rs1294750674 87 dbSNP
rs1267647793 89 dbSNP
rs927398463 90 dbSNP
rs1211212534 93 dbSNP
rs1029582642 94 dbSNP
rs536015130 95 dbSNP
rs1050789515 100 dbSNP
rs997996836 103 dbSNP
rs899639754 104 dbSNP
rs1332087329 110 dbSNP
rs879052818 112 dbSNP
rs1382599224 116 dbSNP
rs1297345496 117 dbSNP
rs968670727 117 dbSNP
rs1389092190 118 dbSNP
rs1382064099 120 dbSNP
rs899655590 121 dbSNP
rs1018061123 122 dbSNP
rs935882467 123 dbSNP
rs1200549701 124 dbSNP
rs565867890 126 dbSNP
rs1216315230 127 dbSNP
rs181812755 130 dbSNP
rs1041392917 131 dbSNP
rs945666148 134 dbSNP
rs1344408936 145 dbSNP
rs892762319 155 dbSNP
rs1235778796 163 dbSNP
rs1056626604 166 dbSNP
rs532276918 167 dbSNP
rs981051890 168 dbSNP
rs77950539 170 dbSNP
rs1332129330 172 dbSNP
rs754307668 178 dbSNP
rs778142871 179 dbSNP
rs1460194913 184 dbSNP
rs549502337 186 dbSNP
rs1291518359 187 dbSNP
rs941462059 188 dbSNP
rs1265713124 191 dbSNP
rs909917841 194 dbSNP
rs1354997429 195 dbSNP
rs1281985066 202 dbSNP
rs1279488893 203 dbSNP
rs531480065 203 dbSNP
rs982841968 206 dbSNP
rs60073554 209 dbSNP
rs951353210 212 dbSNP
rs1365771023 215 dbSNP
rs899673144 216 dbSNP
rs1342144802 227 dbSNP
rs1029613957 228 dbSNP
rs149772081 229 dbSNP
rs1340968088 231 dbSNP
rs1000028076 235 dbSNP
rs1463632777 236 dbSNP
rs767817575 240 dbSNP
rs543279645 241 dbSNP
rs1041642088 242 dbSNP
rs1390103094 243 dbSNP
rs1161595437 244 dbSNP
rs1000403944 258 dbSNP
rs892445649 259 dbSNP
rs1472783697 261 dbSNP
rs1188510416 270 dbSNP
rs904276605 271 dbSNP
rs527906257 272 dbSNP
rs1199575331 273 dbSNP
rs1199122911 277 dbSNP
rs560454527 279 dbSNP
rs78105956 288 dbSNP
rs926726389 290 dbSNP
rs1287313884 291 dbSNP
rs981383132 292 dbSNP
rs941525967 295 dbSNP
rs1342298384 296 dbSNP
rs1448598670 296 dbSNP
rs895466499 300 dbSNP
rs113794825 314 dbSNP
rs982971412 315 dbSNP
rs556558334 317 dbSNP
rs1166019826 324 dbSNP
rs1438372901 333 dbSNP
rs1226158495 336 dbSNP
rs112497092 348 dbSNP
rs771174027 349 dbSNP
rs544194852 352 dbSNP
rs905418750 354 dbSNP
rs1451978692 355 dbSNP
rs1291756081 357 dbSNP
rs1237941615 358 dbSNP
rs1352871704 360 dbSNP
rs1309404993 367 dbSNP
rs188784317 369 dbSNP
rs1437440337 374 dbSNP
rs1273897764 377 dbSNP
rs749345073 382 dbSNP
rs1350894972 386 dbSNP
rs1305323294 391 dbSNP
rs1418457734 395 dbSNP
rs111708156 398 dbSNP
rs1360412516 398 dbSNP
rs77314922 399 dbSNP
rs1159736063 400 dbSNP
rs1420980328 404 dbSNP
rs1045237652 405 dbSNP
rs1029249482 406 dbSNP
rs964172066 413 dbSNP
rs976531595 413 dbSNP
rs1018013028 426 dbSNP
rs1330684721 426 dbSNP
rs1321863345 429 dbSNP
rs1248621182 434 dbSNP
rs1431651978 439 dbSNP
rs1371295959 445 dbSNP
rs1286683235 448 dbSNP
rs1168471788 451 dbSNP
rs1000464626 453 dbSNP
rs1309942191 458 dbSNP
rs904337391 465 dbSNP
rs914837423 465 dbSNP
rs573822405 468 dbSNP
rs1285625799 469 dbSNP
rs1398572479 480 dbSNP
rs118038247 481 dbSNP
rs910001624 484 dbSNP
rs1477910476 494 dbSNP
rs1244585528 501 dbSNP
rs1357558908 505 dbSNP
rs892476097 510 dbSNP
rs533993983 511 dbSNP
rs1431762833 512 dbSNP
rs1191720114 521 dbSNP
rs1477382161 522 dbSNP
rs1263553556 523 dbSNP
rs1188275584 525 dbSNP
rs1047578086 526 dbSNP
rs1483086376 533 dbSNP
rs905304782 537 dbSNP
rs1045137426 540 dbSNP
rs1250483062 544 dbSNP
rs1202934447 545 dbSNP
rs1313939779 546 dbSNP
rs941545702 566 dbSNP
rs565887940 569 dbSNP
rs773279202 570 dbSNP
rs910024058 583 dbSNP
rs1168806060 584 dbSNP
rs553638515 584 dbSNP
rs541310463 589 dbSNP
rs746894122 594 dbSNP
rs28492734 595 dbSNP
rs184347342 597 dbSNP
rs1351175834 599 dbSNP
rs1307557784 603 dbSNP
rs968952002 603 dbSNP
rs978507564 606 dbSNP
rs1318140567 611 dbSNP
rs1252298693 612 dbSNP
rs1230117927 613 dbSNP
rs989037332 615 dbSNP
rs1020053809 616 dbSNP
rs1009957369 617 dbSNP
rs1320242509 629 dbSNP
rs968549983 631 dbSNP
rs1312656327 632 dbSNP
rs956296730 634 dbSNP
rs549830821 638 dbSNP
rs1035325125 639 dbSNP
rs959980204 643 dbSNP
rs1177469563 644 dbSNP
rs1414218163 648 dbSNP
rs531318883 649 dbSNP
rs1035599605 652 dbSNP
rs562505473 653 dbSNP
rs1165400857 656 dbSNP
rs1423572930 660 dbSNP
rs1446366540 660 dbSNP
rs1177435382 661 dbSNP
rs1001116316 666 dbSNP
rs1003978298 673 dbSNP
rs1472753194 674 dbSNP
rs7526958 675 dbSNP
rs1045569502 687 dbSNP
rs1045716795 688 dbSNP
rs1005748464 689 dbSNP
rs888616133 691 dbSNP
rs888594411 692 dbSNP
rs1237934223 693 dbSNP
rs1047239504 695 dbSNP
rs549123589 703 dbSNP
rs930058876 707 dbSNP
rs930134539 714 dbSNP
rs1309438131 717 dbSNP
rs922648174 718 dbSNP
rs527351791 722 dbSNP
rs942667433 724 dbSNP
rs910855923 727 dbSNP
rs1269855867 732 dbSNP
rs1358583640 733 dbSNP
rs978922789 736 dbSNP
rs911177786 737 dbSNP
rs1364958855 740 dbSNP
rs1330018640 741 dbSNP
rs560749082 744 dbSNP
rs968637691 746 dbSNP
rs758099177 749 dbSNP
rs371817370 750 dbSNP
rs912980570 758 dbSNP
rs913077250 763 dbSNP
rs1284528705 769 dbSNP
rs988566807 770 dbSNP
rs1303915297 778 dbSNP
rs1351498042 779 dbSNP
rs988672219 785 dbSNP
rs959791021 794 dbSNP
rs1035395182 797 dbSNP
rs1330711966 797 dbSNP
rs1001196341 798 dbSNP
rs1338080087 800 dbSNP
rs1297513663 811 dbSNP
rs1036036268 813 dbSNP
rs758310156 818 dbSNP
rs1170278201 823 dbSNP
rs1023918168 824 dbSNP
rs1465266346 826 dbSNP
rs1377871220 827 dbSNP
rs969801214 831 dbSNP
rs1006229899 832 dbSNP
rs752835523 832 dbSNP
rs1448067856 835 dbSNP
rs888680158 837 dbSNP
rs1023595828 843 dbSNP
rs1323040752 847 dbSNP
rs1025819732 851 dbSNP
rs994301816 856 dbSNP
rs749883230 861 dbSNP
rs545265885 866 dbSNP
rs745670146 867 dbSNP
rs888565458 871 dbSNP
rs901289401 882 dbSNP
rs1410683906 886 dbSNP
rs1041145708 892 dbSNP
rs764754023 901 dbSNP
rs1156533909 908 dbSNP
rs1425018429 912 dbSNP
rs1047120560 924 dbSNP
rs942738362 926 dbSNP
rs994317461 927 dbSNP
rs901315810 928 dbSNP
rs1041702954 930 dbSNP
rs1422001050 931 dbSNP
rs1170381337 934 dbSNP
rs533725338 941 dbSNP
rs1475923289 942 dbSNP
rs1043040809 945 dbSNP
rs1471801361 946 dbSNP
rs1249830444 952 dbSNP
rs761669637 954 dbSNP
rs1205881811 955 dbSNP
rs913115474 968 dbSNP
rs988640375 969 dbSNP
rs1267694361 977 dbSNP
rs938516333 984 dbSNP
rs563016082 985 dbSNP
rs1282366126 987 dbSNP
rs41280774 989 dbSNP
rs1228241069 990 dbSNP
rs1381153551 992 dbSNP
rs1300452329 995 dbSNP
rs1436225984 997 dbSNP
rs969803780 1000 dbSNP
rs1016361649 1001 dbSNP
rs1329060313 1010 dbSNP
rs1410893248 1013 dbSNP
rs984433128 1014 dbSNP
rs953083470 1016 dbSNP
rs1162047906 1022 dbSNP
rs1459181188 1023 dbSNP
rs192396289 1024 dbSNP
rs959875393 1027 dbSNP
rs1025891986 1029 dbSNP
rs1437867278 1029 dbSNP
rs1205411228 1030 dbSNP
rs1163389669 1032 dbSNP
rs561718617 1046 dbSNP
rs201631390 1050 dbSNP
rs144682204 1052 dbSNP
rs1209224694 1064 dbSNP
rs370956160 1066 dbSNP
rs901320497 1068 dbSNP
rs540330989 1069 dbSNP
rs1016585808 1070 dbSNP
rs753288686 1072 dbSNP
rs1279774630 1075 dbSNP
rs984114964 1075 dbSNP
rs1391895604 1087 dbSNP
rs1443916740 1088 dbSNP
rs1321959950 1097 dbSNP
rs760381313 1097 dbSNP
rs573215265 1098 dbSNP
rs1043460067 1099 dbSNP
rs1246009377 1102 dbSNP
rs1165972356 1111 dbSNP
rs754785832 1112 dbSNP
rs1184997963 1114 dbSNP
rs947402713 1116 dbSNP
rs891754450 1118 dbSNP
rs1007462695 1119 dbSNP
rs1266278009 1119 dbSNP
rs371917216 1119 dbSNP
rs890072570 1127 dbSNP
rs1052948751 1134 dbSNP
rs938547424 1144 dbSNP
rs150503011 1148 dbSNP
rs928484021 1149 dbSNP
rs947056075 1149 dbSNP
rs1277368469 1150 dbSNP
rs891440229 1150 dbSNP
rs1052864398 1151 dbSNP
rs1229837927 1151 dbSNP
rs938370878 1152 dbSNP
rs1364915141 1154 dbSNP
rs928369792 1161 dbSNP
rs979991181 1163 dbSNP
rs1346486208 1165 dbSNP
rs1367784110 1168 dbSNP
rs979935875 1169 dbSNP
rs140007416 1170 dbSNP
rs543613651 1170 dbSNP
rs780116290 1170 dbSNP
rs556477279 1173 dbSNP
rs1423362792 1174 dbSNP
rs756634084 1176 dbSNP
rs1025562502 1180 dbSNP
rs908927501 1191 dbSNP
rs1429105717 1196 dbSNP
rs1191490026 1204 dbSNP
rs1485488957 1204 dbSNP
rs538434107 1211 dbSNP
rs984896325 1228 dbSNP
rs1217347373 1231 dbSNP
rs1309879722 1232 dbSNP
rs1177897114 1237 dbSNP
rs1223679311 1238 dbSNP
rs972706473 1245 dbSNP
rs950409934 1247 dbSNP
rs965525781 1249 dbSNP
rs1361834406 1263 dbSNP
rs1190854377 1277 dbSNP
rs761164400 1278 dbSNP
rs1433007054 1279 dbSNP
rs1357433335 1282 dbSNP
rs1020103885 1284 dbSNP
rs1470417286 1295 dbSNP
rs1431224861 1300 dbSNP
rs577903798 1307 dbSNP
rs753248901 1308 dbSNP
rs1168230896 1317 dbSNP
rs768010232 1319 dbSNP
rs1420164333 1325 dbSNP
rs1007084605 1330 dbSNP
rs1206480087 1331 dbSNP
rs759954533 1337 dbSNP
rs1203973311 1344 dbSNP
rs1021900347 1347 dbSNP
rs1250129909 1348 dbSNP
rs1462362952 1352 dbSNP
rs556514271 1355 dbSNP
rs1217220132 1356 dbSNP
rs1313172466 1358 dbSNP
rs1007027077 1359 dbSNP
rs1052807839 1360 dbSNP
rs751897801 1362 dbSNP
rs954305142 1366 dbSNP
rs1021709914 1367 dbSNP
rs576319585 1369 dbSNP
rs1394165305 1370 dbSNP
rs891784239 1372 dbSNP
rs1053020065 1373 dbSNP
rs1002763362 1375 dbSNP
rs1304548214 1380 dbSNP
rs1028668447 1383 dbSNP
rs557869495 1391 dbSNP
rs1445880008 1392 dbSNP
rs1236006723 1394 dbSNP
rs1194818675 1396 dbSNP
rs948599148 1397 dbSNP
rs1479612444 1398 dbSNP
rs907088598 1400 dbSNP
rs374837720 1401 dbSNP
rs1044627081 1402 dbSNP
rs948571362 1403 dbSNP
rs929265596 1404 dbSNP
rs1202752813 1405 dbSNP
rs187828318 1415 dbSNP
rs14271 1416 dbSNP
rs1373865950 1420 dbSNP
rs1299650796 1422 dbSNP
rs1456369585 1423 dbSNP
rs1364918538 1425 dbSNP
rs1164079181 1431 dbSNP
rs1426019295 1431 dbSNP
rs965740041 1432 dbSNP
rs1180718505 1433 dbSNP
rs1419278963 1433 dbSNP
rs1330704443 1437 dbSNP
rs772400148 1437 dbSNP
rs912668770 1438 dbSNP
rs928981885 1448 dbSNP
rs1489947155 1449 dbSNP
rs918946890 1453 dbSNP
rs139670015 1454 dbSNP
rs41280772 1455 dbSNP
rs146095672 1457 dbSNP
rs956307585 1458 dbSNP
rs1336549119 1461 dbSNP
rs1314746948 1466 dbSNP
rs1402897076 1467 dbSNP
rs1344573025 1471 dbSNP
rs1303694703 1480 dbSNP
rs912811973 1481 dbSNP
rs1358129720 1484 dbSNP
rs1044164107 1485 dbSNP
rs142831718 1485 dbSNP
rs529632901 1485 dbSNP
rs1401215583 1486 dbSNP
rs1479661531 1487 dbSNP
rs76391189 1488 dbSNP
rs1200856203 1489 dbSNP
rs775634541 1490 dbSNP
rs1048917590 1491 dbSNP
rs184417664 1495 dbSNP
rs1022156678 1496 dbSNP
rs1469669161 1497 dbSNP
rs1221843578 1499 dbSNP
rs1362179412 1505 dbSNP
rs1322618492 1507 dbSNP
rs919199747 1511 dbSNP
rs1225315132 1512 dbSNP
rs1324649428 1512 dbSNP
rs1190221205 1515 dbSNP
rs1424962450 1520 dbSNP
rs1317490221 1526 dbSNP
rs1011675348 1528 dbSNP
rs1382310495 1530 dbSNP
rs772119200 1533 dbSNP
rs956101145 1534 dbSNP
rs1040674574 1539 dbSNP
rs1468958791 1543 dbSNP
rs1429091457 1546 dbSNP
rs561755558 1556 dbSNP
rs1481602153 1557 dbSNP
rs1466554165 1567 dbSNP
rs1371874330 1569 dbSNP
rs944068442 1571 dbSNP
rs912521239 1572 dbSNP
rs985565907 1572 dbSNP
rs745663402 1573 dbSNP
rs1225138941 1580 dbSNP
rs1263944265 1580 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 GSM1084046. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep4 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ggggguaacgaugucggCGGAca 5'
                           ||||  
Target 5' --------------ugaGCCUcc 3'
 		1 - 9
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 GSM1084046
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noarsenite_rep4
Location of target site ENST00000536656.1 | 3UTR | UGAGCCUCCCAAAGUGCUGGGAUU
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
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40 hsa-miR-3937 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT332487 CD81 CD81 molecule 2 2
MIRT441327 NDUFA11 NADH:ubiquinone oxidoreductase subunit A11 2 4
MIRT454032 EIF3CL eukaryotic translation initiation factor 3 subunit C like 2 2
MIRT458086 EIF3C eukaryotic translation initiation factor 3 subunit C 2 2
MIRT460785 VPS37B VPS37B, ESCRT-I subunit 2 2
MIRT463150 ZNF385A zinc finger protein 385A 2 4
MIRT467162 SREBF2 sterol regulatory element binding transcription factor 2 2 2
MIRT469618 RAI1 retinoic acid induced 1 2 4
MIRT472258 NFIC nuclear factor I C 2 2
MIRT487587 FAM83H family with sequence similarity 83 member H 2 4
MIRT489302 B4GALNT4 beta-1,4-N-acetyl-galactosaminyltransferase 4 2 4
MIRT489741 GNAI2 G protein subunit alpha i2 2 4
MIRT490038 PCSK4 proprotein convertase subtilisin/kexin type 4 2 2
MIRT490767 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT491750 SEMA3F semaphorin 3F 2 2
MIRT492690 PHYHIP phytanoyl-CoA 2-hydroxylase interacting protein 2 2
MIRT504843 RRP36 ribosomal RNA processing 36 2 4
MIRT510116 IRAK3 interleukin 1 receptor associated kinase 3 2 8
MIRT525313 FANCA Fanconi anemia complementation group A 2 4
MIRT569801 IGDCC3 immunoglobulin superfamily DCC subclass member 3 2 2
MIRT570224 SLC27A1 solute carrier family 27 member 1 2 2
MIRT629378 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT633104 CBX5 chromobox 5 2 2
MIRT645036 ATAD3C ATPase family, AAA domain containing 3C 2 2
MIRT660973 ABI2 abl interactor 2 2 2
MIRT671225 CLSTN1 calsyntenin 1 2 2
MIRT672046 SMTNL2 smoothelin like 2 2 2
MIRT677314 CPSF2 cleavage and polyadenylation specific factor 2 2 2
MIRT678290 PTRH2 peptidyl-tRNA hydrolase 2 2 2
MIRT693477 ZNF707 zinc finger protein 707 2 2
MIRT693576 PIGR polymeric immunoglobulin receptor 2 2
MIRT696832 PLLP plasmolipin 2 2
MIRT700149 RNF115 ring finger protein 115 2 2
MIRT703760 FAM118A family with sequence similarity 118 member A 2 2
MIRT705798 ALDH6A1 aldehyde dehydrogenase 6 family member A1 2 2
MIRT709105 SEPT4 septin 4 2 2
MIRT710235 ARMCX6 armadillo repeat containing, X-linked 6 2 2
MIRT711422 EPHA4 EPH receptor A4 2 2
MIRT712529 CYTH2 cytohesin 2 2 2
MIRT714081 ZNF532 zinc finger protein 532 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3937 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-3937 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-3937 Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-3937 Dabrafenib 44462760 NSC764134 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-3937 Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-3937 Paclitaxel 36314 NSC125973 approved resistant High Non-Small Cell Lung Cancer cell line (A549)
hsa-miR-3937 Fulvestrant 17756771 NSC719276 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-3937 Tamoxifen 2733525 NSC180973 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-3937 Gemcitabine 60750 NSC613327 approved sensitive High Pancreatic Cancer cell line (AsPC-1)
hsa-miR-3937 Taxane/Cisplatin/Fluorouracil sensitive High Hypopharyngeal Squamous Cell Carcinoma tissue
hsa-miR-3937 Paclitaxel 36314 NSC125973 approved resistant High Ovarian Cancer cell line (A2780)
hsa-mir-3937 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-3937 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-3937 Temozolomide 5394 NSC362856 approved sensitive cell line (U251)
hsa-miR-3937 Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-3937 Doxorubicin 31703 NSC123127 approved resistant cell line (HS578T)
hsa-miR-3937 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-3937 Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-3937 Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-3937 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3937 Neoadjuvant chemotherapy sensitive tissue (breast cancer)
hsa-miR-3937 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-3937 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-3937 Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)
hsa-miR-3937 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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