miRTarBase - #MIRT533571


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pre-miRNA Information
pre-miRNA hsa-mir-2909   
Genomic Coordinates chr17: 37033745 - 37033813
Description Homo sapiens miR-2909 stem-loop
Comment This miRNA was referred to as hmiR-che-1 in .
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-2909
Sequence 4| GUUAGGGCCAACAUCUCUUGG |24
Evidence Experimental
Experiments QPCR
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs187707102 7 dbSNP
rs1375183104 8 dbSNP
rs1174848003 11 dbSNP
rs576577155 21 dbSNP
Putative Targets

Gene Information
Gene Symbol TOMM40L   
Synonyms TOMM40B
Description translocase of outer mitochondrial membrane 40 like
Transcript NM_032174   
Expression
Putative miRNA Targets on TOMM40L
3'UTR of TOMM40L
(miRNA target sites are highlighted)		 
>TOMM40L|NM_032174|3'UTR
   1 GGTTGTCCAGAGCCAGCCCCCACAGCAGCTGGAACCTCTGAGTCAGGTGCCCTAGGGCCAAAGACTAGGCCCCTCTTCAG
  81 AGCCCACCTTGCTGGGTGATCTCTAGGACCCAGGAGCAGAGTGGTGGACAGGACCATGCCCTCCTCAGAACTGGAGCTGC
 161 CACAGGGGCAGTTGATGAGGCAGAGGTTTGAGGATCCCCCCTCTGCTACCAGCCCCAGTATCACCTTCCCCATGCTCTTG
 241 TGGCTGTGGACTAAGGGAGAAGGATTAAGGGGTATGGCTGAATTCCCCCGGCACCCCTTGCCCTCAGGCTTCCTTCTTCC
 321 TTTCCCTTTGGTTAATCCTGCATGGGATTAGCTGACCATCCTGTTTTCCATCCCAGAGCCTCCCAAGGCTGGGAAAGTAG
 401 GGCTGAAGGGCTAGATGTTTGGTCTCAGGAAGTGGGGCCCACCCATTCCCAGAAGGAGCTTCTTTACCTCTTAGCCCTGA
 481 GGTTTCCTCCTTCCCATCTTCTGTGCTTCCAGAGAACAACTTTGTTCCTATGGTCACCCCCACTATCCCCATGACCGCAT
 561 GAAGAGGCAGTTATTGCTTTAGTCTTTCATTGCAACCACTGGGCTCCCTTTGAACCCGGCCCAATCTTTGGTCCCAGCAT
 641 TTTCCCACTCCAGTGTATCCAGGGTGTTCCAGGTGAGCTGGGGAAGGAAGTGAGCATGGCCTCAGCTGCAGATCTCCTGG
 721 AGCAGCGGCATCATGGCAGACAGGCCCTGGATGTGCTGGATTTGGTACCCGTAGGCCTCATTAATGCTCCGGAGCTCAGC
 801 CAGCAGGCCTAGCAACTTCGCATACAGAAACCTTTGGAGGAAGTAGTGGGGTTGCCAGGAAAACAGGAGGGAAATAAGGC
 881 AGTTGGGAGTCTTGTCTCTAGGCCCTGATCCCCTGAACTATTCCTCAGTGAAGCCAGGTCTGAACATTAGAGAAAATCAT
 961 GCTCTGGTATGACAGACTATCAGAGGTTCCAAAGGTCCTCCAGGGGGCCTCGGTCTGACACTGTCTTCTCTCACCATGCT
1041 CAGTTTTTTCTGAACCCAGAGCTCTGAGAGCCGAGTGTGAAGAAAGCTCCAGACTTGGCCAGAACTCCAACCATGTGGAA
1121 TCTGAGGGCCTGGCCTTCTAGAGCAGGTTCTAGAAGGTGGATGTGTTCTATGGTATAAAGCATCCCCTTTCTGGCCAAAC
1201 TAGCTCTTGGAGGAACGAGCAAAACAGAAGCGGTGCATACCTCAGAGCCTGGATAAATCACAGACTATTGAACCTGGAAC
1281 TGGCTTTGACCATGAAACTGTGAATGGCCCTAACTTCAAGGGAAATGAGAAATCGAAGGAATTGGCCCAATGGCGAGGAG
1361 AGGAAAGGCCAAGGGAAGAGAAAAGTCTGCGTTAGTCTGGAGAAGTTGGACTAGTGAGGTAATGGATGTCATCAATCTCA
1441 GGAATGCTATTACCCAGAGCCTCTGAGCTACTACTTTGCATCTGTACTGAATAAAAAAAAAATCTGGAAAAAGTGAGATG
1521 AAACAGCAGTATCCAAATACAGCAATTTGGATGCTGAAACGATGTGAGACAGGGATGGCCAGGGGGAAGGACTAGACCCC
1601 ACGATACCTGAATTCCCTAAGGAAAGGACAGTAAAAAAACATTCCTCCCAAAAAAAAAAAAAAAAAA
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' ggUUCUCU-ACA---ACCGGGAUUg 5'
            | || | |||   ||||||||| 
Target 5' ccATGAAACTGTGAATGGCCCTAAc 3'
 1290 - 1314 159.00 -19.40
2 
miRNA  3' gguucucuACAACCGGGAUUg 5'
                  | || |||||:| 
Target 5' tctttaccTCTTAGCCCTGAg 3'
 461 - 481 133.00 -9.10
3 
miRNA  3' gguucucuACAACCGGGAUUg 5'
                  | | ||||||:| 
Target 5' gtcttgtcTCTAGGCCCTGAt 3'
 889 - 909 133.00 -13.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
95258 695 ClinVar
199103 748 ClinVar
283161 772 ClinVar
167381 811 ClinVar
167382 820 ClinVar
COSN30535664 2 COSMIC
COSN30766939 19 COSMIC
COSN28887099 24 COSMIC
COSN30513253 36 COSMIC
COSN511238 42 COSMIC
COSN30108683 139 COSMIC
COSN30108685 140 COSMIC
COSN30461944 141 COSMIC
COSN30506606 152 COSMIC
COSN5797722 290 COSMIC
COSN31960341 291 COSMIC
COSN9364631 352 COSMIC
COSN30509895 397 COSMIC
COSN30531385 424 COSMIC
COSN30122716 438 COSMIC
COSN30128587 439 COSMIC
COSN31506129 480 COSMIC
COSN30543910 483 COSMIC
COSN30540339 499 COSMIC
COSN30136248 515 COSMIC
COSN30484058 528 COSMIC
COSN30465289 529 COSMIC
COSN30524356 557 COSMIC
COSN30103436 558 COSMIC
COSN13484212 561 COSMIC
COSN30693488 567 COSMIC
COSM8107563 605 COSMIC
COSM9421542 607 COSMIC
COSM9659623 609 COSMIC
COSM4519135 617 COSMIC
COSM7991732 617 COSMIC
COSM898540 620 COSMIC
COSM9780206 623 COSMIC
COSM4563121 652 COSMIC
COSM8186339 657 COSMIC
COSM7846268 670 COSMIC
COSN27872609 702 COSMIC
COSM6275757 706 COSMIC
COSM4140902 707 COSMIC
COSM5930622 717 COSMIC
COSM5341640 729 COSMIC
COSM6059027 731 COSMIC
COSM9118522 740 COSMIC
COSM6729118 748 COSMIC
COSM7814925 756 COSMIC
COSM4024371 772 COSMIC
COSM9108756 776 COSMIC
COSM1689018 777 COSMIC
COSM109235 782 COSMIC
COSM8781178 787 COSMIC
COSM8276469 790 COSMIC
COSM8697176 791 COSMIC
COSM8045216 792 COSMIC
COSM898541 792 COSMIC
COSM4707972 804 COSMIC
COSM8719192 823 COSMIC
COSM1319810 832 COSMIC
COSN30514014 849 COSMIC
COSN23013995 852 COSMIC
COSN20073700 945 COSMIC
COSN1091018 948 COSMIC
COSN30123180 960 COSMIC
COSN17038015 1336 COSMIC
COSN1091019 1348 COSMIC
COSN31571313 1388 COSMIC
COSN31588074 1391 COSMIC
COSN30544055 1438 COSMIC
COSN30540308 1448 COSMIC
COSN20095486 1501 COSMIC
COSN27485421 1503 COSMIC
COSN28863530 1503 COSMIC
COSN31586699 1562 COSMIC
COSN30109875 1596 COSMIC
COSN30192740 1601 COSMIC
COSN31601969 1635 COSMIC
COSN19734310 1643 COSMIC
rs4073054 1603 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1208741264 2 dbSNP
rs774784824 3 dbSNP
rs574038502 6 dbSNP
rs765793782 7 dbSNP
rs759761545 11 dbSNP
rs751294269 15 dbSNP
rs754631833 20 dbSNP
rs1208963240 22 dbSNP
rs767106215 23 dbSNP
rs1235051225 24 dbSNP
rs201093958 25 dbSNP
rs757586268 30 dbSNP
rs1343424082 36 dbSNP
rs1210805245 41 dbSNP
rs985546750 43 dbSNP
rs779445504 48 dbSNP
rs911310079 60 dbSNP
rs1380182401 71 dbSNP
rs1301226456 72 dbSNP
rs1381586014 73 dbSNP
rs941380575 79 dbSNP
rs1229139647 81 dbSNP
rs1038357071 86 dbSNP
rs1315528972 95 dbSNP
rs1375638980 98 dbSNP
rs996019060 99 dbSNP
rs1197723181 110 dbSNP
rs1477887092 119 dbSNP
rs1264683696 125 dbSNP
rs1029274803 130 dbSNP
rs1287371748 141 dbSNP
rs1347878028 143 dbSNP
rs111781352 144 dbSNP
rs1009005584 145 dbSNP
rs1020270588 161 dbSNP
rs1202022741 187 dbSNP
rs556212275 194 dbSNP
rs1273365715 195 dbSNP
rs1483356733 195 dbSNP
rs566770443 201 dbSNP
rs1280176125 207 dbSNP
rs1398183458 215 dbSNP
rs926224315 219 dbSNP
rs552080336 222 dbSNP
rs959248732 225 dbSNP
rs1033452780 227 dbSNP
rs1159096540 231 dbSNP
rs894881988 232 dbSNP
rs1011044762 234 dbSNP
rs1465826250 235 dbSNP
rs1425281921 236 dbSNP
rs1190908540 237 dbSNP
rs1477198872 250 dbSNP
rs1238024342 256 dbSNP
rs1021981390 258 dbSNP
rs1394386313 270 dbSNP
rs756657358 278 dbSNP
rs1277674011 284 dbSNP
rs565321012 290 dbSNP
rs150543962 291 dbSNP
rs1260182725 295 dbSNP
rs1216925622 300 dbSNP
rs1361319651 317 dbSNP
rs1029863869 320 dbSNP
rs1450796951 321 dbSNP
rs1448966967 341 dbSNP
rs1339161698 342 dbSNP
rs1336486253 343 dbSNP
rs576011486 357 dbSNP
rs1297834494 362 dbSNP
rs955579260 373 dbSNP
rs1375053775 387 dbSNP
rs1046145458 389 dbSNP
rs549418172 392 dbSNP
rs1347766339 398 dbSNP
rs940362806 402 dbSNP
rs1408932684 406 dbSNP
rs1413872418 413 dbSNP
rs1164431114 415 dbSNP
rs1037810089 417 dbSNP
rs1179046369 418 dbSNP
rs1218024722 426 dbSNP
rs1280082783 427 dbSNP
rs1312290779 436 dbSNP
rs899072992 442 dbSNP
rs962838434 458 dbSNP
rs764887689 465 dbSNP
rs1050249185 469 dbSNP
rs569420131 471 dbSNP
rs1008954747 475 dbSNP
rs1230031382 479 dbSNP
rs1458855547 482 dbSNP
rs35937139 505 dbSNP
rs758152799 514 dbSNP
rs1047710118 520 dbSNP
rs927862863 524 dbSNP
rs903309268 525 dbSNP
rs939195803 531 dbSNP
rs1252879489 538 dbSNP
rs746343817 541 dbSNP
rs1203244350 542 dbSNP
rs1403048583 543 dbSNP
rs377309702 544 dbSNP
rs2307417 546 dbSNP
rs35520307 547 dbSNP
rs747050280 548 dbSNP
rs1452452080 549 dbSNP
rs769025799 551 dbSNP
rs1375810875 554 dbSNP
rs752531073 555 dbSNP
rs776956399 556 dbSNP
rs748001601 557 dbSNP
rs756461027 557 dbSNP
rs769694595 558 dbSNP
rs958967385 560 dbSNP
rs1449910116 567 dbSNP
rs77217925 571 dbSNP
rs1241492074 574 dbSNP
rs368521829 580 dbSNP
rs766275202 589 dbSNP
rs971545687 590 dbSNP
rs981786446 591 dbSNP
rs773748252 596 dbSNP
rs759006086 598 dbSNP
rs1226721726 602 dbSNP
rs767195966 603 dbSNP
rs1481043964 604 dbSNP
rs1197804717 606 dbSNP
rs1265293251 607 dbSNP
rs778081793 609 dbSNP
rs752324753 611 dbSNP
rs940468355 616 dbSNP
rs2307416 617 dbSNP
rs34645321 618 dbSNP
rs201243903 619 dbSNP
rs537248708 632 dbSNP
rs3813629 634 dbSNP
rs1462142763 635 dbSNP
rs749380602 636 dbSNP
rs1387926756 638 dbSNP
rs755279262 639 dbSNP
rs780564353 640 dbSNP
rs1327146568 644 dbSNP
rs751722876 645 dbSNP
rs931891347 646 dbSNP
rs755081784 652 dbSNP
rs771091045 653 dbSNP
rs1050782057 656 dbSNP
rs781617937 663 dbSNP
rs1426193962 664 dbSNP
rs1193137108 672 dbSNP
rs1308466409 674 dbSNP
rs748367918 675 dbSNP
rs1263939811 682 dbSNP
rs769779489 683 dbSNP
rs777436441 690 dbSNP
rs147849659 695 dbSNP
rs376510791 696 dbSNP
rs774313084 698 dbSNP
rs140549301 701 dbSNP
rs771557332 707 dbSNP
rs369311646 712 dbSNP
rs141389397 718 dbSNP
rs141332323 724 dbSNP
rs200228217 727 dbSNP
rs758748494 728 dbSNP
rs1032991509 737 dbSNP
rs894479769 742 dbSNP
rs779493594 743 dbSNP
rs1363054533 744 dbSNP
rs1384340586 746 dbSNP
rs752094371 747 dbSNP
rs794727971 748 dbSNP
rs1310834177 751 dbSNP
rs1253312532 753 dbSNP
rs373882046 756 dbSNP
rs781417564 757 dbSNP
rs752758736 758 dbSNP
rs756304664 771 dbSNP
rs79799851 772 dbSNP
rs1213536219 774 dbSNP
rs1055414374 775 dbSNP
rs749076282 777 dbSNP
rs1187983944 781 dbSNP
rs139722132 782 dbSNP
rs1466421475 787 dbSNP
rs770736555 789 dbSNP
rs376397342 791 dbSNP
rs369817002 792 dbSNP
rs745800174 796 dbSNP
rs2307414 810 dbSNP
rs150124500 811 dbSNP
rs774991039 812 dbSNP
rs373127924 814 dbSNP
rs768226364 816 dbSNP
rs776318584 817 dbSNP
rs36017137 820 dbSNP
rs200408085 821 dbSNP
rs1295404457 823 dbSNP
rs775065775 824 dbSNP
rs760125469 832 dbSNP
rs1483816006 835 dbSNP
rs1258143716 836 dbSNP
rs376037614 850 dbSNP
rs1406734320 852 dbSNP
rs370975090 853 dbSNP
rs768080314 859 dbSNP
rs752848691 864 dbSNP
rs1217897337 867 dbSNP
rs756185699 870 dbSNP
rs754077928 872 dbSNP
rs757066580 875 dbSNP
rs1219984172 879 dbSNP
rs778679467 880 dbSNP
rs1294845526 881 dbSNP
rs745601476 884 dbSNP
rs1381173792 887 dbSNP
rs2307421 896 dbSNP
rs35103872 897 dbSNP
rs1451582978 899 dbSNP
rs1171685832 907 dbSNP
rs1171611683 910 dbSNP
rs1394135437 911 dbSNP
rs1467307382 919 dbSNP
rs2307423 920 dbSNP
rs34859188 921 dbSNP
rs931646268 938 dbSNP
rs563015050 939 dbSNP
rs1350947451 943 dbSNP
rs1430688858 946 dbSNP
rs1461127590 948 dbSNP
rs113342035 950 dbSNP
rs996076110 960 dbSNP
rs911806264 961 dbSNP
rs1025751397 965 dbSNP
rs1250274273 968 dbSNP
rs528932076 980 dbSNP
rs1323455144 996 dbSNP
rs981502140 997 dbSNP
rs1035696978 999 dbSNP
rs1218796767 1003 dbSNP
rs1377357344 1003 dbSNP
rs1292298715 1004 dbSNP
rs549094253 1005 dbSNP
rs112412366 1008 dbSNP
rs990787802 1010 dbSNP
rs1297708810 1011 dbSNP
rs916483992 1012 dbSNP
rs746433585 1013 dbSNP
rs868698879 1016 dbSNP
rs903034624 1019 dbSNP
rs1180832162 1022 dbSNP
rs757286474 1029 dbSNP
rs1209965940 1037 dbSNP
rs1214402365 1039 dbSNP
rs780976879 1042 dbSNP
rs774495304 1044 dbSNP
rs79605903 1050 dbSNP
rs1261062849 1051 dbSNP
rs190825298 1057 dbSNP
rs936071185 1059 dbSNP
rs1221637785 1062 dbSNP
rs1054955855 1067 dbSNP
rs935097740 1071 dbSNP
rs147606131 1073 dbSNP
rs1334222453 1074 dbSNP
rs1165328023 1077 dbSNP
rs571576903 1090 dbSNP
rs1306527221 1097 dbSNP
rs1013329830 1099 dbSNP
rs1387462230 1109 dbSNP
rs1415015361 1114 dbSNP
rs1301313297 1115 dbSNP
rs1045743051 1116 dbSNP
rs1296900696 1123 dbSNP
rs907450066 1128 dbSNP
rs1004444571 1130 dbSNP
rs942352333 1134 dbSNP
rs183109360 1135 dbSNP
rs963214822 1139 dbSNP
rs994559425 1152 dbSNP
rs1027816430 1159 dbSNP
rs149091267 1162 dbSNP
rs1220998506 1171 dbSNP
rs1284531721 1172 dbSNP
rs1488592750 1177 dbSNP
rs953191922 1198 dbSNP
rs1349720288 1202 dbSNP
rs543413059 1206 dbSNP
rs985781241 1217 dbSNP
rs186170058 1218 dbSNP
rs1354412671 1232 dbSNP
rs1217423237 1233 dbSNP
rs911583942 1238 dbSNP
rs1440865894 1242 dbSNP
rs1341733946 1248 dbSNP
rs1320813818 1259 dbSNP
rs965930261 1262 dbSNP
rs573911182 1272 dbSNP
rs1439475249 1283 dbSNP
rs1467263262 1285 dbSNP
rs1035770157 1291 dbSNP
rs977350461 1292 dbSNP
rs745723343 1293 dbSNP
rs536728838 1302 dbSNP
rs1265292187 1305 dbSNP
rs1190927303 1309 dbSNP
rs1446300601 1311 dbSNP
rs935834942 1315 dbSNP
rs1201927011 1333 dbSNP
rs368739073 1335 dbSNP
rs1304749332 1342 dbSNP
rs113148007 1343 dbSNP
rs1397369577 1345 dbSNP
rs563704178 1348 dbSNP
rs1318692546 1350 dbSNP
rs775973782 1355 dbSNP
rs1272486895 1356 dbSNP
rs1334885922 1358 dbSNP
rs948833045 1363 dbSNP
rs1326287309 1369 dbSNP
rs1335310132 1378 dbSNP
rs1454868416 1383 dbSNP
rs1444306523 1385 dbSNP
rs1311266179 1389 dbSNP
rs878979614 1391 dbSNP
rs151072324 1392 dbSNP
rs1004390814 1395 dbSNP
rs912308255 1400 dbSNP
rs942403648 1420 dbSNP
rs1037250213 1425 dbSNP
rs1237939608 1428 dbSNP
rs898788284 1435 dbSNP
rs190596211 1436 dbSNP
rs761284870 1438 dbSNP
rs764652892 1446 dbSNP
rs1028521775 1450 dbSNP
rs1203258087 1464 dbSNP
rs953230901 1467 dbSNP
rs1202324367 1468 dbSNP
rs1458338333 1470 dbSNP
rs1279594722 1471 dbSNP
rs1335304469 1472 dbSNP
rs1275208900 1478 dbSNP
rs1212839874 1480 dbSNP
rs1339329765 1482 dbSNP
rs1285275279 1488 dbSNP
rs1047311714 1493 dbSNP
rs66513069 1493 dbSNP
rs887308508 1493 dbSNP
rs1447069858 1494 dbSNP
rs1355884194 1496 dbSNP
rs12143639 1498 dbSNP
rs116828203 1501 dbSNP
rs1414497644 1502 dbSNP
rs77280084 1514 dbSNP
rs1165390402 1518 dbSNP
rs1177135643 1520 dbSNP
rs1012976515 1542 dbSNP
rs1240458677 1551 dbSNP
rs1440583636 1553 dbSNP
rs757919735 1561 dbSNP
rs965710106 1562 dbSNP
rs977296514 1564 dbSNP
rs1291305799 1571 dbSNP
rs1225348120 1575 dbSNP
rs1357842833 1581 dbSNP
rs765895692 1586 dbSNP
rs1000743440 1592 dbSNP
rs1375141740 1599 dbSNP
rs1030867572 1601 dbSNP
rs4073054 1603 dbSNP
rs1176070165 1607 dbSNP
rs1408080539 1619 dbSNP
rs1421357698 1623 dbSNP
rs754641564 1627 dbSNP
rs1194766733 1630 dbSNP
rs915767511 1630 dbSNP
rs948780489 1631 dbSNP
rs779924406 1632 dbSNP
rs201634883 1633 dbSNP
rs772632971 1633 dbSNP
rs1315004431 1634 dbSNP
rs746543790 1636 dbSNP
rs768193059 1639 dbSNP
rs558974417 1640 dbSNP
rs780874375 1640 dbSNP
rs1269709441 1643 dbSNP
rs928604153 1645 dbSNP
rs183296423 1646 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 84134.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "PAR-CLIP data was present in SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ggUUCUCU-ACA---ACCGGGauug 5'
            | || | |||   ||||||    
Target 5' ccAUGAAACUGUGAAUGGCCC---- 3'
 		2 - 22
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
CLIP-seq Support 1 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_032174 | 3UTR | CCUGGAACUGGCUUUGACCAUGAAACUGUGAAUGGCCCUAACUUCAAGGGAAAUGAGAAAUCGAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_032174 | 3UTR | GAACUGGCUUUGACCAUGAAACUGUGAAUGGCCCUAACUUCAAGGGAAAUGAGAAAUCGAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_032174 | 3UTR | GGCCCUAACUUCAAGGGAAAUGAGAAAUCGAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_032174 | 3UTR | CCAUGAAACUGUGAAUGGCCCUAACUUCAAGGGAAAUGAGAAAUCGAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_032174 | 3UTR | GCCCUAACUUCAAGGGAAAUGAGAAAUCGAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000367987.1 | 3UTR | ACCAUGAAACUGUGAAUGGCCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
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
33 hsa-miR-2909 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT254788 XRCC6 X-ray repair cross complementing 6 2 4
MIRT464426 UHMK1 U2AF homology motif kinase 1 2 2
MIRT478185 DDX6 DEAD-box helicase 6 2 6
MIRT481768 APEX1 apurinic/apyrimidinic endodeoxyribonuclease 1 2 2
MIRT489915 RTKN rhotekin 2 2
MIRT500566 VPS4A vacuolar protein sorting 4 homolog A 2 8
MIRT510700 SREK1IP1 SREK1 interacting protein 1 2 6
MIRT513331 CDK2 cyclin dependent kinase 2 2 4
MIRT524310 CTC1 CST telomere replication complex component 1 2 4
MIRT533571 TOMM40L translocase of outer mitochondrial membrane 40 like 2 2
MIRT537784 EIF4E3 eukaryotic translation initiation factor 4E family member 3 2 2
MIRT540489 ZMAT4 zinc finger matrin-type 4 2 8
MIRT547020 PPP1CB protein phosphatase 1 catalytic subunit beta 2 2
MIRT549561 C19orf12 chromosome 19 open reading frame 12 2 2
MIRT557346 HBP1 HMG-box transcription factor 1 2 4
MIRT564692 ZNF322P1 zinc finger protein 322 pseudogene 1 2 2
MIRT570167 LIPG lipase G, endothelial type 2 2
MIRT621677 UBE2QL1 ubiquitin conjugating enzyme E2 Q family like 1 2 2
MIRT629121 APPL1 adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1 2 4
MIRT633745 MCM9 minichromosome maintenance 9 homologous recombination repair factor 2 2
MIRT634178 TXNDC16 thioredoxin domain containing 16 2 2
MIRT646387 SLC22A6 solute carrier family 22 member 6 2 2
MIRT651181 ZNF281 zinc finger protein 281 2 2
MIRT651892 UFD1L ubiquitin recognition factor in ER associated degradation 1 2 2
MIRT675180 KIF1C kinesin family member 1C 2 2
MIRT682670 CPM carboxypeptidase M 2 2
MIRT685990 NEK4 NIMA related kinase 4 2 2
MIRT698850 SRSF2 serine and arginine rich splicing factor 2 2 2
MIRT699396 SLC2A1 solute carrier family 2 member 1 2 2
MIRT723260 SREK1 splicing regulatory glutamic acid and lysine rich protein 1 2 2
MIRT725320 NFASC neurofascin 2 2
MIRT734596 CD276 CD276 molecule 2 0
MIRT734938 PTEN phosphatase and tensin homolog 2 0
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-2909 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-2909 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide sensitive cell line (Bads-200)

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