miRTarBase - #MIRT504377


—
pre-miRNA Information
pre-miRNA hsa-mir-1199   
Genomic Coordinates chr19: 14073361 - 14073479
Description Homo sapiens miR-1199 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-1199-5p
Sequence 21| CCUGAGCCCGGGCCGCGCAG |40
Evidence Not_experimental
Experiments
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1438702968 5 dbSNP
rs757334792 6 dbSNP
rs1159152107 9 dbSNP
rs1365081692 10 dbSNP
rs1451155091 12 dbSNP
rs934105122 17 dbSNP
Putative Targets

Gene Information
Gene Symbol IRF4   
Synonyms LSIRF, MUM1, NF-EM5, SHEP8
Description interferon regulatory factor 4
Transcript NM_002460   
Expression
Putative miRNA Targets on IRF4
3'UTR of IRF4
(miRNA target sites are highlighted)		 
>IRF4|NM_002460|3'UTR
   1 AAAATGTCAAGATGAGTGGTTTTCTTTTTCCTTTTTTTTTTTTTTTTTTTGATACGGGGATACGGGGTCTTGCTCTGTCT
  81 CCCAGGCTGGAGTGCAGTGACACAATCTCAGCTCACTGTGACCTCCGCCTCCTGGGTTCAAGAGACTCTCCTGCCTCAGC
 161 CTCCCTGGTAGCTGGGATTACAGGTGTGAGCCACTGCACCCACCCAAGACAAGTGATTTTCATTGTAAATATTTGACTTT
 241 AGTGAAAGCGTCCAATTGACTGCCCTCTTACTGTTTTGAGGAATTCAGAAGTGGAGATTTCAGTTCAGCGGTTGAGGAGA
 321 ATTGCGGCGAGACAAGCATGGAAAATCAGTGACATCTGATTGGCAGATGAGCTTATTTCAAAAGGAAGGGTGGCTTTGCA
 401 TTTCTTGTGTTCTGTAGACTGCCATCATTGATGATCACTGTGAAAATTGACCAAGTGATGTGTTTACATTTACTGAAATG
 481 CGCTCTTTAATTTGTTGTAGATTAGGTCTTGCTGGAAGACAGAGAAAACTTGCCTTTCAGTATTGACACTGACTAGAGTG
 561 ATGACTGCTTGTAGGTATGTCTGTGCCATTTCTCAGGGAAGTAAGATGTAAATTGAAGAAGCCTCACACGTAAAAGAAAT
 641 GTATTAATGTATGTAGGAGCTGCAGTTCTTGTGGAAGACACTTGCTGAGTGAAGGAAATGAATCTTTGACTGAAGCCGTG
 721 CCTGTAGCCTTGGGGAGGCCCATCCCCCACCTGCCAGCGGTTTCCTGGTGTGGGTCCCTCTGCCCCGCCCTCCTTCCCAT
 801 TGGCTTTCTCTCCTTGGCCTTTCCTGGAAGCCAGTTAGTAAACTTCCTATTTTCTTGAGTCAAAAAACATGAGCGCTACT
 881 CTTGGATGGGACATTTTTGTCTGTCCTACAATCTAGTAATGTCTAAGTAATGGTTAAGTTTTCTTGTTTCTGCATCTTTT
 961 TGACCCTCATTCTTTAGAGATGCTAAAATTCTTCGCATAAAGAAGAAGAAATTAAGGAACATAAATCTTAATACTTGAAC
1041 TGTTGCCCTTCTGTCCAAGTACTTAACTATCTGTTCCCTTCCTCTGTGCCACGCTCCTCTGTTTGTTTGGCTGTCCAGCG
1121 ATCAGCCATGGCGACACTAAAGGAGGAGGAGCCGGGGACTCCCAGGCTGGAGAGCACTGCCAGGACCCACCACTGGAAGC
1201 AGGATGGAGCTGACTACGGAACTGCACACTCAGTGGGCTGTTTCTGCTTATTTCATCTGTTCTATGCTTCCTCGTGCCAA
1281 TTATAGTTTGACAGGGCCTTAAAATTACTTGGCTTTTTCCAAATGCTTCTATTTATAGAATCCCAAAGACCTCCACTTGC
1361 TTAAGTATACCTATCACTTACATTTTTGTGGTTTTGAGAAAGTACAGCAGTAGACTGGGGCGTCACCTCCAGGCCGTTTC
1441 TCATACTACAGGATATTTACTATTACTCCCAGGATCAGCAGAAGATTGCGTAGCTCTCAAATGTGTGTTCCTGCTTTTCT
1521 AATGGATATTTTAAATTCATTCAACAAGCACCTAGTAAGTGCCTGCTGTATCCCTACATTACACAGTTCAGCCTTTATCA
1601 AGCTTAGTGAGCAGTGAGCACTGAAACATTATTTTTTAATGTTTAAAAAGTTTCTAATATTAAAGTCAGAATATTAATAC
1681 AATTAATATTAATATTAACTACAGAAAAGACAAACAGTAGAGAACAGCAAAAAAATAAAAAGGATCTCCTTTTTTCCCAG
1761 CCCAAATTCTCCTCTCTAAAAGTGTCCACAAGAAGGGGTGTTTATTCTTCCAACACATTTCACTTTTCTGTAAATATACA
1841 TAAACTTAAAAAGAAAACCTCATGGAGTCATCTTGCACACACTTTCATGCAGTGCTCTTTGTAGCTAACAGTGAAGATTT
1921 ACCTCGTTCTGCTCAGAGGCCTTGCTGTGGAGCTCCACTGCCATGTACCCAGTAGGGTTTGACATTTCATTAGCCATGCA
2001 ACATGGATATGTATTGGGCAGCAGACTGTGTTTCGTGAACTGCAGTGATGTATACATCTTATAGATGCAAAGTATTTTGG
2081 GGTATATTATCCTAAGGGAAGATAAAGATGATATTAAGAACTGCTGTTTCACGGGGCCCTTACCTGTGACCCTCTTTGCT
2161 GAAGAATATTTAACCCCACACAGCACTTCAAAGAAGCTGTCTTGGAAGTCTGTCTCAGGAGCACCCTGTCTTCTTAATTC
2241 TCCAAGCGGATGCTCCATTTCAATTGCTTTGTGACTTCTTCTTCTTTGTTTTTTTAAATATTATGCTGCTTTAACAGTGG
2321 AGCTGAATTTTCTGGAAAATGCTTCTTGGCTGGGGCCACTACCTCCTTTCCTATCTTTACATCTATGTGTATGTTGACTT
2401 TTTAAAATTCTGAGTGATCCAGGGTATGACCTAGGGAATGAACTAGCTATGAAATACTCAGGGTTAGGAATCCTAGCACT
2481 TGTCTCAGGACTCTGAAAAGGAACGGCTTCCTCATTCCTTGTCTTGATAAAGTGGAATTGGCAAACTAGAATTTAGTTTG
2561 TACTCAGTGGACAGTGCTGTTGAAGATTTGAGGACTTGTTAAAGAGCACTGGGTCATATGGAAAAAATGTATGTGTCTCC
2641 CAGGTGCATTTCTTGGTTTATGTCTTGTTCTTGAGATTTTGTATATTTAGGAAAACCTCAAGCAGTAATTAATATCTCCT
2721 GGAACACTATAGAGAACCAAGTGACCGACTCATTTACAACTGAAACCTAGGAAGCCCCTGAGTCCTGAGCGAAAACAGGA
2801 GAGTTAGTCGCCCTACAGAAAACCCAGCTAGACTATTGGGTATGAACTAAAAAGAGACTGTGCCATGGTGAGAAAAATGT
2881 AAAATCCTACAGTGAAATGAGCAGCCCTTACAGTATTGTTACCACCAAGGGCAGGTAGGTATTAGTGTTTGAAAAAGCTG
2961 GTCTTTGAGCGAGGGCATAAATACAGCTAGCCCCAGGGGTGGAACAACTCTGGGAGTCTTGGGTACTCGCACCTCTTGGC
3041 TTTGTTGATGCTCCGCCAGGAAGGCCACTTGTGTGTGCGTGTCAGTTACTTTTTTAGTAACAATTCAGATCCAGTGTAAA
3121 CTTCCGTTCATTGCTCTCCAGTCACATGCCCCCACTTCCCCACAGGTGAAAGTTTTTCTGAAAGTGTTGGGATTGGTTAA
3201 GGTCTTTATTTGTATTACGTATCTCCCCAAGTCCTCTGTGGCCAGCTGCATCTGTCTGAATGGTGCGTGAAGGCTCTCAG
3281 ACCTTACACACCATTTTGTAAGTTATGTTTTACATGCCCCGTTTTTGAGACTGATCTCGATGCAGGTGGATCTCCTTGAG
3361 ATCCTGATAGCCTGTTACAGGAATGAAGTAAAGGTCAGTTTTTTTTTGTATTGATTTTCACAGCTTTGAGGAACATGCAT
3441 AAGAAATGTAGCTGAAGTAGAGGGGACGTGAGAGAAGGGCCAGGCCGGCAGGCCAACCCTCCTCCAATGGAAATTCCCGT
3521 GTTGCTTCAAACTGAGACAGATGGGACTTAACAGGCAATGGGGTCCACTTCCCCCTCTTCAGCATCCCCCGTACCCCACT
3601 TTCTGCTGAAAGAACTGCCAGCAGGTAGGACCCCAGAGGCCCCCAAATGAAAGCTTGAATTTCCCCTACTGGCTCTGCGT
3681 TTTGCTGAGATCTGTAGGAAAGGATGCTTCACAAACTGAGGTAGATAATGCTATGCTGTCGTTGGTATACATCATGAATT
3761 TTTATGTAAATTGCTCTGCAAAGCAAATTGATATGTTTGATAAATTTATGTTTTTAGGTAAATAAAAACTTTTAAAAATT
3841 TGTTAAAAAA
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' gacGCGCCGGGCCCGAGUcc 5'
             |||  ||:|||:|||  
Target 5' ctcCGCCTCCTGGGTTCAag 3'
 123 - 142 129.00 -22.70
2 
miRNA  3' gacgcgccGGGCCCGAGUCc 5'
                  ||| || |||| 
Target 5' ctattactCCCAGGATCAGc 3'
 1460 - 1479 120.00 -11.10
3 
miRNA  3' gacgcgccgggccCGAGUCc 5'
                       |||||| 
Target 5' tttacctcgttctGCTCAGa 3'
 1918 - 1937 120.00 -11.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30491628 19 COSMIC
COSN19670950 25 COSMIC
COSN30453191 30 COSMIC
COSN19747287 59 COSMIC
COSN20075598 64 COSMIC
COSN30451964 82 COSMIC
COSN30119638 128 COSMIC
COSN2161948 209 COSMIC
COSN8514326 307 COSMIC
COSN20091330 358 COSMIC
COSN31534135 425 COSMIC
COSN26595708 468 COSMIC
COSN28761691 482 COSMIC
COSN6320584 609 COSMIC
COSN28727984 649 COSMIC
COSN31517912 669 COSMIC
COSN32057428 787 COSMIC
COSN6320592 848 COSMIC
COSN9783023 980 COSMIC
COSN29211310 1185 COSMIC
COSN16112134 1228 COSMIC
COSN6320606 1365 COSMIC
COSN9783043 1416 COSMIC
COSN27822408 1652 COSMIC
COSN21224930 1692 COSMIC
COSN2161994 1721 COSMIC
COSN16700243 1883 COSMIC
COSN9783067 2005 COSMIC
COSN20102301 2234 COSMIC
COSN20687909 2304 COSMIC
COSN20370652 2355 COSMIC
COSN4927767 2427 COSMIC
COSN2162021 2917 COSMIC
COSN20347117 3036 COSMIC
COSN4927771 3130 COSMIC
COSN32056150 3287 COSMIC
COSN7882909 3401 COSMIC
COSN20102304 3408 COSMIC
COSN21990208 3482 COSMIC
COSN21807712 3511 COSMIC
COSN29925234 3558 COSMIC
COSN17182222 3585 COSMIC
COSN26265538 3599 COSMIC
COSN31959976 3654 COSMIC
COSN6320646 3734 COSMIC
rs1050976 482 GWAS
rs12211228 1236 GWAS
rs9391997 1522 GWAS
rs1050979 2820 GWAS
rs2316515 3251 GWAS
rs872071 3467 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs771002555 6 dbSNP
rs774316362 7 dbSNP
rs1287784618 9 dbSNP
rs1035245196 10 dbSNP
rs371515441 12 dbSNP
rs1270267136 13 dbSNP
rs775475599 14 dbSNP
rs768455849 15 dbSNP
rs761407099 16 dbSNP
rs764758706 17 dbSNP
rs749865619 18 dbSNP
rs768122834 19 dbSNP
rs753619697 20 dbSNP
rs1381521944 21 dbSNP
rs372253512 24 dbSNP
rs765054639 25 dbSNP
rs80055768 25 dbSNP
rs778312933 26 dbSNP
rs757398829 27 dbSNP
rs752639312 30 dbSNP
rs758429920 30 dbSNP
rs1491546943 31 dbSNP
rs779235356 31 dbSNP
rs1257267027 32 dbSNP
rs1426339732 32 dbSNP
rs1447002276 32 dbSNP
rs1478191313 32 dbSNP
rs566047868 32 dbSNP
rs746192253 32 dbSNP
rs751835173 32 dbSNP
rs777939962 32 dbSNP
rs780451390 32 dbSNP
rs745933211 33 dbSNP
rs772199151 34 dbSNP
rs779912209 35 dbSNP
rs746955792 36 dbSNP
rs768404476 37 dbSNP
rs892240419 38 dbSNP
rs1358476778 39 dbSNP
rs776317163 40 dbSNP
rs1319364805 44 dbSNP
rs1229114103 45 dbSNP
rs1257729979 51 dbSNP
rs931741232 52 dbSNP
rs1200973466 53 dbSNP
rs1194962267 55 dbSNP
rs866384612 56 dbSNP
rs866955429 57 dbSNP
rs1131442 59 dbSNP
rs1394103348 60 dbSNP
rs1256781959 62 dbSNP
rs1404095825 63 dbSNP
rs1336337228 64 dbSNP
rs189617307 65 dbSNP
rs570237434 66 dbSNP
rs1402544493 69 dbSNP
rs1026714048 75 dbSNP
rs1166271601 76 dbSNP
rs952190478 84 dbSNP
rs984864281 85 dbSNP
rs1190006751 86 dbSNP
rs192507789 88 dbSNP
rs964499016 94 dbSNP
rs1242978408 96 dbSNP
rs1474886489 106 dbSNP
rs1458842513 114 dbSNP
rs899474334 118 dbSNP
rs1367175268 120 dbSNP
rs1215179511 121 dbSNP
rs549377281 127 dbSNP
rs569588406 128 dbSNP
rs1267150864 132 dbSNP
rs976002151 136 dbSNP
rs767217694 144 dbSNP
rs923190947 147 dbSNP
rs111502183 149 dbSNP
rs1004088365 161 dbSNP
rs1337807887 167 dbSNP
rs36051076 167 dbSNP
rs1297894481 177 dbSNP
rs1326884709 202 dbSNP
rs759982164 205 dbSNP
rs1409487996 207 dbSNP
rs1392002957 211 dbSNP
rs1412056884 214 dbSNP
rs988525513 221 dbSNP
rs555626339 222 dbSNP
rs914217126 224 dbSNP
rs947178839 227 dbSNP
rs993291296 228 dbSNP
rs1044086674 232 dbSNP
rs905377843 233 dbSNP
rs148645823 238 dbSNP
rs1324848454 242 dbSNP
rs1226970438 250 dbSNP
rs978779101 251 dbSNP
rs765780529 253 dbSNP
rs1057136869 255 dbSNP
rs1353069190 256 dbSNP
rs1278012110 273 dbSNP
rs896758538 274 dbSNP
rs4959248 285 dbSNP
rs759275021 287 dbSNP
rs185376510 310 dbSNP
rs375277275 311 dbSNP
rs1006310837 316 dbSNP
rs1421909028 317 dbSNP
rs543890133 320 dbSNP
rs1017665400 326 dbSNP
rs964560675 327 dbSNP
rs975939817 329 dbSNP
rs1030567354 330 dbSNP
rs1445988484 332 dbSNP
rs1263857437 333 dbSNP
rs557434683 339 dbSNP
rs1193443943 348 dbSNP
rs1374480590 352 dbSNP
rs1041153851 357 dbSNP
rs1223397470 361 dbSNP
rs55788549 372 dbSNP
rs190278564 378 dbSNP
rs1435896853 382 dbSNP
rs62389398 384 dbSNP
rs181522247 392 dbSNP
rs1048089348 395 dbSNP
rs914246513 408 dbSNP
rs1414661309 412 dbSNP
rs1050975 415 dbSNP
rs1319194181 416 dbSNP
rs1004117852 422 dbSNP
rs1479828379 428 dbSNP
rs1424185729 432 dbSNP
rs979834879 439 dbSNP
rs545215784 448 dbSNP
rs895626725 450 dbSNP
rs938415458 453 dbSNP
rs1014342189 458 dbSNP
rs1443172832 466 dbSNP
rs1265235919 480 dbSNP
rs1050976 482 dbSNP
rs1236405903 483 dbSNP
rs1322899988 484 dbSNP
rs896638448 495 dbSNP
rs929611439 499 dbSNP
rs979196101 501 dbSNP
rs1360559966 503 dbSNP
rs1032961581 506 dbSNP
rs1449217578 507 dbSNP
rs750163826 508 dbSNP
rs549837113 521 dbSNP
rs956303914 534 dbSNP
rs1334306968 542 dbSNP
rs1048404889 545 dbSNP
rs989000027 556 dbSNP
rs532869349 566 dbSNP
rs912064698 574 dbSNP
rs1418720104 575 dbSNP
rs1182196326 576 dbSNP
rs141513891 588 dbSNP
rs569591347 595 dbSNP
rs1252767524 602 dbSNP
rs764135698 614 dbSNP
rs1017601354 623 dbSNP
rs900619018 624 dbSNP
rs1206731425 627 dbSNP
rs1272960260 628 dbSNP
rs1385404768 630 dbSNP
rs528867450 630 dbSNP
rs1176063420 631 dbSNP
rs932400512 631 dbSNP
rs1030205908 632 dbSNP
rs186655777 633 dbSNP
rs1159243708 634 dbSNP
rs956028210 641 dbSNP
rs868503698 644 dbSNP
rs1353808973 648 dbSNP
rs7768807 649 dbSNP
rs534873545 650 dbSNP
rs1325564487 655 dbSNP
rs1036909891 660 dbSNP
rs895726959 664 dbSNP
rs751143131 672 dbSNP
rs968374476 680 dbSNP
rs979761196 695 dbSNP
rs1014545675 696 dbSNP
rs1442898756 701 dbSNP
rs1304739176 705 dbSNP
rs140017346 707 dbSNP
rs926948630 711 dbSNP
rs1289977487 714 dbSNP
rs761675106 714 dbSNP
rs1000208382 717 dbSNP
rs959815422 718 dbSNP
rs956001532 719 dbSNP
rs1371945724 724 dbSNP
rs1293676579 725 dbSNP
rs551605330 733 dbSNP
rs1469170756 739 dbSNP
rs375531161 740 dbSNP
rs1019189039 744 dbSNP
rs929429876 746 dbSNP
rs1047986591 748 dbSNP
rs1364548838 749 dbSNP
rs1161522502 758 dbSNP
rs571460911 759 dbSNP
rs537580541 760 dbSNP
rs942248947 769 dbSNP
rs1200252205 775 dbSNP
rs41301859 776 dbSNP
rs778234132 779 dbSNP
rs557669192 784 dbSNP
rs1486386016 787 dbSNP
rs6596980 788 dbSNP
rs953938761 791 dbSNP
rs536673629 799 dbSNP
rs1224824293 809 dbSNP
rs115931740 812 dbSNP
rs1302495804 814 dbSNP
rs1400587452 817 dbSNP
rs1386827584 825 dbSNP
rs891640297 836 dbSNP
rs1286966544 839 dbSNP
rs939632382 841 dbSNP
rs1344840937 843 dbSNP
rs1177197750 844 dbSNP
rs114301817 856 dbSNP
rs1395538998 858 dbSNP
rs1199293644 860 dbSNP
rs917179944 862 dbSNP
rs1203769941 868 dbSNP
rs1462786554 869 dbSNP
rs1296266145 870 dbSNP
rs1263406487 872 dbSNP
rs543066120 875 dbSNP
rs1391902654 877 dbSNP
rs1044634939 878 dbSNP
rs968635381 879 dbSNP
rs1001397458 880 dbSNP
rs1282131881 884 dbSNP
rs1219159826 887 dbSNP
rs188462828 891 dbSNP
rs563755296 893 dbSNP
rs959932186 894 dbSNP
rs150882331 900 dbSNP
rs1381474707 906 dbSNP
rs1197391614 911 dbSNP
rs1000240851 912 dbSNP
rs1054437109 916 dbSNP
rs1273392240 920 dbSNP
rs992597476 930 dbSNP
rs1224162818 934 dbSNP
rs1010232304 938 dbSNP
rs1018928500 943 dbSNP
rs966723235 965 dbSNP
rs918300627 968 dbSNP
rs374904638 972 dbSNP
rs543149951 978 dbSNP
rs1419249707 982 dbSNP
rs117762046 984 dbSNP
rs528945822 992 dbSNP
rs368959717 995 dbSNP
rs776118956 996 dbSNP
rs952206670 998 dbSNP
rs750519743 999 dbSNP
rs1459751499 1000 dbSNP
rs909674004 1009 dbSNP
rs961099724 1010 dbSNP
rs548971147 1018 dbSNP
rs1418791484 1033 dbSNP
rs942301094 1048 dbSNP
rs1226667159 1053 dbSNP
rs1383222549 1056 dbSNP
rs1316981931 1057 dbSNP
rs1167978787 1060 dbSNP
rs180974601 1070 dbSNP
rs1392067300 1074 dbSNP
rs1399197708 1077 dbSNP
rs1166639778 1082 dbSNP
rs1462358429 1085 dbSNP
rs61225369 1087 dbSNP
rs1299792685 1091 dbSNP
rs927128146 1093 dbSNP
rs933290495 1094 dbSNP
rs1165923335 1097 dbSNP
rs1373601435 1100 dbSNP
rs1442329030 1100 dbSNP
rs935872169 1110 dbSNP
rs1413576478 1120 dbSNP
rs528439057 1121 dbSNP
rs891900110 1129 dbSNP
rs553058165 1132 dbSNP
rs1042904646 1133 dbSNP
rs367942941 1142 dbSNP
rs7757384 1154 dbSNP
rs1001408776 1155 dbSNP
rs1307256851 1158 dbSNP
rs1228659948 1160 dbSNP
rs1034194801 1162 dbSNP
rs895494913 1173 dbSNP
rs1014310837 1178 dbSNP
rs1277339371 1188 dbSNP
rs1025298267 1203 dbSNP
rs1029211958 1205 dbSNP
rs1210184341 1214 dbSNP
rs1305265127 1215 dbSNP
rs114595725 1218 dbSNP
rs116527520 1219 dbSNP
rs1016445909 1223 dbSNP
rs185050968 1227 dbSNP
rs12211228 1236 dbSNP
rs961131382 1241 dbSNP
rs1180487770 1242 dbSNP
rs779877499 1244 dbSNP
rs536308936 1253 dbSNP
rs1271002795 1256 dbSNP
rs553335363 1265 dbSNP
rs572898114 1271 dbSNP
rs987905504 1274 dbSNP
rs754834841 1281 dbSNP
rs980168965 1291 dbSNP
rs778917257 1294 dbSNP
rs747555876 1298 dbSNP
rs191084757 1313 dbSNP
rs1403684067 1316 dbSNP
rs1349662322 1324 dbSNP
rs904371088 1327 dbSNP
rs937145451 1337 dbSNP
rs935901667 1338 dbSNP
rs1382331018 1344 dbSNP
rs989970234 1347 dbSNP
rs771767398 1356 dbSNP
rs1055653750 1361 dbSNP
rs1430853975 1365 dbSNP
rs184069935 1368 dbSNP
rs1383083813 1371 dbSNP
rs1014166585 1372 dbSNP
rs1242470079 1374 dbSNP
rs1300286980 1391 dbSNP
rs1448885605 1392 dbSNP
rs74389255 1397 dbSNP
rs1208404513 1400 dbSNP
rs1324341630 1409 dbSNP
rs1285351548 1415 dbSNP
rs1222212416 1417 dbSNP
rs1367536954 1417 dbSNP
rs1271071925 1419 dbSNP
rs1433368254 1421 dbSNP
rs886740389 1422 dbSNP
rs544813537 1423 dbSNP
rs1281741452 1428 dbSNP
rs1470032788 1429 dbSNP
rs1016665262 1431 dbSNP
rs1173705377 1433 dbSNP
rs1314004656 1436 dbSNP
rs777563874 1437 dbSNP
rs974931858 1444 dbSNP
rs1029150046 1449 dbSNP
rs901846400 1450 dbSNP
rs746699751 1451 dbSNP
rs771255143 1453 dbSNP
rs955163515 1454 dbSNP
rs987737036 1463 dbSNP
rs1486324111 1467 dbSNP
rs1461981721 1468 dbSNP
rs1804286 1469 dbSNP
rs913226297 1489 dbSNP
rs187034106 1490 dbSNP
rs1453632939 1491 dbSNP
rs1312084576 1495 dbSNP
rs1274352261 1498 dbSNP
rs888059834 1500 dbSNP
rs1006452051 1504 dbSNP
rs1337817611 1505 dbSNP
rs1297414486 1506 dbSNP
rs1174159388 1516 dbSNP
rs1427227955 1519 dbSNP
rs9391997 1522 dbSNP
rs1384556485 1532 dbSNP
rs1334035499 1539 dbSNP
rs763379706 1545 dbSNP
rs937407073 1553 dbSNP
rs1408206247 1555 dbSNP
rs542351930 1566 dbSNP
rs1163998998 1569 dbSNP
rs1436842570 1577 dbSNP
rs547679471 1579 dbSNP
rs15640 1592 dbSNP
rs1181781572 1606 dbSNP
rs768984596 1606 dbSNP
rs559339773 1613 dbSNP
rs867615954 1615 dbSNP
rs866508597 1616 dbSNP
rs1046944210 1649 dbSNP
rs1306327413 1655 dbSNP
rs1304767640 1658 dbSNP
rs1274295539 1660 dbSNP
rs1370402007 1661 dbSNP
rs979814480 1666 dbSNP
rs1312488356 1670 dbSNP
rs886788521 1671 dbSNP
rs1227428571 1678 dbSNP
rs1222097157 1680 dbSNP
rs1252101589 1681 dbSNP
rs1283656576 1682 dbSNP
rs78361121 1686 dbSNP
rs1038024617 1688 dbSNP
rs899613254 1700 dbSNP
rs1426342849 1702 dbSNP
rs990001464 1708 dbSNP
rs1271558887 1721 dbSNP
rs913066922 1728 dbSNP
rs1423524532 1729 dbSNP
rs1467841175 1732 dbSNP
rs996589551 1742 dbSNP
rs1029614468 1744 dbSNP
rs954861972 1748 dbSNP
rs147755767 1754 dbSNP
rs1468543292 1758 dbSNP
rs140709145 1759 dbSNP
rs1490935720 1761 dbSNP
rs932047321 1770 dbSNP
rs1408070614 1776 dbSNP
rs967367365 1779 dbSNP
rs867480247 1782 dbSNP
rs887756240 1785 dbSNP
rs1162321462 1794 dbSNP
rs942265268 1796 dbSNP
rs925941571 1799 dbSNP
rs1036583029 1809 dbSNP
rs1349744522 1812 dbSNP
rs898072788 1815 dbSNP
rs1393329269 1817 dbSNP
rs958822856 1819 dbSNP
rs1025544295 1822 dbSNP
rs906978199 1841 dbSNP
rs1001661137 1848 dbSNP
rs1440642918 1848 dbSNP
rs530792172 1855 dbSNP
rs1161324409 1856 dbSNP
rs563222890 1863 dbSNP
rs949888216 1874 dbSNP
rs1047440619 1878 dbSNP
rs908482827 1879 dbSNP
rs1011455743 1883 dbSNP
rs1020191662 1889 dbSNP
rs144644488 1898 dbSNP
rs1171260324 1910 dbSNP
rs1485968267 1922 dbSNP
rs1262147191 1924 dbSNP
rs750617202 1926 dbSNP
rs529126391 1927 dbSNP
rs1263294019 1932 dbSNP
rs923070028 1938 dbSNP
rs1214022768 1940 dbSNP
rs1401951561 1948 dbSNP
rs1343580817 1954 dbSNP
rs760841802 1958 dbSNP
rs1050832225 1962 dbSNP
rs1382598286 1967 dbSNP
rs890632279 1968 dbSNP
rs1362858081 1971 dbSNP
rs1290830032 1972 dbSNP
rs1435934734 1980 dbSNP
rs986175792 1985 dbSNP
rs909222669 1989 dbSNP
rs530261419 1994 dbSNP
rs1471206768 1997 dbSNP
rs1376468703 2002 dbSNP
rs1198539819 2004 dbSNP
rs1009041857 2009 dbSNP
rs1233439255 2011 dbSNP
rs942046348 2012 dbSNP
rs1036363123 2014 dbSNP
rs1020850335 2020 dbSNP
rs1185202709 2021 dbSNP
rs1243156241 2023 dbSNP
rs1205023703 2027 dbSNP
rs1342735857 2028 dbSNP
rs570574765 2035 dbSNP
rs145752540 2036 dbSNP
rs1309003295 2038 dbSNP
rs1293252291 2050 dbSNP
rs1433098616 2052 dbSNP
rs766623484 2053 dbSNP
rs1337430681 2061 dbSNP
rs753513417 2063 dbSNP
rs1400221948 2070 dbSNP
rs566563707 2083 dbSNP
rs1463006928 2090 dbSNP
rs1032979288 2094 dbSNP
rs958667069 2097 dbSNP
rs905334023 2104 dbSNP
rs1167113274 2109 dbSNP
rs1001291801 2114 dbSNP
rs1385512161 2115 dbSNP
rs1055436434 2126 dbSNP
rs991998457 2133 dbSNP
rs1254917102 2134 dbSNP
rs1393310645 2144 dbSNP
rs1408619637 2145 dbSNP
rs1328733246 2146 dbSNP
rs892879621 2147 dbSNP
rs917317167 2153 dbSNP
rs1272134404 2168 dbSNP
rs971870195 2182 dbSNP
rs982665661 2187 dbSNP
rs908368215 2190 dbSNP
rs1247310638 2193 dbSNP
rs148958555 2200 dbSNP
rs765074729 2202 dbSNP
rs1354981289 2209 dbSNP
rs920938492 2213 dbSNP
rs932305812 2221 dbSNP
rs1051304389 2226 dbSNP
rs558503377 2227 dbSNP
rs10530949 2229 dbSNP
rs35957122 2229 dbSNP
rs945105703 2244 dbSNP
rs1367323975 2248 dbSNP
rs1286236526 2249 dbSNP
rs569215355 2257 dbSNP
rs538106906 2264 dbSNP
rs972086690 2275 dbSNP
rs919220753 2278 dbSNP
rs949678370 2278 dbSNP
rs903323482 2281 dbSNP
rs1354521554 2282 dbSNP
rs1283603837 2284 dbSNP
rs1273584811 2289 dbSNP
rs1352815758 2307 dbSNP
rs926819784 2309 dbSNP
rs938215763 2312 dbSNP
rs1484008553 2315 dbSNP
rs752747602 2318 dbSNP
rs866890081 2321 dbSNP
rs757950661 2334 dbSNP
rs1366575236 2335 dbSNP
rs1208028198 2341 dbSNP
rs1454878987 2342 dbSNP
rs191954703 2342 dbSNP
rs894501753 2343 dbSNP
rs1041384321 2347 dbSNP
rs1480757221 2363 dbSNP
rs183330713 2364 dbSNP
rs1012943797 2374 dbSNP
rs1450042975 2390 dbSNP
rs1289457867 2397 dbSNP
rs997450577 2399 dbSNP
rs868480579 2402 dbSNP
rs1030701126 2409 dbSNP
rs1266384415 2418 dbSNP
rs542742007 2420 dbSNP
rs746548527 2425 dbSNP
rs1189162900 2427 dbSNP
rs1371023492 2429 dbSNP
rs1474606703 2430 dbSNP
rs889038418 2431 dbSNP
rs1346709495 2437 dbSNP
rs187292345 2449 dbSNP
rs143115691 2458 dbSNP
rs971541091 2460 dbSNP
rs545036929 2464 dbSNP
rs756902290 2467 dbSNP
rs1458550217 2469 dbSNP
rs564829331 2477 dbSNP
rs1157792431 2482 dbSNP
rs191745031 2489 dbSNP
rs1470192726 2492 dbSNP
rs1431393500 2495 dbSNP
rs544177406 2496 dbSNP
rs780909578 2497 dbSNP
rs1477561610 2504 dbSNP
rs1172394777 2505 dbSNP
rs749600670 2506 dbSNP
rs1246202879 2512 dbSNP
rs182474429 2521 dbSNP
rs186804354 2528 dbSNP
rs768325467 2533 dbSNP
rs547101332 2535 dbSNP
rs932541224 2536 dbSNP
rs78252705 2539 dbSNP
rs912205307 2543 dbSNP
rs1362589957 2548 dbSNP
rs945183849 2562 dbSNP
rs776690592 2573 dbSNP
rs1452756447 2577 dbSNP
rs903376068 2580 dbSNP
rs151195617 2593 dbSNP
rs1413899578 2595 dbSNP
rs1419944541 2596 dbSNP
rs938246778 2606 dbSNP
rs1054534447 2609 dbSNP
rs1388577450 2612 dbSNP
rs140374480 2621 dbSNP
rs1461801740 2624 dbSNP
rs1013578251 2632 dbSNP
rs1208628586 2634 dbSNP
rs552155218 2640 dbSNP
rs192168561 2641 dbSNP
rs1201706532 2642 dbSNP
rs185750178 2643 dbSNP
rs1259167291 2649 dbSNP
rs1231110324 2652 dbSNP
rs554949295 2653 dbSNP
rs773239690 2661 dbSNP
rs1804287 2663 dbSNP
rs1192835166 2677 dbSNP
rs1380700855 2685 dbSNP
rs1300628687 2690 dbSNP
rs1249026365 2697 dbSNP
rs1451788343 2700 dbSNP
rs866835536 2710 dbSNP
rs1172295945 2711 dbSNP
rs1309570968 2712 dbSNP
rs1355040860 2712 dbSNP
rs907157683 2713 dbSNP
rs1395056921 2717 dbSNP
rs1427558730 2718 dbSNP
rs1466582019 2724 dbSNP
rs1168193811 2728 dbSNP
rs568665788 2731 dbSNP
rs1415983442 2733 dbSNP
rs1015658229 2737 dbSNP
rs1382993571 2738 dbSNP
rs962554781 2739 dbSNP
rs760751851 2747 dbSNP
rs766533707 2748 dbSNP
rs1482258857 2752 dbSNP
rs534150703 2758 dbSNP
rs1274450934 2759 dbSNP
rs1222752531 2760 dbSNP
rs1028144707 2761 dbSNP
rs1016121311 2776 dbSNP
rs1373492275 2778 dbSNP
rs954019635 2780 dbSNP
rs145553686 2791 dbSNP
rs1331630623 2792 dbSNP
rs1349643659 2797 dbSNP
rs912239359 2810 dbSNP
rs1258432138 2811 dbSNP
rs1050979 2820 dbSNP
rs1162707436 2825 dbSNP
rs1412842111 2831 dbSNP
rs1184958357 2832 dbSNP
rs977831812 2837 dbSNP
rs1208955718 2838 dbSNP
rs925059631 2841 dbSNP
rs936411410 2843 dbSNP
rs1054586910 2854 dbSNP
rs1252867187 2855 dbSNP
rs1220427163 2857 dbSNP
rs1316983207 2858 dbSNP
rs768966449 2859 dbSNP
rs1269537511 2861 dbSNP
rs1226443178 2864 dbSNP
rs982543635 2879 dbSNP
rs1283643942 2886 dbSNP
rs1877175 2896 dbSNP
rs1365285374 2912 dbSNP
rs959635072 2913 dbSNP
rs1362131991 2914 dbSNP
rs1469735146 2915 dbSNP
rs1877176 2916 dbSNP
rs1046369432 2920 dbSNP
rs1456049014 2924 dbSNP
rs575121812 2926 dbSNP
rs907213548 2930 dbSNP
rs1004191654 2932 dbSNP
rs544531858 2953 dbSNP
rs1435248936 2961 dbSNP
rs1265794669 2962 dbSNP
rs898607921 2971 dbSNP
rs1324983518 2972 dbSNP
rs1207619032 2973 dbSNP
rs924381575 2977 dbSNP
rs1206319811 2979 dbSNP
rs933073407 2980 dbSNP
rs1051882267 2988 dbSNP
rs1235374062 2991 dbSNP
rs758371338 3002 dbSNP
rs1310210023 3003 dbSNP
rs9392502 3011 dbSNP
rs1304855016 3015 dbSNP
rs529974605 3020 dbSNP
rs1366205637 3029 dbSNP
rs751054240 3029 dbSNP
rs1433015652 3030 dbSNP
rs138169828 3036 dbSNP
rs756883949 3042 dbSNP
rs1303931010 3046 dbSNP
rs1008160173 3051 dbSNP
rs1468082652 3053 dbSNP
rs867145742 3054 dbSNP
rs190275816 3055 dbSNP
rs535002697 3056 dbSNP
rs745571942 3059 dbSNP
rs899071655 3060 dbSNP
rs1186337300 3066 dbSNP
rs1464022959 3067 dbSNP
rs1332253467 3072 dbSNP
rs1019926806 3074 dbSNP
rs1212150114 3079 dbSNP
rs559866046 3080 dbSNP
rs193183521 3082 dbSNP
rs1265234312 3090 dbSNP
rs1482241351 3116 dbSNP
rs756155641 3126 dbSNP
rs924943128 3127 dbSNP
rs993777617 3131 dbSNP
rs1300066051 3134 dbSNP
rs532514140 3135 dbSNP
rs1364534147 3136 dbSNP
rs1249084050 3139 dbSNP
rs552241242 3146 dbSNP
rs555959698 3147 dbSNP
rs1472282676 3148 dbSNP
rs531585583 3149 dbSNP
rs1398236748 3151 dbSNP
rs1400736636 3155 dbSNP
rs779284208 3156 dbSNP
rs1183014065 3158 dbSNP
rs1414385547 3161 dbSNP
rs567975411 3162 dbSNP
rs1430785187 3163 dbSNP
rs1372836860 3170 dbSNP
rs990491693 3172 dbSNP
rs1448557304 3174 dbSNP
rs916088138 3185 dbSNP
rs1189023853 3192 dbSNP
rs1421944909 3204 dbSNP
rs764206664 3215 dbSNP
rs1376668219 3216 dbSNP
rs772504849 3218 dbSNP
rs928904558 3219 dbSNP
rs1203214805 3220 dbSNP
rs1272286418 3220 dbSNP
rs1338987441 3226 dbSNP
rs1266070915 3228 dbSNP
rs2316514 3229 dbSNP
rs1338829703 3232 dbSNP
rs1395730584 3232 dbSNP
rs1010855615 3235 dbSNP
rs1022542881 3236 dbSNP
rs1409855558 3237 dbSNP
rs966917827 3237 dbSNP
rs1037067026 3245 dbSNP
rs978696893 3249 dbSNP
rs1391041637 3250 dbSNP
rs2316515 3251 dbSNP
rs1232299185 3257 dbSNP
rs995591652 3260 dbSNP
rs954635110 3263 dbSNP
rs1313063300 3267 dbSNP
rs987197965 3268 dbSNP
rs1473541086 3270 dbSNP
rs1249262329 3275 dbSNP
rs771110945 3277 dbSNP
rs910225080 3278 dbSNP
rs1050244674 3281 dbSNP
rs1483022612 3283 dbSNP
rs1400230590 3289 dbSNP
rs534463057 3290 dbSNP
rs150097398 3293 dbSNP
rs1008504435 3294 dbSNP
rs1181471359 3299 dbSNP
rs1331840964 3307 dbSNP
rs1286804609 3314 dbSNP
rs553335369 3315 dbSNP
rs1325075816 3319 dbSNP
rs573151598 3320 dbSNP
rs906329169 3321 dbSNP
rs1159265330 3322 dbSNP
rs1168092269 3328 dbSNP
rs999395837 3340 dbSNP
rs571055194 3358 dbSNP
rs1409697139 3359 dbSNP
rs1430338313 3361 dbSNP
rs1004045567 3363 dbSNP
rs1478216983 3371 dbSNP
rs1373082798 3377 dbSNP
rs775288126 3379 dbSNP
rs1201261042 3381 dbSNP
rs1450096120 3382 dbSNP
rs1252376287 3398 dbSNP
rs1209471758 3399 dbSNP
rs3842113 3399 dbSNP
rs398084699 3399 dbSNP
rs572818581 3399 dbSNP
rs575600001 3399 dbSNP
rs796847433 3399 dbSNP
rs201128980 3400 dbSNP
rs1380918745 3409 dbSNP
rs1398092570 3411 dbSNP
rs1293882890 3412 dbSNP
rs1341975503 3414 dbSNP
rs1229767995 3415 dbSNP
rs370631068 3419 dbSNP
rs1022242340 3422 dbSNP
rs1277452378 3424 dbSNP
rs1415025097 3439 dbSNP
rs538779996 3443 dbSNP
rs1170595495 3447 dbSNP
rs1477138050 3458 dbSNP
rs872071 3467 dbSNP
rs575226556 3469 dbSNP
rs1451373126 3482 dbSNP
rs1246334460 3484 dbSNP
rs1030244845 3487 dbSNP
rs1484369504 3488 dbSNP
rs1184491536 3494 dbSNP
rs928808872 3497 dbSNP
rs1247178770 3500 dbSNP
rs45580432 3508 dbSNP
rs972939404 3514 dbSNP
rs910341092 3516 dbSNP
rs1230250198 3519 dbSNP
rs919930782 3520 dbSNP
rs931280646 3534 dbSNP
rs1393226741 3537 dbSNP
rs1448578062 3539 dbSNP
rs1049734829 3545 dbSNP
rs1331892764 3550 dbSNP
rs1413357044 3553 dbSNP
rs761372765 3558 dbSNP
rs1169462271 3559 dbSNP
rs920228399 3570 dbSNP
rs929232388 3574 dbSNP
rs1186037006 3576 dbSNP
rs3191352 3578 dbSNP
rs1473385060 3580 dbSNP
rs1239703237 3583 dbSNP
rs1186101575 3590 dbSNP
rs944130794 3591 dbSNP
rs554517727 3592 dbSNP
rs1275875307 3593 dbSNP
rs902316678 3598 dbSNP
rs1360464534 3600 dbSNP
rs574655292 3600 dbSNP
rs927864050 3602 dbSNP
rs1050985 3604 dbSNP
rs1451166363 3610 dbSNP
rs1287979355 3616 dbSNP
rs1282325949 3631 dbSNP
rs1414165112 3639 dbSNP
rs999407244 3641 dbSNP
rs1054866383 3643 dbSNP
rs895265488 3647 dbSNP
rs946776513 3652 dbSNP
rs1170071208 3656 dbSNP
rs1032190109 3660 dbSNP
rs1416138679 3667 dbSNP
rs893490150 3672 dbSNP
rs1012348762 3678 dbSNP
rs185112419 3679 dbSNP
rs970915596 3681 dbSNP
rs1218667050 3691 dbSNP
rs1050987 3712 dbSNP
rs981879113 3713 dbSNP
rs1000192675 3719 dbSNP
rs1221900137 3721 dbSNP
rs767100735 3725 dbSNP
rs559953854 3729 dbSNP
rs1029946179 3734 dbSNP
rs1287201207 3737 dbSNP
rs749920407 3738 dbSNP
rs576608996 3741 dbSNP
rs545920386 3742 dbSNP
rs1289932558 3743 dbSNP
rs1407744957 3746 dbSNP
rs149277271 3748 dbSNP
rs1007086869 3750 dbSNP
rs1297820928 3751 dbSNP
rs543236599 3756 dbSNP
rs972999966 3758 dbSNP
rs1351636783 3767 dbSNP
rs746254523 3768 dbSNP
rs1162888229 3775 dbSNP
rs1267796428 3777 dbSNP
rs1331865629 3780 dbSNP
rs1018440075 3787 dbSNP
rs1407797333 3792 dbSNP
rs1417670367 3792 dbSNP
rs1191398237 3795 dbSNP
rs964469743 3804 dbSNP
rs1250554663 3805 dbSNP
rs1210378956 3817 dbSNP
rs796460054 3822 dbSNP
rs1464996140 3830 dbSNP
rs920200522 3834 dbSNP
rs2316516 3840 dbSNP
rs1477659081 3842 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545215. RNA binding protein: AGO4. Condition:Control ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gacgcgccgggCCCGAGUcc 5'
                     |||||||  
Target 5' cugaagaugggGGGCUCA-- 3'
 		4 - 21
Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293
Disease 3662.0
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 GSM714643. RNA binding protein: AGO2. Condition:completeT1 "PAR-CLIP data was present in GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 3662.0
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 GSM1065668. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065670. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
CLIP-seq Support 1 for dataset GSM714643
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000344663.3 | 3UTR | CGUGUCUGAAGAUGGGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545215
Method / RBP PAR-CLIP / AGO4
Cell line / Condition HEK293 / Control
Location of target site ENST00000344663.3 | 3UTR | UGUCUGAAGAUGGGGGGCUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000344663.3 | 3UTR | CGUGUCUGAAGAUGGGGGGCUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000344663.3 | 3UTR | CGUGUCUGAAGAUGGGGGGCUCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1065670
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / 4-thiouridine, 3_ML_LG
Location of target site ENST00000344663.3 | 3UTR | CGUGUCUGAAGAUGGGGGGCUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
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
75 hsa-miR-1199-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT130735 GATAD2B GATA zinc finger domain containing 2B 2 4
MIRT134908 CCND2 cyclin D2 2 2
MIRT273033 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT276644 KPNA3 karyopherin subunit alpha 3 2 6
MIRT446532 OAS2 2'-5'-oligoadenylate synthetase 2 2 2
MIRT456270 TDRKH tudor and KH domain containing 2 12
MIRT494455 BTG2 BTG anti-proliferation factor 2 2 2
MIRT494966 USP46 ubiquitin specific peptidase 46 2 2
MIRT496690 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT496698 RGS11 regulator of G protein signaling 11 2 2
MIRT504377 IRF4 interferon regulatory factor 4 2 6
MIRT510981 PFN2 profilin 2 2 6
MIRT512549 MFN2 mitofusin 2 2 6
MIRT513640 TP53INP2 tumor protein p53 inducible nuclear protein 2 2 2
MIRT514017 CAMSAP1 calmodulin regulated spectrin associated protein 1 2 4
MIRT514075 MTRNR2L6 MT-RNR2-like 6 2 2
MIRT515302 C15orf38-AP3S2 C15orf38-AP3S2 readthrough 2 4
MIRT517286 AP3S2 adaptor related protein complex 3 sigma 2 subunit 2 4
MIRT519076 KCNK6 potassium two pore domain channel subfamily K member 6 2 2
MIRT520780 TCF23 transcription factor 23 2 2
MIRT522487 MFSD9 major facilitator superfamily domain containing 9 2 2
MIRT528857 PKP1 plakophilin 1 2 2
MIRT529080 PATE2 prostate and testis expressed 2 2 2
MIRT531210 PLA2G4D phospholipase A2 group IVD 2 2
MIRT533989 TAB3 TGF-beta activated kinase 1 and MAP3K7 binding protein 3 2 2
MIRT537025 GRIN2B glutamate ionotropic receptor NMDA type subunit 2B 2 2
MIRT537499 FAM168B family with sequence similarity 168 member B 2 2
MIRT553127 UBE2Z ubiquitin conjugating enzyme E2 Z 2 2
MIRT555592 PIP5K1C phosphatidylinositol-4-phosphate 5-kinase type 1 gamma 2 2
MIRT556371 LUZP1 leucine zipper protein 1 2 2
MIRT569746 C2orf71 chromosome 2 open reading frame 71 2 2
MIRT570150 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT571244 FADS6 fatty acid desaturase 6 2 2
MIRT573066 TRIB1 tribbles pseudokinase 1 2 2
MIRT575534 Map4 microtubule-associated protein 4 2 2
MIRT575778 Tnfrsf10b tumor necrosis factor receptor superfamily, member 10b 2 2
MIRT616559 ZNF512B zinc finger protein 512B 2 2
MIRT630079 GRWD1 glutamate rich WD repeat containing 1 2 2
MIRT631480 KLHL21 kelch like family member 21 2 2
MIRT632174 CCL22 C-C motif chemokine ligand 22 2 2
MIRT638398 QSOX2 quiescin sulfhydryl oxidase 2 2 4
MIRT641193 ISG20L2 interferon stimulated exonuclease gene 20 like 2 2 2
MIRT642563 TEX9 testis expressed 9 2 2
MIRT642938 KRTAP5-9 keratin associated protein 5-9 2 2
MIRT649704 ZNF175 zinc finger protein 175 2 2
MIRT652114 TRUB2 TruB pseudouridine synthase family member 2 2 2
MIRT652274 TOMM20 translocase of outer mitochondrial membrane 20 2 2
MIRT655216 PFKM phosphofructokinase, muscle 2 2
MIRT682779 ZNF852 zinc finger protein 852 2 2
MIRT683002 MUC20 mucin 20, cell surface associated 2 2
MIRT684321 GTF3C4 general transcription factor IIIC subunit 4 2 2
MIRT689436 CYB561 cytochrome b561 2 2
MIRT693848 ZNF107 zinc finger protein 107 2 2
MIRT696716 TAX1BP3 Tax1 binding protein 3 2 2
MIRT698598 TEX261 testis expressed 261 2 2
MIRT699974 RREB1 ras responsive element binding protein 1 2 2
MIRT703311 GFPT1 glutamine--fructose-6-phosphate transaminase 1 2 2
MIRT706797 RAI1 retinoic acid induced 1 2 2
MIRT709005 CD109 CD109 molecule 2 2
MIRT709182 TBC1D10B TBC1 domain family member 10B 2 2
MIRT709836 PAQR7 progestin and adipoQ receptor family member 7 2 2
MIRT711628 CORO1C coronin 1C 2 2
MIRT712635 RNF103-CHMP3 RNF103-CHMP3 readthrough 2 2
MIRT713695 CYB5R4 cytochrome b5 reductase 4 2 2
MIRT713753 SLC9A8 solute carrier family 9 member A8 2 2
MIRT714909 CHMP3 charged multivesicular body protein 3 2 2
MIRT716372 CBLL1 Cbl proto-oncogene like 1 2 2
MIRT718304 XPOT exportin for tRNA 2 2
MIRT718714 ANKRD18A ankyrin repeat domain 18A 2 2
MIRT718741 ATP9A ATPase phospholipid transporting 9A (putative) 2 2
MIRT719442 NPTX2 neuronal pentraxin 2 2 2
MIRT720897 OTUD4 OTU deubiquitinase 4 2 2
MIRT722450 RXFP4 relaxin/insulin like family peptide receptor 4 2 2
MIRT723883 VKORC1 vitamin K epoxide reductase complex subunit 1 2 2
MIRT724587 SYNJ2BP synaptojanin 2 binding protein 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-1199 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-1199-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-1199-5p Tamoxifen+Fulvestrant resistant cell line (LCC9)

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