miRTarBase - #MIRT568777


—
pre-miRNA Information
pre-miRNA hsa-mir-4749   
Genomic Coordinates chr19: 49854591 - 49854651
Description Homo sapiens miR-4749 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4749-3p
Sequence 42| CGCCCCUCCUGCCCCCACAG |61
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN19730808 2 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs147943327 1 dbSNP
rs148982635 2 dbSNP
rs372882504 3 dbSNP
rs200056596 4 dbSNP
rs570340094 5 dbSNP
rs778438436 11 dbSNP
rs748573000 13 dbSNP
rs770230641 14 dbSNP
rs201103722 16 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol FAM53C   
Synonyms C5orf6
Description family with sequence similarity 53 member C
Transcript NM_001135647   
Other Transcripts NM_016605   
Expression
Putative miRNA Targets on FAM53C
3'UTR of FAM53C
(miRNA target sites are highlighted)		 
>FAM53C|NM_001135647|3'UTR
   1 AACTGAGAGGCTACTTCCTGGGGCCACACAGACTGACTCTCTCATGGCTACTAACAAGTGTCGAGTCCCCAAGGCTGGGG
  81 GCCGAGCCTGGGAATGGGGGTGAGTGGAGGGCTCCGACTCAGGGCAGCTGGAAATCTTCTCGCTCCAGCAAGCTCGACCA
 161 TGCCAAGAGACTGGCCGGGACAAGATAAACGGAGCTGGTGGCGGGAGGGACAGCCCCAGAGCAGACCCTTCCTATGGCGG
 241 CCCTGAGTGTGAGTATCCCTGCCACCAAGAGAGCAATGGGCAGGGAAGGAAGGGGTCTGCCGACCCCAGCTCGGGGAATT
 321 TCACTAGCCCCTTTGCTTCAAAGGGCACTTGTGTCTTAGAATTTGGCCAGGGTGGGGGGTTGAGTCAGCCTCCTCAGAGA
 401 AACTGCGTGAGAGTGTGTGCGTGCATGGGAGTGTACTTGTGGAAAGGTGTGTTTGCGTAGCCTTAGGGAAGGAAGGCAAT
 481 TGCTCCTTAACAGCAGAGTATCATGATACCCCCAGGATCTTGAGTTTTTTACAGGATGTTGGGTTTGCTCAAGGAGTCAA
 561 GAGGAGGGCACCAAGTTTTCCTTTTTTCTAAATAGCTCTGGAACCAGGCTTGTAATCCATAGCATCACCGACTCTGCAAA
 641 GGATTTCATTTTGGGGTACAGCAGGGTGTTTTAAGTGCTGTGACTTCAGCTAATGATCTTTTCTTCAGCCCCACCCCCTC
 721 CCCACTAGCTCGATCTAGTATATTGGGGAATGCAGGTGGGGGGTGTCACCATATTTTTTCTGAGCTGGCCTTTTTTTCTC
 801 ATCAGATTGTCCAGGCTATATTCCACCTGCCTCTTTTGCCCTCTTGAGTAGAGTTGCACACAGCACATGGGCAACTGAAG
 881 CAGGGTTGAGGGGCTCTCTCTCTCTCTCCTCTGCTGATGGGACCCTTTTCCCCTCACCCTCTGCCCTTCTAAGTCATAGA
 961 CTAGGTAGGAAGGCCCTATATTGGTCCCCAGCATCTACTGAGGCAGACCTGCAACAGAAGTGGCATTCAGTCCCCAGCAG
1041 ACATGGGTGAGCTCACCCCAGCACTGCTGTTGGGAAGGTGACTGCAGGAAACCAATTCTTACAAGATCCAGGCCCAGCCT
1121 TTTTGACCTGCTTGAGAGGGAAGAAGGGGTGTTTAGCATTTAATAGTTTGCTTGTCTTCCACTCCTGCCAGGAAGTGTTT
1201 ATTTGCCTCTAATTGGGCCTGAGAGACCATAGGGAGGTTGGGGCTCACTGAGGGATTGGCTGAGGATGTATAAAGCAAAG
1281 GCTGTGAGAAGCAGTTGGGAGTTTGGTTGTCATTGGATTGAATTTACTTTTTTGTTTCTCACCCGCAACTTGAGCCAGGA
1361 CAGCTGGTCCAAGTGGCCACAGTGATGGGTTTAAGTACCTTGGTAGGGCTGGCACCAGTGGAAACACATACTGAAGCTGC
1441 CACCACAATAGCTTGTGAGGTTTTATCCAGCTGTGGTTAGACCCTGCATGACCAAATTTGACCTGCCCTTGTTTATGGCA
1521 AGAAGGGCATTTTTCTCTTCAATTTCCAGGGTTTCCTAGGACCCAGTTCCTCATGTAAGGGAGGAAGACCAAGGTCTTTG
1601 TGTTTTCTTCCTCATGGAATTGAACCTGACATTTTCTGGATCTCCTGCATGTCAGGAGCATCAGTGAGGCTTCAGCCTCC
1681 TCGTCTCCACTCCAGAGAGGAGGTGGCTATGTCTTCTTAAGCCTCTGGCCCTCAGAGGCTCCTCCCTATCTCCTGGCTAG
1761 TTACCACTAGGCTACCAGGTCTCTAGGGGCCTGAGAGAGGCCCTCTAGAGAATCCAGGGAAACTGTGAGCCCAGGAGTTG
1841 CCCATCTATGGTTTCATTCCTCCCCTGGCTCTTCTCCCTCTTCAGGCCATAATTTCCCTGGTGCCAATTTCTTTTCCTCC
1921 TGGGGCATCCTCATCCCAGGGCTCTCTGCTGTAGATTGGCTGTGCCAGCTTCCAACAGGTTACTGGCAATGCCAGTGAGT
2001 TTCTGTAGGCCCTAAGCTGAAGAAGTGAGGCAGTGATTCTGCCTCCATCCTGGTTTCCCCAAAGCCCCAGGGCACCATCC
2081 TTAGGGGAGAAGGTCTACAGTTATCATTATTTTAATTCCATTACTTTCAGTCTGGAAAACTAAGCTAGTCAGAACTGTCA
2161 TCTTGCTTCCCAATCTAAGAACCTGTGGCCCTGGAACACTTTTCAAGAATTGGTTCATTTTGCTTTACACAGTAGATCTG
2241 TTCCAACAGTTCTGTGTAAACCAAATGCTATTTTTCAATGCATTTGGACTGCTGACCATTTAAAAGCAGCCTATGATTGC
2321 TTCTTTTTGTAAAGCAAGCAACCTCCCTCCACTTTAGCTGTTTTGACTATTTGAATTTTCACATATTGGGCTTACCCAGA
2401 GTGGAGCACACCTCCAGGGCATGTGGCTGACACTGGGTCAATGTCTGCATCTGTGCTGTGTGTGTAGTGTGGTTGGCCAG
2481 TAGGTGAGTATCCCTGTGTGTGTGAGTGAAGCCACTCCCCAGGCTGGTGCTCTCCTCCTGTGCCCAGTGACTGCCCAGTG
2561 GCAGCTCAGCTGCCCTTCACTCCCACCTGCTGCCAAAGTCCCTGTGCTAATGGGATTACAAATACAAAAAGTGGAAAAAA
2641 ATTTTCGTAAACTTTGTTTTATATTAAAAGAAAAATCCATAAGTCTGTGTGTGTTAAACATGAGGTTCTGCCTCTGTGGC
2721 TGTGTTTGAAAAAATAAAGTTTTATTAGAATAATCCATTTTCCCAAGCAA
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' gacaccccCGUC----CUCCCCGc 5'
                  ||||    ||||||| 
Target 5' caactgaaGCAGGGTTGAGGGGCt 3'
 872 - 895 146.00 -19.40
2 
miRNA  3' gacACCCCCGUCCUCCCCGc 5'
             ||| |||:|||||| | 
Target 5' agcTGGTGGCGGGAGGGACa 3'
 193 - 212 141.00 -23.30
3 
miRNA  3' gacACCCC---CGUC--CUCCCCGc 5'
             |||||   ||||  |:||||: 
Target 5' tatTGGGGAATGCAGGTGGGGGGTg 3'
 741 - 765 131.00 -26.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30499894 25 COSMIC
COSN31521885 48 COSMIC
COSN30100961 59 COSMIC
COSN14770485 67 COSMIC
COSN31554262 84 COSMIC
COSN30480785 99 COSMIC
COSN31508026 137 COSMIC
COSN31508033 140 COSMIC
COSN31555991 215 COSMIC
COSN26636780 262 COSMIC
COSN31551080 293 COSMIC
COSN31595297 332 COSMIC
COSN30541496 345 COSMIC
COSN26796750 435 COSMIC
COSN31518732 531 COSMIC
COSN14741329 658 COSMIC
COSN20461308 719 COSMIC
COSN24953921 780 COSMIC
COSN19119868 826 COSMIC
COSN20101876 898 COSMIC
COSN32065182 899 COSMIC
COSN30541166 1107 COSMIC
COSN30161863 1115 COSMIC
COSN31488868 1144 COSMIC
COSN30169899 1183 COSMIC
COSN6864854 1349 COSMIC
COSN5069684 1455 COSMIC
COSN2072472 1603 COSMIC
COSN14755864 1683 COSMIC
COSN22393673 1693 COSMIC
COSN27557916 1701 COSMIC
COSN8203935 1731 COSMIC
COSN16369345 1867 COSMIC
COSN6864856 1906 COSMIC
COSN29313206 1995 COSMIC
COSN14787340 2085 COSMIC
COSN26602591 2524 COSMIC
COSN31518893 2525 COSMIC
COSN26574365 2562 COSMIC
COSN30540556 2565 COSMIC
COSN31546087 2688 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs746423722 6 dbSNP
rs770444772 8 dbSNP
rs568905078 9 dbSNP
rs763379864 11 dbSNP
rs1478894868 14 dbSNP
rs751786537 15 dbSNP
rs757225166 17 dbSNP
rs764308126 20 dbSNP
rs1334855011 21 dbSNP
rs1486940515 23 dbSNP
rs781356118 24 dbSNP
rs774690767 25 dbSNP
rs761934512 28 dbSNP
rs1324987385 30 dbSNP
rs1355300548 33 dbSNP
rs767633691 34 dbSNP
rs748680387 37 dbSNP
rs539476289 40 dbSNP
rs1221127503 41 dbSNP
rs1269534829 43 dbSNP
rs766308587 45 dbSNP
rs753664211 46 dbSNP
rs1204422529 51 dbSNP
rs370960937 52 dbSNP
rs1364044552 63 dbSNP
rs1360022633 66 dbSNP
rs2269953 67 dbSNP
rs908470993 69 dbSNP
rs939919228 70 dbSNP
rs1327843393 76 dbSNP
rs1156417833 78 dbSNP
rs1406329020 82 dbSNP
rs540945535 85 dbSNP
rs1012076289 91 dbSNP
rs1463289271 96 dbSNP
rs1305318150 111 dbSNP
rs752134832 113 dbSNP
rs906370926 116 dbSNP
rs141625031 117 dbSNP
rs1438827969 119 dbSNP
rs35586116 123 dbSNP
rs1331029278 129 dbSNP
rs1030773053 135 dbSNP
rs1198510424 135 dbSNP
rs956341018 138 dbSNP
rs1441836444 142 dbSNP
rs186348210 143 dbSNP
rs1336699025 144 dbSNP
rs1212297749 147 dbSNP
rs1340944512 153 dbSNP
rs61662402 156 dbSNP
rs1022536920 167 dbSNP
rs1002862961 174 dbSNP
rs1285619777 177 dbSNP
rs1197463119 182 dbSNP
rs1370505590 187 dbSNP
rs1327364856 191 dbSNP
rs1250665633 192 dbSNP
rs975699021 204 dbSNP
rs1172036558 207 dbSNP
rs922745671 210 dbSNP
rs1479595146 211 dbSNP
rs955557754 216 dbSNP
rs1201334557 220 dbSNP
rs1032060196 223 dbSNP
rs562620186 227 dbSNP
rs1011795740 233 dbSNP
rs866470658 235 dbSNP
rs982812730 239 dbSNP
rs376112514 240 dbSNP
rs1170138384 252 dbSNP
rs941364856 258 dbSNP
rs964873175 269 dbSNP
rs1397370487 294 dbSNP
rs1278136330 296 dbSNP
rs1409396525 302 dbSNP
rs561384490 303 dbSNP
rs1336825153 310 dbSNP
rs975184011 313 dbSNP
rs1468241215 314 dbSNP
rs1357567389 328 dbSNP
rs1415197243 335 dbSNP
rs778136209 349 dbSNP
rs947928795 350 dbSNP
rs1028060224 364 dbSNP
rs955273457 365 dbSNP
rs906340283 366 dbSNP
rs560114436 375 dbSNP
rs908166172 377 dbSNP
rs939950034 379 dbSNP
rs1010568822 380 dbSNP
rs746406193 381 dbSNP
rs370345220 385 dbSNP
rs1315925162 386 dbSNP
rs1282630214 392 dbSNP
rs1193530710 394 dbSNP
rs189356630 400 dbSNP
rs758915148 406 dbSNP
rs373768017 407 dbSNP
rs748148188 408 dbSNP
rs878892876 410 dbSNP
rs527544604 412 dbSNP
rs1385155132 413 dbSNP
rs1337442980 415 dbSNP
rs1257337310 417 dbSNP
rs997031791 419 dbSNP
rs796480845 421 dbSNP
rs747145582 422 dbSNP
rs780057265 428 dbSNP
rs1162931078 449 dbSNP
rs1244500836 457 dbSNP
rs1475146766 458 dbSNP
rs180938303 474 dbSNP
rs1015631038 478 dbSNP
rs768838008 480 dbSNP
rs1218384009 484 dbSNP
rs974190859 492 dbSNP
rs915867552 496 dbSNP
rs1244482229 497 dbSNP
rs1362178972 501 dbSNP
rs776955217 508 dbSNP
rs1315861949 514 dbSNP
rs948765316 517 dbSNP
rs1360150836 527 dbSNP
rs1290791564 533 dbSNP
rs1431751132 542 dbSNP
rs1345632730 547 dbSNP
rs891766832 556 dbSNP
rs1302284297 559 dbSNP
rs1312495724 561 dbSNP
rs1422699927 567 dbSNP
rs1011875820 576 dbSNP
rs1427335064 582 dbSNP
rs1021867810 583 dbSNP
rs796674368 585 dbSNP
rs927893879 587 dbSNP
rs111611275 588 dbSNP
rs1296245921 595 dbSNP
rs996372472 597 dbSNP
rs1268673487 599 dbSNP
rs1232060760 607 dbSNP
rs572722533 609 dbSNP
rs892307848 620 dbSNP
rs541812749 621 dbSNP
rs1293066877 623 dbSNP
rs946429091 628 dbSNP
rs1325733077 629 dbSNP
rs1225124509 630 dbSNP
rs748279312 631 dbSNP
rs1345088948 634 dbSNP
rs1282419590 635 dbSNP
rs1402807955 645 dbSNP
rs2269952 658 dbSNP
rs996495580 660 dbSNP
rs1029860354 662 dbSNP
rs772609754 666 dbSNP
rs1209777401 669 dbSNP
rs1277674587 672 dbSNP
rs955155574 673 dbSNP
rs569043194 678 dbSNP
rs1428778855 681 dbSNP
rs1428106113 687 dbSNP
rs986923251 689 dbSNP
rs759476160 693 dbSNP
rs1016145767 711 dbSNP
rs1263076485 712 dbSNP
rs962925241 713 dbSNP
rs1446985804 717 dbSNP
rs961025106 718 dbSNP
rs1308449942 719 dbSNP
rs974541191 723 dbSNP
rs1323105391 728 dbSNP
rs973981366 732 dbSNP
rs375773258 733 dbSNP
rs1347229846 743 dbSNP
rs762475125 748 dbSNP
rs1299407357 758 dbSNP
rs1371038996 758 dbSNP
rs1465639433 759 dbSNP
rs1173895938 760 dbSNP
rs760226708 761 dbSNP
rs979977893 762 dbSNP
rs928417352 763 dbSNP
rs939211950 764 dbSNP
rs370131615 766 dbSNP
rs1378629851 770 dbSNP
rs1173263726 772 dbSNP
rs938787388 778 dbSNP
rs1376091522 786 dbSNP
rs1417890338 789 dbSNP
rs1053610424 793 dbSNP
rs891827044 795 dbSNP
rs947356694 796 dbSNP
rs749701440 810 dbSNP
rs551460129 813 dbSNP
rs913700743 814 dbSNP
rs946593407 819 dbSNP
rs138908871 821 dbSNP
rs996795290 823 dbSNP
rs1315072773 825 dbSNP
rs1327822342 827 dbSNP
rs1308979877 830 dbSNP
rs1051947266 831 dbSNP
rs932315760 845 dbSNP
rs534189487 854 dbSNP
rs1334098499 856 dbSNP
rs1454285461 864 dbSNP
rs1402426614 868 dbSNP
rs1158363710 875 dbSNP
rs1451991359 885 dbSNP
rs1365904238 887 dbSNP
rs1159840616 889 dbSNP
rs890612826 891 dbSNP
rs1491140506 894 dbSNP
rs549688028 894 dbSNP
rs1491337396 895 dbSNP
rs16373 897 dbSNP
rs370932630 897 dbSNP
rs200001663 898 dbSNP
rs3832383 899 dbSNP
rs1204338657 901 dbSNP
rs1008014537 903 dbSNP
rs1262258600 905 dbSNP
rs1239289940 909 dbSNP
rs1261724663 912 dbSNP
rs1240853403 917 dbSNP
rs556139099 921 dbSNP
rs1004395491 926 dbSNP
rs961055956 931 dbSNP
rs1340700910 940 dbSNP
rs11557202 944 dbSNP
rs1317279648 945 dbSNP
rs1037306350 947 dbSNP
rs995145632 957 dbSNP
rs1299151310 966 dbSNP
rs1424621200 967 dbSNP
rs1026583656 968 dbSNP
rs1165562086 975 dbSNP
rs1255379878 979 dbSNP
rs969949763 991 dbSNP
rs1191375527 992 dbSNP
rs765975013 994 dbSNP
rs774088983 1005 dbSNP
rs980393024 1006 dbSNP
rs866828045 1018 dbSNP
rs995719524 1020 dbSNP
rs763562901 1035 dbSNP
rs970170162 1037 dbSNP
rs928520808 1044 dbSNP
rs574282562 1048 dbSNP
rs956043254 1056 dbSNP
rs960125809 1057 dbSNP
rs1224835139 1066 dbSNP
rs988940024 1088 dbSNP
rs1327787990 1089 dbSNP
rs913333776 1092 dbSNP
rs1404658060 1101 dbSNP
rs947430088 1103 dbSNP
rs1406448409 1104 dbSNP
rs538469298 1105 dbSNP
rs1043082931 1108 dbSNP
rs1463753224 1120 dbSNP
rs1424548759 1125 dbSNP
rs1455389055 1129 dbSNP
rs1167010188 1141 dbSNP
rs1395080635 1150 dbSNP
rs921897732 1152 dbSNP
rs1200970799 1158 dbSNP
rs1452075716 1164 dbSNP
rs932366741 1168 dbSNP
rs1050817151 1175 dbSNP
rs556279658 1179 dbSNP
rs1258226645 1190 dbSNP
rs1374840029 1193 dbSNP
rs1344086671 1203 dbSNP
rs746620951 1210 dbSNP
rs912207609 1212 dbSNP
rs753555737 1214 dbSNP
rs1335648117 1215 dbSNP
rs1052442733 1222 dbSNP
rs1393158400 1231 dbSNP
rs1305838414 1240 dbSNP
rs575936901 1244 dbSNP
rs1316711130 1245 dbSNP
rs996077693 1249 dbSNP
rs577779851 1251 dbSNP
rs1275622124 1256 dbSNP
rs1426986890 1265 dbSNP
rs1044530999 1268 dbSNP
rs1036458154 1277 dbSNP
rs906038200 1283 dbSNP
rs1263825545 1285 dbSNP
rs896927268 1287 dbSNP
rs1178007846 1295 dbSNP
rs545090195 1311 dbSNP
rs1249997157 1312 dbSNP
rs559852574 1314 dbSNP
rs1471503865 1318 dbSNP
rs1320933576 1323 dbSNP
rs759237928 1324 dbSNP
rs575602104 1335 dbSNP
rs995176879 1335 dbSNP
rs1350611891 1337 dbSNP
rs1026616117 1345 dbSNP
rs1418285322 1346 dbSNP
rs1377801151 1349 dbSNP
rs1336124766 1351 dbSNP
rs1035799567 1352 dbSNP
rs956010667 1356 dbSNP
rs1162599016 1359 dbSNP
rs764608021 1370 dbSNP
rs1355834482 1377 dbSNP
rs1406973068 1387 dbSNP
rs187334924 1389 dbSNP
rs191005924 1393 dbSNP
rs776058298 1396 dbSNP
rs1441444405 1402 dbSNP
rs10038360 1404 dbSNP
rs1182401423 1410 dbSNP
rs1459722680 1412 dbSNP
rs1348186366 1419 dbSNP
rs1416220315 1427 dbSNP
rs182881841 1429 dbSNP
rs1282565808 1435 dbSNP
rs750684878 1436 dbSNP
rs1242998165 1441 dbSNP
rs1354996441 1443 dbSNP
rs374199354 1444 dbSNP
rs1233269511 1450 dbSNP
rs1243792674 1457 dbSNP
rs1381622308 1471 dbSNP
rs4467701 1474 dbSNP
rs186028279 1477 dbSNP
rs190540649 1483 dbSNP
rs978835293 1484 dbSNP
rs1205255012 1502 dbSNP
rs1344440047 1503 dbSNP
rs953900654 1517 dbSNP
rs1250995189 1519 dbSNP
rs921969722 1521 dbSNP
rs912342039 1526 dbSNP
rs183076433 1538 dbSNP
rs780759547 1543 dbSNP
rs1415331035 1555 dbSNP
rs1182131848 1559 dbSNP
rs1036740460 1574 dbSNP
rs1240748392 1577 dbSNP
rs1052050185 1580 dbSNP
rs919588470 1588 dbSNP
rs1488910826 1592 dbSNP
rs1291603508 1593 dbSNP
rs912141330 1605 dbSNP
rs1220900236 1611 dbSNP
rs931548915 1612 dbSNP
rs1045061223 1621 dbSNP
rs1290656370 1627 dbSNP
rs1474751401 1636 dbSNP
rs1214248007 1637 dbSNP
rs1180059885 1650 dbSNP
rs1276098434 1651 dbSNP
rs1401556751 1654 dbSNP
rs534246277 1657 dbSNP
rs1428628166 1660 dbSNP
rs940927422 1665 dbSNP
rs549676599 1674 dbSNP
rs1351153837 1680 dbSNP
rs1368124821 1682 dbSNP
rs740074 1683 dbSNP
rs1416875337 1684 dbSNP
rs899304655 1685 dbSNP
rs1196303613 1687 dbSNP
rs142863485 1691 dbSNP
rs1048129247 1695 dbSNP
rs905557431 1696 dbSNP
rs1376455416 1710 dbSNP
rs891923423 1712 dbSNP
rs781083178 1718 dbSNP
rs1203849367 1724 dbSNP
rs1035340341 1728 dbSNP
rs1306000657 1746 dbSNP
rs1260169004 1748 dbSNP
rs1219481441 1749 dbSNP
rs868699418 1751 dbSNP
rs1447667024 1753 dbSNP
rs1010736978 1762 dbSNP
rs895725527 1763 dbSNP
rs1282358932 1764 dbSNP
rs556746747 1767 dbSNP
rs578130171 1771 dbSNP
rs1369576383 1772 dbSNP
rs538345663 1782 dbSNP
rs1440742625 1787 dbSNP
rs1020164754 1788 dbSNP
rs968540088 1800 dbSNP
rs1465798736 1801 dbSNP
rs553878533 1822 dbSNP
rs538511243 1838 dbSNP
rs1174679922 1846 dbSNP
rs1236846520 1849 dbSNP
rs953458022 1850 dbSNP
rs542246639 1851 dbSNP
rs554157476 1852 dbSNP
rs1176698472 1857 dbSNP
rs769842148 1860 dbSNP
rs1207711027 1861 dbSNP
rs911857570 1863 dbSNP
rs1199547256 1866 dbSNP
rs940947296 1870 dbSNP
rs972280329 1871 dbSNP
rs920800707 1878 dbSNP
rs930800231 1879 dbSNP
rs961115695 1887 dbSNP
rs552672479 1892 dbSNP
rs1045182016 1898 dbSNP
rs1223132209 1905 dbSNP
rs905628752 1912 dbSNP
rs1185855388 1913 dbSNP
rs937068089 1917 dbSNP
rs188041054 1920 dbSNP
rs559796985 1921 dbSNP
rs1404841480 1924 dbSNP
rs773476981 1926 dbSNP
rs1378574041 1927 dbSNP
rs1159094023 1937 dbSNP
rs895476844 1938 dbSNP
rs1010199028 1939 dbSNP
rs1438364078 1942 dbSNP
rs575900735 1943 dbSNP
rs775445169 1950 dbSNP
rs1461046929 1954 dbSNP
rs1404339349 1957 dbSNP
rs1202390199 1959 dbSNP
rs1484144999 1963 dbSNP
rs528433043 1967 dbSNP
rs1000041722 1969 dbSNP
rs1351364648 1977 dbSNP
rs1028801449 1996 dbSNP
rs953587731 1997 dbSNP
rs987538026 2004 dbSNP
rs1019396513 2006 dbSNP
rs962015630 2010 dbSNP
rs2189803 2015 dbSNP
rs1403421036 2023 dbSNP
rs113597691 2031 dbSNP
rs1418429389 2034 dbSNP
rs920859418 2047 dbSNP
rs930873490 2061 dbSNP
rs981352023 2069 dbSNP
rs1159329289 2071 dbSNP
rs938827438 2072 dbSNP
rs1366781507 2074 dbSNP
rs568406913 2076 dbSNP
rs1052648 2085 dbSNP
rs532379740 2094 dbSNP
rs1185667222 2097 dbSNP
rs916927670 2124 dbSNP
rs1487276495 2131 dbSNP
rs1344522348 2134 dbSNP
rs945679544 2142 dbSNP
rs1041373989 2153 dbSNP
rs779977001 2157 dbSNP
rs904457656 2162 dbSNP
rs1263146137 2168 dbSNP
rs1000072915 2170 dbSNP
rs775942951 2174 dbSNP
rs888945376 2175 dbSNP
rs1009435052 2192 dbSNP
rs761528872 2194 dbSNP
rs1008101767 2195 dbSNP
rs1019373187 2198 dbSNP
rs1208044771 2199 dbSNP
rs1246043156 2200 dbSNP
rs1424558148 2210 dbSNP
rs1388717063 2211 dbSNP
rs1469440921 2214 dbSNP
rs961516536 2218 dbSNP
rs972490881 2228 dbSNP
rs1372663435 2232 dbSNP
rs1192682614 2236 dbSNP
rs1476750655 2236 dbSNP
rs1265052101 2239 dbSNP
rs11557203 2240 dbSNP
rs545171863 2242 dbSNP
rs952403667 2250 dbSNP
rs1264675736 2254 dbSNP
rs1251806540 2268 dbSNP
rs1356635129 2269 dbSNP
rs1019010310 2276 dbSNP
rs1216411373 2278 dbSNP
rs962074306 2279 dbSNP
rs1279211666 2283 dbSNP
rs1404905556 2288 dbSNP
rs1329816109 2295 dbSNP
rs993478509 2297 dbSNP
rs938879608 2310 dbSNP
rs1387365534 2312 dbSNP
rs764859610 2315 dbSNP
rs993090860 2319 dbSNP
rs1159937014 2321 dbSNP
rs1410698876 2323 dbSNP
rs373741533 2323 dbSNP
rs1027574366 2324 dbSNP
rs34322862 2324 dbSNP
rs1159081084 2328 dbSNP
rs952305613 2329 dbSNP
rs1375807234 2340 dbSNP
rs1043135461 2342 dbSNP
rs1451745966 2346 dbSNP
rs1387039921 2348 dbSNP
rs926066296 2352 dbSNP
rs1458782024 2356 dbSNP
rs1259147229 2357 dbSNP
rs1223209357 2364 dbSNP
rs147409045 2384 dbSNP
rs1326709699 2385 dbSNP
rs1050348670 2387 dbSNP
rs115521829 2390 dbSNP
rs1434656790 2391 dbSNP
rs1008070547 2394 dbSNP
rs1449304567 2403 dbSNP
rs1040959083 2408 dbSNP
rs1331811210 2413 dbSNP
rs1413759534 2423 dbSNP
rs139624308 2428 dbSNP
rs1227508309 2429 dbSNP
rs192663675 2437 dbSNP
rs1467830499 2464 dbSNP
rs1478303616 2465 dbSNP
rs993017721 2489 dbSNP
rs994440966 2495 dbSNP
rs1026731445 2497 dbSNP
rs1214216233 2507 dbSNP
rs1441163441 2514 dbSNP
rs1238346084 2535 dbSNP
rs917013558 2536 dbSNP
rs1441112293 2548 dbSNP
rs1288614311 2568 dbSNP
rs1449368459 2584 dbSNP
rs1201577074 2594 dbSNP
rs952529410 2605 dbSNP
rs945753227 2607 dbSNP
rs1233030411 2610 dbSNP
rs1001290691 2624 dbSNP
rs746810567 2627 dbSNP
rs1470735201 2635 dbSNP
rs763455086 2642 dbSNP
rs1041404899 2643 dbSNP
rs925574325 2647 dbSNP
rs959710257 2648 dbSNP
rs755191022 2649 dbSNP
rs1335885644 2653 dbSNP
rs993059715 2662 dbSNP
rs1359747396 2664 dbSNP
rs913505927 2678 dbSNP
rs1421051951 2680 dbSNP
rs1380371461 2688 dbSNP
rs1180963866 2690 dbSNP
rs766814356 2692 dbSNP
rs967566106 2700 dbSNP
rs979381150 2701 dbSNP
rs752135372 2704 dbSNP
rs1284586184 2712 dbSNP
rs1219433244 2713 dbSNP
rs926145924 2721 dbSNP
rs149655970 2722 dbSNP
rs201276006 2724 dbSNP
rs138483063 2725 dbSNP
rs1166265743 2728 dbSNP
rs932034711 2729 dbSNP
rs1050484513 2730 dbSNP
rs1050361897 2735 dbSNP
rs1331162761 2745 dbSNP
rs1415106906 2765 dbSNP
rs114425594 2768 dbSNP
rs1008718089 2771 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 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gacacccccguccUCCCCGc 5'
                       |||||| 
Target 5' -------------AGGGGCu 3'
 		1 - 7
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]
Experimental Support 2 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' gacacccccgucCUCCCCGc 5'
                      ||||||| 
Target 5' -----------uGAGGGGCu 3'
 		1 - 9
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 3 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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

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

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 Chi_124A_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell miR-124 + A
Location of target site ENST00000513056.1 | 3UTR | AGGGGCUCUCUCUCU
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 GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000513056.1 | 3UTR | AGCAGGGUUGAGGGGCUCUCUCUCUCUCUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM545215
Method / RBP PAR-CLIP / AGO4
Cell line / Condition HEK293 / Control
Location of target site ENST00000513056.1 | 3UTR | UGAGGGGCUCUCUCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
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
63 hsa-miR-4749-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT082256 MED29 mediator complex subunit 29 2 4
MIRT112161 OTUD3 OTU deubiquitinase 3 2 2
MIRT150036 MIDN midnolin 2 2
MIRT246308 HIST2H2AA3 histone cluster 2 H2A family member a3 2 4
MIRT246320 HIST2H2AA4 histone cluster 2 H2A family member a4 2 4
MIRT248254 SP1 Sp1 transcription factor 2 2
MIRT257944 GIGYF1 GRB10 interacting GYF protein 1 2 2
MIRT466973 STARD7 StAR related lipid transfer domain containing 7 2 4
MIRT492322 SETD1B SET domain containing 1B 2 2
MIRT496204 EFCAB1 EF-hand calcium binding domain 1 2 2
MIRT497568 CCR6 C-C motif chemokine receptor 6 2 2
MIRT502990 CCDC71L coiled-coil domain containing 71 like 2 8
MIRT508300 SIX5 SIX homeobox 5 2 4
MIRT522472 ZAK mitogen-activated protein kinase kinase kinase 20 2 2
MIRT525825 VIMP selenoprotein S 2 4
MIRT528154 BCL2L1 BCL2 like 1 2 2
MIRT532606 SPTLC2 serine palmitoyltransferase long chain base subunit 2 2 2
MIRT551302 RPRM reprimo, TP53 dependent G2 arrest mediator homolog 2 2
MIRT568777 FAM53C family with sequence similarity 53 member C 2 6
MIRT570896 METTL21A methyltransferase like 21A 2 2
MIRT570963 TMBIM4 transmembrane BAX inhibitor motif containing 4 2 2
MIRT571167 ZNF85 zinc finger protein 85 2 2
MIRT576751 Tmem127 transmembrane protein 127 2 2
MIRT609854 DAZAP2 DAZ associated protein 2 2 2
MIRT627101 PDRG1 p53 and DNA damage regulated 1 2 2
MIRT637060 PRKAG1 protein kinase AMP-activated non-catalytic subunit gamma 1 2 2
MIRT639423 PKP1 plakophilin 1 2 2
MIRT643208 TYW3 tRNA-yW synthesizing protein 3 homolog 2 4
MIRT646251 PRSS38 protease, serine 38 2 2
MIRT647145 CYP27C1 cytochrome P450 family 27 subfamily C member 1 2 2
MIRT647429 ZKSCAN2 zinc finger with KRAB and SCAN domains 2 2 2
MIRT650666 GAPDHP44 glyceraldehyde 3 phosphate dehydrogenase pseudogene 44 2 2
MIRT651816 USP49 ubiquitin specific peptidase 49 2 2
MIRT657376 HMGA1 high mobility group AT-hook 1 2 2
MIRT658105 FOXK1 forkhead box K1 2 2
MIRT658161 FCHSD1 FCH and double SH3 domains 1 2 2
MIRT662754 LRRC3C leucine rich repeat containing 3C 2 2
MIRT667209 NIPAL1 NIPA like domain containing 1 2 2
MIRT687003 RPL35 ribosomal protein L35 2 2
MIRT707057 NACC2 NACC family member 2 2 2
MIRT709048 MRO maestro 2 2
MIRT709054 MGAT5B mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase, isozyme B 2 2
MIRT709446 VWA2 von Willebrand factor A domain containing 2 2 2
MIRT709847 SNX12 sorting nexin 12 2 2
MIRT710790 IFNLR1 interferon lambda receptor 1 2 2
MIRT711696 GMPR guanosine monophosphate reductase 2 2
MIRT712462 KCNC3 potassium voltage-gated channel subfamily C member 3 2 2
MIRT713884 MOB3A MOB kinase activator 3A 2 2
MIRT715329 NTN1 netrin 1 2 2
MIRT715927 CHD4 chromodomain helicase DNA binding protein 4 2 2
MIRT716533 ATF5 activating transcription factor 5 2 2
MIRT716937 CACNB1 calcium voltage-gated channel auxiliary subunit beta 1 2 2
MIRT717007 MFSD6 major facilitator superfamily domain containing 6 2 2
MIRT719139 DPYSL5 dihydropyrimidinase like 5 2 2
MIRT720853 MEF2D myocyte enhancer factor 2D 2 2
MIRT721484 LTB4R2 leukotriene B4 receptor 2 2 2
MIRT721517 DKK3 dickkopf WNT signaling pathway inhibitor 3 2 2
MIRT722895 LRRC20 leucine rich repeat containing 20 2 2
MIRT723066 GGA1 golgi associated, gamma adaptin ear containing, ARF binding protein 1 2 2
MIRT723086 INSIG1 insulin induced gene 1 2 2
MIRT723353 ASCL2 achaete-scute family bHLH transcription factor 2 2 2
MIRT723483 MINOS1 mitochondrial inner membrane organizing system 1 2 2
MIRT724576 NOTCH2 notch 2 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4749 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4749 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4749 Paclitaxel 36314 NSC125973 approved resistant cell line (W1)
hsa-miR-4749-3p Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-miR-4749-3p Tamoxifen+Fulvestrant sensitive cell line (LCC9)
hsa-miR-4749-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-4749-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-4749-3p Cisplatin 5460033 NSC119875 approved resistant cell line (OVSAHO)
hsa-miR-4749-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (TOV-112D)

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