pre-miRNA Information
pre-miRNA hsa-mir-4282   
Genomic Coordinates chr6: 72967687 - 72967753
Description Homo sapiens miR-4282 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4282
Sequence 40| UAAAAUUUGCAUCCAGGA |57
Evidence Experimental
Experiments SOLiD
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN32074657 13 COSMIC
COSN6331413 18 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1195771339 5 dbSNP
rs755058572 6 dbSNP
rs1245753664 11 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SPIN4   
Synonyms TDRD28
Description spindlin family member 4
Transcript NM_001012968   
Expression
Putative miRNA Targets on SPIN4
3'UTR of SPIN4
(miRNA target sites are highlighted)
>SPIN4|NM_001012968|3'UTR
   1 ATTCTTTGTGCTCTTTAGAGAAGTTGTGGATCTGTTAGATGTGAATTATTTTGTGTTCTCGTAGTTGTGAACGCAGAGAA
  81 GAGTTTAGGTGTCAGAAATTCAGGAAAGTGGATAAATTTTATTGTGCCAACAAATCTTACCTTGACTAGTTTCACAATTT
 161 TGCCTCAAGTGTACTTTGCTACTTTTGATATTGCCTTGTTCTGTAACTTAACAGTTAAATTGGGTGCTAATAGAAAATTA
 241 AAAAGTGTTTGCAACCATTGGAACAATGCAAAAATAGATTAAGAAAAATTAATGGTGTAAACCCACACCCCGTCCTTACC
 321 CCTTCCTTTCCTTACCTTGTTTCTTCCCAGAAAACAAGTGTTGAGGATGCGAAGTACATCCTTCCACCTATTTTCCCCAT
 401 CTTCATGCAGAAAGTATGTTCTAGTAGTTTCTGTAAAAATGGCAAGCCACATGCTTTTCTCACTTGACATGTAGATGATA
 481 TCTCTTCTTATCAGTAGCTTCAGTCTTTCTTGCTCTCTCTGGCTCTCTCTGGCCCTCACTCTTACTCTCTTGCACTCTTG
 561 CTCTCCCCCTCCCTCCCTTACTCTAACAGCTGAATACACAGTACTTGTTGATGTACCAAAAAGGCATTCAACCATTTCGT
 641 TATTGATCGTCTTTTATTTCCTTTTTTTATTTTTTTTCAAAATAACACTGCTGTAATACATACTGGTGCTTTTATTTATA
 721 TAGGTTGGATTCCCAGAAATACTATGTAGGCATATGTTTCAGAAATATTACAAGATTACTATCCAAAATGAAAGCGCCCG
 801 TTCCAGCGTCCTCTCCAGCACTCTTTAATGCTTGAAAATATGAAAGGCTAAAAATTGCATTGTATTGCTTGTTAGTTTAA
 881 TTGCCTTTTGTCTGAGTTCAAAGAGGTTTGTTGTTGTTGCTGTCCTTGTTTCTGTTTGGATTTTTCTCTGATTTGCCTGT
 961 TCTTACCCTTTGCTCATGTATCTATTGATGTTTTTCATTATAAATTTGTAGAAATTCTTACTACATAGTGCATATTAATC
1041 ATTTGTAGCTCTAATGTGTTATGACGTTTTCATCTTGACTTTATTGATGATATATTTTCCTTTAAAATTTTTAAACTTTT
1121 TAGGTAGACCCTTATCTCTTTTATAGATTTTGGTTTCCTTTTTTTATCACATGGATGCCCCCACCCAAAGTCATACAAAT
1201 ATTCACCTACATTTTCTTCTAATAACTTTATTATTTTTAATGTTTAAATGTTTGATCCATCTGAAATTTATTTTTGTATA
1281 TGGTGTAAGATGGGGATCCAGCTATAACATTTTGTTCACATTGGATACCTGATTGTGACATTTATTTAAAATGTTACCCA
1361 TTTTCAAATTTCTGAGCCAATATCATGATTTAATTATAGTGGCTTCATCGTAAGTTTTAGAATCCGATAAAGCAAGTCCC
1441 ACTTCATTAGTTTTTTTTTTCTTTATATAATATGTCCTAGACATTCATTTTTTCATGTGAAAAAATGAAATGCAGAATTT
1521 TAATAAAATTCTAATTATGATGGCTGACATCACAATTAAAATCCTGCATTTTTGTTTAGAGGGCTCTTTAATAATATTAA
1601 ATCTTAGCACTCAAGAGTCTTCGTACATCATTGAAATCTTTTGGTCTTGTTATTGGAATATTCTTCACGTAAGTATATCA
1681 TAGCTAACTGAATTTATTTCTAAGTATTTTTACAGTTTTATTTCATATTTTGACATTGTGAATTGGTTTTTTTCTTCTCA
1761 TTTGTAATTAGCTATTTTTGACAATATAGACAACCTATAGATTTTTGTATTTTTATCTTCTGTCTAATGAGCTTATTTAA
1841 TCATTGAAATTACAGTAGATTTTTAAGAATATAATATTTTGGGTTTTCTAGATATGAAATTATTTCACCTGAACATATAG
1921 ATCATTTTATTTCCTCTTAATGTTTATACTGATTACTGTTACATTAGCTGGATTTTTCAAAACAATGTTGAAGAGTGATG
2001 ACAGACGTGACTGTCTTGTTCTTAATTTTCATGGAAGTAAGAATGCAAAATATTAATAGGGAATAGTATTCCCTATTAGT
2081 ATGACATTTACTTTTGGTTATTAGTAGGTAGTCATTAACATGTTTAAGAGTTTCCGCTATTCCTGTTTTATAGTGTTATT
2161 GCTAGAAGTGGTTCCTGAATTTTATAAAATGCCTTTTCAGCATCTATTGATAAAATTGTATGATTTTTTTTCTCTTTAAT
2241 TTGTTGATGTAATGAATTAGAATGGTAGGCATTTGATGTGGAACCAAACTTGTATTTCTGGAACAAATACTACTTGGTCA
2321 TTGTGAAATAATGATTTGCTACATGAGTGGATTTTATTTACCAGTATTTAATTTAGAATTATTGCATTTTCATTCCAAAG
2401 TAAAATTGTATTTTGTCCTTCTGATGCTATCTTTATCAAGTTTTGTTATTGAAGTTGTGCTAGCTTTAAAAAAATATGAA
2481 TATGTGAGTTTTCAATTTTTTTCCTGTGGTCTGGAATAATTTAAATAGCATTAGAATTATTTGTTTGTTAAAAGTTAGCT
2561 AGGACAAAGTGTAAAACAATCTAATCCTGATGACACTTTTAATAGTAGATTTTTAATCAGCTTTGTGATTTCTTTAATAG
2641 TTATTGGTTTATTCAGGCTTTTTATTAAAAAGGTATATACATTCTCTGTGACATACAAAGTTAAAAGTTCTCTATTATTG
2721 CTGATTGTACTGGTTGTTGCTTGTTGACTGTACTATTCAGATGGCTTTATGCTTTTGTGTATTTTATGTCACCTAGATCT
2801 AATTCTGAAAACATTGTAATAAAATAATTAGCTATAATGGTA
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' aggACCUACGUUUAAAAu 5'
             |||||  ||||||| 
Target 5' aagTGGAT--AAATTTTa 3'
106 - 121 155.00 -7.50
2
miRNA  3' agGACCUA-CGUUUAAAAu 5'
            ||  || |:||:|||| 
Target 5' ggCTTCATCGTAAGTTTTa 3'
1401 - 1419 136.00 -6.30
3
miRNA  3' aggaccUACG-UUUAAAAu 5'
                |||| :|||||| 
Target 5' aatgaaATGCAGAATTTTa 3'
1504 - 1522 136.00 -6.50
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1244160507 4 dbSNP
rs782722677 8 dbSNP
rs781942809 18 dbSNP
rs782317403 20 dbSNP
rs192545575 24 dbSNP
rs1354993404 32 dbSNP
rs1215748380 38 dbSNP
rs782450496 49 dbSNP
rs1483932939 60 dbSNP
rs879983847 63 dbSNP
rs781890822 73 dbSNP
rs1242138153 87 dbSNP
rs1442398118 103 dbSNP
rs1180214769 108 dbSNP
rs1380706600 109 dbSNP
rs1418328016 115 dbSNP
rs188779070 128 dbSNP
rs1360883131 130 dbSNP
rs1467645424 132 dbSNP
rs1337480515 134 dbSNP
rs782679493 143 dbSNP
rs1311868548 144 dbSNP
rs1450755364 144 dbSNP
rs782650921 146 dbSNP
rs1378066753 149 dbSNP
rs1223626424 171 dbSNP
rs782501799 178 dbSNP
rs782373622 194 dbSNP
rs1314531036 195 dbSNP
rs1233254786 223 dbSNP
rs1261980550 224 dbSNP
rs184860541 229 dbSNP
rs1459661797 234 dbSNP
rs192451664 240 dbSNP
rs1200173691 246 dbSNP
rs1238460771 247 dbSNP
rs1480180858 251 dbSNP
rs1175332281 260 dbSNP
rs1427098147 261 dbSNP
rs1433718680 264 dbSNP
rs368515222 267 dbSNP
rs1428724630 276 dbSNP
rs1333589094 290 dbSNP
rs1355391956 292 dbSNP
rs1441923181 296 dbSNP
rs1370286844 302 dbSNP
rs1220337741 308 dbSNP
rs1282043054 309 dbSNP
rs1320758524 316 dbSNP
rs1220003383 344 dbSNP
rs782453876 350 dbSNP
rs1258301297 357 dbSNP
rs1306567020 358 dbSNP
rs1202113503 365 dbSNP
rs782227856 371 dbSNP
rs1248269227 375 dbSNP
rs1488745255 376 dbSNP
rs782764914 379 dbSNP
rs1266742047 381 dbSNP
rs782046345 386 dbSNP
rs1479488259 388 dbSNP
rs781805044 398 dbSNP
rs1420408955 414 dbSNP
rs1409620869 416 dbSNP
rs1168714840 427 dbSNP
rs782801354 440 dbSNP
rs782615391 442 dbSNP
rs782517611 451 dbSNP
rs187487099 471 dbSNP
rs144874474 482 dbSNP
rs1270286749 484 dbSNP
rs1360784241 490 dbSNP
rs374151641 493 dbSNP
rs1322082145 495 dbSNP
rs1221539551 496 dbSNP
rs782175026 498 dbSNP
rs1289493880 521 dbSNP
rs1489231511 523 dbSNP
rs1195860116 525 dbSNP
rs1242797511 527 dbSNP
rs1184969244 529 dbSNP
rs1416290422 534 dbSNP
rs182810226 534 dbSNP
rs1163347615 538 dbSNP
rs1364190924 541 dbSNP
rs1422088332 545 dbSNP
rs781801620 551 dbSNP
rs1325323738 553 dbSNP
rs1428105362 554 dbSNP
rs371693550 555 dbSNP
rs1285573572 565 dbSNP
rs1383153962 568 dbSNP
rs1244885010 577 dbSNP
rs1312658955 585 dbSNP
rs1355703684 598 dbSNP
rs1205676695 615 dbSNP
rs1283524908 617 dbSNP
rs1446477807 623 dbSNP
rs1213816653 624 dbSNP
rs782686008 638 dbSNP
rs1239364214 639 dbSNP
rs1445484857 648 dbSNP
rs1183319919 652 dbSNP
rs1383815213 661 dbSNP
rs192749241 668 dbSNP
rs1159634932 669 dbSNP
rs781948547 670 dbSNP
rs1384951512 673 dbSNP
rs782789539 678 dbSNP
rs1335622363 695 dbSNP
rs1406278078 702 dbSNP
rs1451486696 704 dbSNP
rs1378794103 714 dbSNP
rs1239563791 719 dbSNP
rs1278870045 732 dbSNP
rs1348462149 739 dbSNP
rs1222088138 740 dbSNP
rs1265105088 745 dbSNP
rs1461915191 749 dbSNP
rs1203239503 751 dbSNP
rs1241589825 754 dbSNP
rs1459361959 771 dbSNP
rs1183068176 775 dbSNP
rs1363656504 794 dbSNP
rs1469062956 795 dbSNP
rs1173766485 796 dbSNP
rs1468869058 799 dbSNP
rs1334259849 800 dbSNP
rs782109715 813 dbSNP
rs1402092272 826 dbSNP
rs1391693432 827 dbSNP
rs868908142 834 dbSNP
rs1333860882 851 dbSNP
rs1438565208 857 dbSNP
rs188129702 874 dbSNP
rs1283898694 879 dbSNP
rs1324351085 881 dbSNP
rs1223048874 905 dbSNP
rs1261496790 911 dbSNP
rs782140103 920 dbSNP
rs1196685550 934 dbSNP
rs1250282483 944 dbSNP
rs1436535761 952 dbSNP
rs1202185104 956 dbSNP
rs1270294029 966 dbSNP
rs1479816800 971 dbSNP
rs1173719834 973 dbSNP
rs1425257232 1003 dbSNP
rs1462199129 1011 dbSNP
rs1167067257 1013 dbSNP
rs1394033334 1020 dbSNP
rs1406928110 1032 dbSNP
rs1303679784 1045 dbSNP
rs782327916 1049 dbSNP
rs1404336217 1051 dbSNP
rs1281466883 1062 dbSNP
rs1328369979 1066 dbSNP
rs1228465440 1073 dbSNP
rs1251007928 1074 dbSNP
rs1337828956 1083 dbSNP
rs1225258921 1084 dbSNP
rs182615275 1089 dbSNP
rs1293133171 1092 dbSNP
rs782398389 1093 dbSNP
rs1196590164 1112 dbSNP
rs1263262386 1119 dbSNP
rs781969931 1127 dbSNP
rs1192001229 1129 dbSNP
rs1426316750 1130 dbSNP
rs1163990434 1132 dbSNP
rs1422689387 1135 dbSNP
rs1301325256 1153 dbSNP
rs190868338 1160 dbSNP
rs1295107950 1166 dbSNP
rs1382894093 1166 dbSNP
rs781962476 1174 dbSNP
rs1248537184 1178 dbSNP
rs782302994 1180 dbSNP
rs782186707 1181 dbSNP
rs1263068388 1184 dbSNP
rs185270303 1190 dbSNP
rs1485902991 1214 dbSNP
rs1204112230 1219 dbSNP
rs1259154922 1223 dbSNP
rs1446091326 1232 dbSNP
rs1183915109 1261 dbSNP
rs1384409874 1280 dbSNP
rs1442585690 1294 dbSNP
rs1364368845 1298 dbSNP
rs1454370231 1310 dbSNP
rs1288367152 1353 dbSNP
rs1383003602 1358 dbSNP
rs1454811637 1397 dbSNP
rs1337686879 1399 dbSNP
rs183552163 1402 dbSNP
rs1244313909 1409 dbSNP
rs1309784060 1410 dbSNP
rs12859290 1411 dbSNP
rs1237639606 1412 dbSNP
rs1318056829 1412 dbSNP
rs1258452851 1415 dbSNP
rs6653244 1425 dbSNP
rs1203872366 1433 dbSNP
rs1242195588 1434 dbSNP
rs1459801836 1439 dbSNP
rs1178799037 1440 dbSNP
rs1408538481 1448 dbSNP
rs1409811259 1461 dbSNP
rs1418445712 1461 dbSNP
rs1471025867 1461 dbSNP
rs1177404078 1466 dbSNP
rs1405716703 1474 dbSNP
rs1446191950 1477 dbSNP
rs1300284899 1481 dbSNP
rs111923761 1482 dbSNP
rs1374619105 1483 dbSNP
rs1391350509 1487 dbSNP
rs1305541337 1495 dbSNP
rs1325041485 1506 dbSNP
rs1223655718 1515 dbSNP
rs1262114471 1523 dbSNP
rs1320977306 1531 dbSNP
rs1206283667 1540 dbSNP
rs1233275089 1548 dbSNP
rs1480211050 1550 dbSNP
rs1175391983 1557 dbSNP
rs1271039467 1563 dbSNP
rs1481458567 1574 dbSNP
rs1200240724 1577 dbSNP
rs1428791979 1583 dbSNP
rs1413007460 1584 dbSNP
rs782672498 1587 dbSNP
rs1355444166 1592 dbSNP
rs1461837523 1594 dbSNP
rs1306700641 1607 dbSNP
rs1348004950 1611 dbSNP
rs35386099 1617 dbSNP
rs1282105262 1622 dbSNP
rs1343202071 1623 dbSNP
rs1215929645 1624 dbSNP
rs1273332820 1626 dbSNP
rs190939032 1629 dbSNP
rs1202268384 1668 dbSNP
rs782577854 1669 dbSNP
rs1490498107 1673 dbSNP
rs1223257147 1699 dbSNP
rs1268302481 1712 dbSNP
rs1477106876 1733 dbSNP
rs1188486662 1736 dbSNP
rs1420568094 1746 dbSNP
rs140248668 1747 dbSNP
rs1167106600 1754 dbSNP
rs1367942650 1755 dbSNP
rs1425871925 1760 dbSNP
rs1303123600 1764 dbSNP
rs782650579 1767 dbSNP
rs782489007 1790 dbSNP
rs1270403950 1807 dbSNP
rs35601060 1807 dbSNP
rs1360840435 1808 dbSNP
rs1225826487 1817 dbSNP
rs1316916997 1819 dbSNP
rs1360010463 1829 dbSNP
rs1221617941 1830 dbSNP
rs1289570881 1832 dbSNP
rs1218125635 1836 dbSNP
rs1242852041 1851 dbSNP
rs1485673743 1865 dbSNP
rs1387507939 1867 dbSNP
rs781791037 1872 dbSNP
rs1163490230 1879 dbSNP
rs1412348444 1884 dbSNP
rs1401871878 1887 dbSNP
rs1318419599 1888 dbSNP
rs1344185988 1893 dbSNP
rs201417572 1913 dbSNP
rs186214876 1914 dbSNP
rs1432483803 1917 dbSNP
rs1338347940 1923 dbSNP
rs782742508 1932 dbSNP
rs1383234346 1968 dbSNP
rs1245052798 1971 dbSNP
rs782509645 1973 dbSNP
rs1282354068 1979 dbSNP
rs1352757869 1994 dbSNP
rs781854712 2001 dbSNP
rs782802724 2006 dbSNP
rs782070999 2007 dbSNP
rs181706942 2008 dbSNP
rs1328703282 2021 dbSNP
rs1207033082 2025 dbSNP
rs1245261038 2037 dbSNP
rs1462041844 2040 dbSNP
rs367922784 2045 dbSNP
rs1183370395 2051 dbSNP
rs73522538 2057 dbSNP
rs1471452896 2065 dbSNP
rs1158595894 2066 dbSNP
rs1406563679 2071 dbSNP
rs143309680 2072 dbSNP
rs781906335 2084 dbSNP
rs1178132104 2086 dbSNP
rs1406452803 2114 dbSNP
rs1451563898 2119 dbSNP
rs1331967838 2126 dbSNP
rs1337412355 2134 dbSNP
rs782766561 2135 dbSNP
rs1278928851 2136 dbSNP
rs1328558759 2153 dbSNP
rs1226720920 2155 dbSNP
rs782007812 2175 dbSNP
rs1265157275 2192 dbSNP
rs1324550116 2202 dbSNP
rs1200186674 2204 dbSNP
rs139546496 2214 dbSNP
rs1439956863 2216 dbSNP
rs1183132330 2218 dbSNP
rs76707308 2219 dbSNP
rs1471323185 2220 dbSNP
rs1200966382 2224 dbSNP
rs1429485238 2232 dbSNP
rs782298511 2232 dbSNP
rs1170554788 2234 dbSNP
rs1398327029 2252 dbSNP
rs1410380464 2264 dbSNP
rs1328095545 2270 dbSNP
rs1348560526 2283 dbSNP
rs782023441 2289 dbSNP
rs1285295655 2303 dbSNP
rs1346341430 2304 dbSNP
rs1232763071 2309 dbSNP
rs1273341804 2311 dbSNP
rs1341901322 2320 dbSNP
rs1196815509 2329 dbSNP
rs1274469009 2332 dbSNP
rs1482369682 2341 dbSNP
rs781829058 2343 dbSNP
rs1224012082 2361 dbSNP
rs1269016420 2361 dbSNP
rs1432135014 2376 dbSNP
rs1374504521 2391 dbSNP
rs189594305 2397 dbSNP
rs1167120511 2416 dbSNP
rs1368575944 2427 dbSNP
rs1426505875 2448 dbSNP
rs1303728083 2454 dbSNP
rs1366244035 2467 dbSNP
rs1386338476 2473 dbSNP
rs1299464080 2474 dbSNP
rs782315796 2475 dbSNP
rs1228543707 2476 dbSNP
rs1297355405 2477 dbSNP
rs1053713 2480 dbSNP
rs782176758 2481 dbSNP
rs1340610858 2486 dbSNP
rs1248765672 2489 dbSNP
rs536589640 2495 dbSNP
rs782612707 2501 dbSNP
rs1487870475 2504 dbSNP
rs1207555170 2509 dbSNP
rs1263328479 2511 dbSNP
rs782750711 2515 dbSNP
rs1187650130 2518 dbSNP
rs1388053483 2521 dbSNP
rs1446269945 2540 dbSNP
rs1164114727 2545 dbSNP
rs1384608327 2548 dbSNP
rs782738238 2558 dbSNP
rs150990347 2560 dbSNP
rs868922729 2562 dbSNP
rs782038255 2563 dbSNP
rs1383022841 2565 dbSNP
rs1320193145 2566 dbSNP
rs1363442170 2568 dbSNP
rs1454970122 2579 dbSNP
rs186348587 2581 dbSNP
rs181249499 2589 dbSNP
rs1316263222 2592 dbSNP
rs1321658075 2594 dbSNP
rs1241923677 2596 dbSNP
rs1350811244 2603 dbSNP
rs1207684519 2615 dbSNP
rs111287985 2619 dbSNP
rs782564137 2625 dbSNP
rs1183978515 2632 dbSNP
rs1255318988 2638 dbSNP
rs1422013232 2639 dbSNP
rs1162724603 2643 dbSNP
rs1365578534 2648 dbSNP
rs781936109 2657 dbSNP
rs1457881797 2667 dbSNP
rs1158691165 2675 dbSNP
rs1386733554 2677 dbSNP
rs1454862309 2679 dbSNP
rs1337826634 2686 dbSNP
rs1379030760 2697 dbSNP
rs1394765714 2709 dbSNP
rs1309843407 2714 dbSNP
rs1335814638 2720 dbSNP
rs1227312377 2729 dbSNP
rs781883839 2737 dbSNP
rs1265782364 2744 dbSNP
rs1325265001 2765 dbSNP
rs782580372 2786 dbSNP
rs1204009744 2799 dbSNP
rs370236859 2814 dbSNP
rs1255229911 2829 dbSNP
rs1482177274 2831 dbSNP
rs782487303 2836 dbSNP
rs1178858729 2840 dbSNP
rs1251231306 2842 dbSNP
rs1472957402 2843 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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

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

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]
CLIP-seq Support 1 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000374884.2 | 3UTR | AUAAAUUUUAUUGUGCCAACAAAUCUUACCUUGACU
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
280 hsa-miR-4282 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057628 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT060732 RPS3 ribosomal protein S3 2 2
MIRT063371 ETNK1 ethanolamine kinase 1 2 2
MIRT066257 LRIG3 leucine rich repeats and immunoglobulin like domains 3 2 4
MIRT070774 HIF1A hypoxia inducible factor 1 alpha subunit 2 2
MIRT070871 EIF2S1 eukaryotic translation initiation factor 2 subunit alpha 2 4
MIRT078056 PCTP phosphatidylcholine transfer protein 2 2
MIRT078408 DCAF7 DDB1 and CUL4 associated factor 7 2 4
MIRT084059 PPP1R3D protein phosphatase 1 regulatory subunit 3D 2 2
MIRT093537 GALNT7 polypeptide N-acetylgalactosaminyltransferase 7 2 6
MIRT096072 SFXN1 sideroflexin 1 2 2
MIRT098316 REV3L REV3 like, DNA directed polymerase zeta catalytic subunit 2 2
MIRT100493 UHRF1BP1 UHRF1 binding protein 1 2 2
MIRT102254 HBP1 HMG-box transcription factor 1 2 4
MIRT105318 VPS37A VPS37A, ESCRT-I subunit 2 2
MIRT114143 MZT1 mitotic spindle organizing protein 1 2 4
MIRT114873 DICER1 dicer 1, ribonuclease III 2 2
MIRT134683 PNRC2 proline rich nuclear receptor coactivator 2 2 2
MIRT137640 RCOR1 REST corepressor 1 2 2
MIRT155449 CCNT2 cyclin T2 2 4
MIRT165656 DCTN4 dynactin subunit 4 2 2
MIRT177570 CSTF2T cleavage stimulation factor subunit 2 tau variant 2 4
MIRT188514 E2F7 E2F transcription factor 7 2 10
MIRT193019 TMOD3 tropomodulin 3 2 4
MIRT195823 GADD45A growth arrest and DNA damage inducible alpha 2 2
MIRT195885 DEPDC1 DEP domain containing 1 2 6
MIRT206029 NUP50 nucleoporin 50 2 6
MIRT212148 CLCN3 chloride voltage-gated channel 3 2 2
MIRT213999 DCP2 decapping mRNA 2 2 2
MIRT214650 HNRNPA0 heterogeneous nuclear ribonucleoprotein A0 2 2
MIRT221568 CBX3 chromobox 3 2 2
MIRT224544 ZNF623 zinc finger protein 623 2 2
MIRT227654 SET SET nuclear proto-oncogene 2 2
MIRT229992 CHIC1 cysteine rich hydrophobic domain 1 2 2
MIRT238968 QKI QKI, KH domain containing RNA binding 2 2
MIRT239825 ACTB actin beta 2 2
MIRT241084 ZXDA zinc finger, X-linked, duplicated A 2 4
MIRT244852 ZBTB5 zinc finger and BTB domain containing 5 2 2
MIRT264534 TARDBP TAR DNA binding protein 2 2
MIRT271438 SKI SKI proto-oncogene 2 2
MIRT271597 ENAH ENAH, actin regulator 2 2
MIRT294332 ZNF264 zinc finger protein 264 2 2
MIRT296341 PARD6B par-6 family cell polarity regulator beta 2 2
MIRT301715 TEF TEF, PAR bZIP transcription factor 2 2
MIRT308549 ZNF654 zinc finger protein 654 2 2
MIRT313866 DEPDC1B DEP domain containing 1B 2 2
MIRT315529 MARCKS myristoylated alanine rich protein kinase C substrate 2 2
MIRT321066 RABGEF1 RAB guanine nucleotide exchange factor 1 2 2
MIRT343777 NUTF2 nuclear transport factor 2 2 2
MIRT359109 MAP1B microtubule associated protein 1B 2 2
MIRT397393 GOLGA3 golgin A3 2 4
MIRT400822 CPEB2 cytoplasmic polyadenylation element binding protein 2 2 2
MIRT442171 DSEL dermatan sulfate epimerase-like 2 2
MIRT442777 JAG1 jagged 1 2 2
MIRT442862 SCARF1 scavenger receptor class F member 1 2 4
MIRT442919 PCBD2 pterin-4 alpha-carbinolamine dehydratase 2 2 2
MIRT444567 TRA2B transformer 2 beta homolog 2 2
MIRT444718 CMSS1 cms1 ribosomal small subunit homolog (yeast) 2 2
MIRT445018 RBMS3 RNA binding motif single stranded interacting protein 3 2 2
MIRT445853 LRRC1 leucine rich repeat containing 1 2 2
MIRT446242 HELZ helicase with zinc finger 2 2
MIRT446542 GOLGA8B golgin A8 family member B 2 2
MIRT446643 SPTY2D1 SPT2 chromatin protein domain containing 1 2 2
MIRT446948 ZMAT3 zinc finger matrin-type 3 2 4
MIRT447061 KCNAB1 potassium voltage-gated channel subfamily A member regulatory beta subunit 1 2 2
MIRT447327 ZSCAN21 zinc finger and SCAN domain containing 21 2 2
MIRT447995 CDX1 caudal type homeobox 1 2 2
MIRT448543 RHEBP1 RHEB pseudogene 1 2 6
MIRT448752 HINT1 histidine triad nucleotide binding protein 1 2 2
MIRT448772 GOLGA8A golgin A8 family member A 2 2
MIRT449342 WDR26 WD repeat domain 26 2 2
MIRT450011 SLC16A6 solute carrier family 16 member 6 2 4
MIRT450229 PCNX pecanex homolog 1 2 2
MIRT450340 MRPL17 mitochondrial ribosomal protein L17 2 4
MIRT450381 MSI2 musashi RNA binding protein 2 2 2
MIRT450759 PGGT1B protein geranylgeranyltransferase type I subunit beta 2 2
MIRT450809 NRCAM neuronal cell adhesion molecule 2 2
MIRT450947 ATAD2 ATPase family, AAA domain containing 2 2 2
MIRT459095 CCPG1 cell cycle progression 1 2 2
MIRT462428 TWISTNB TWIST neighbor 2 2
MIRT465200 TROVE2 TROVE domain family member 2 2 4
MIRT467382 SON SON DNA binding protein 2 4
MIRT468546 SERP1 stress associated endoplasmic reticulum protein 1 2 2
MIRT471506 PDE4D phosphodiesterase 4D 2 2
MIRT471981 NR3C1 nuclear receptor subfamily 3 group C member 1 2 2
MIRT474478 KLHL11 kelch like family member 11 2 8
MIRT475011 KANSL1 KAT8 regulatory NSL complex subunit 1 2 8
MIRT480341 C5orf51 chromosome 5 open reading frame 51 2 2
MIRT482696 TEX9 testis expressed 9 2 6
MIRT483462 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 6
MIRT485623 FAM217B family with sequence similarity 217 member B 2 2
MIRT485714 CASP16 caspase 16, pseudogene 2 8
MIRT486279 SEC23A Sec23 homolog A, coat complex II component 2 2
MIRT491000 PEBP1 phosphatidylethanolamine binding protein 1 2 4
MIRT492594 PPIL4 peptidylprolyl isomerase like 4 2 2
MIRT493365 KIF5B kinesin family member 5B 2 2
MIRT494316 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT495208 EDN3 endothelin 3 2 2
MIRT497011 TCF15 transcription factor 15 2 2
MIRT498512 FRK fyn related Src family tyrosine kinase 2 2
MIRT498778 PARP15 poly(ADP-ribose) polymerase family member 15 2 2
MIRT501045 SMG1 SMG1, nonsense mediated mRNA decay associated PI3K related kinase 2 6
MIRT502939 CDC37L1 cell division cycle 37 like 1 2 8
MIRT504806 VHL von Hippel-Lindau tumor suppressor 2 6
MIRT505656 SHMT1 serine hydroxymethyltransferase 1 2 6
MIRT505964 RAB5C RAB5C, member RAS oncogene family 2 6
MIRT506322 OTUD4 OTU deubiquitinase 4 2 4
MIRT506803 KLHL15 kelch like family member 15 2 6
MIRT506917 KBTBD8 kelch repeat and BTB domain containing 8 2 4
MIRT507400 EMC7 ER membrane protein complex subunit 7 2 8
MIRT507471 EDEM3 ER degradation enhancing alpha-mannosidase like protein 3 2 6
MIRT508058 ATP13A3 ATPase 13A3 2 4
MIRT508135 AMD1 adenosylmethionine decarboxylase 1 2 2
MIRT509895 RPS23 ribosomal protein S23 2 4
MIRT510881 RAN RAN, member RAS oncogene family 2 8
MIRT513766 PEX5L peroxisomal biogenesis factor 5 like 2 4
MIRT516898 COPS8 COP9 signalosome subunit 8 2 2
MIRT518703 TIMD4 T-cell immunoglobulin and mucin domain containing 4 2 4
MIRT520429 TTPAL alpha tocopherol transfer protein like 2 6
MIRT521843 PNISR PNN interacting serine and arginine rich protein 2 4
MIRT522116 NUDT3 nudix hydrolase 3 2 4
MIRT525467 TMPRSS12 transmembrane protease, serine 12 2 2
MIRT525583 MTRNR2L7 MT-RNR2-like 7 2 2
MIRT525906 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 2
MIRT526072 C11orf54 chromosome 11 open reading frame 54 2 2
MIRT526232 MTRNR2L5 MT-RNR2-like 5 2 4
MIRT526455 FAM71F2 family with sequence similarity 71 member F2 2 4
MIRT526515 POU5F1B POU class 5 homeobox 1B 2 2
MIRT528032 FEZ2 fasciculation and elongation protein zeta 2 2 2
MIRT528422 MRPS16 mitochondrial ribosomal protein S16 2 2
MIRT528995 ISLR2 immunoglobulin superfamily containing leucine rich repeat 2 2 4
MIRT529311 ATRNL1 attractin like 1 2 2
MIRT529376 SKP1 S-phase kinase associated protein 1 2 4
MIRT530015 SRRM1 serine and arginine repetitive matrix 1 2 2
MIRT530089 FMN2 formin 2 2 2
MIRT530942 ENPP6 ectonucleotide pyrophosphatase/phosphodiesterase 6 2 2
MIRT531229 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT533088 YTHDF3 YTH N6-methyladenosine RNA binding protein 3 2 2
MIRT533299 USP46 ubiquitin specific peptidase 46 2 2
MIRT533318 UNKL unkempt family like zinc finger 2 2
MIRT533721 TMEM30A transmembrane protein 30A 2 2
MIRT534096 AZF1 azoospermia factor 1 2 2
MIRT534188 SLC7A11 solute carrier family 7 member 11 2 2
MIRT534493 SAR1B secretion associated Ras related GTPase 1B 2 2
MIRT536077 MBOAT2 membrane bound O-acyltransferase domain containing 2 2 2
MIRT536242 LRIG2 leucine rich repeats and immunoglobulin like domains 2 2 2
MIRT537524 FAM104A family with sequence similarity 104 member A 2 2
MIRT538088 DGKH diacylglycerol kinase eta 2 2
MIRT538475 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT538853 BTG1 BTG anti-proliferation factor 1 2 4
MIRT539075 GDNF glial cell derived neurotrophic factor 2 2
MIRT539480 ACVR2B activin A receptor type 2B 2 4
MIRT540210 ARHGAP18 Rho GTPase activating protein 18 2 2
MIRT541940 TSPAN2 tetraspanin 2 2 2
MIRT543812 COCH cochlin 2 2
MIRT545120 PDZRN4 PDZ domain containing ring finger 4 2 2
MIRT545571 GIMAP4 GTPase, IMAP family member 4 2 2
MIRT545989 XKR4 XK related 4 2 2
MIRT547213 PANK3 pantothenate kinase 3 2 4
MIRT547740 KIAA1468 KIAA1468 2 2
MIRT548022 GRB2 growth factor receptor bound protein 2 2 4
MIRT548032 GOLIM4 golgi integral membrane protein 4 2 2
MIRT548102 GFPT1 glutamine--fructose-6-phosphate transaminase 1 2 4
MIRT548217 FKBP1A FK506 binding protein 1A 2 2
MIRT548588 DDX3X DEAD-box helicase 3, X-linked 2 4
MIRT548953 CDC27 cell division cycle 27 2 2
MIRT549072 CACUL1 CDK2 associated cullin domain 1 2 2
MIRT550368 INCENP inner centromere protein 2 6
MIRT550546 MYZAP myocardial zonula adherens protein 2 2
MIRT551491 TMEM192 transmembrane protein 192 2 4
MIRT553078 UEVLD UEV and lactate/malate dehyrogenase domains 2 2
MIRT554104 SMU1 DNA replication regulator and spliceosomal factor 2 2
MIRT555127 PTPRG protein tyrosine phosphatase, receptor type G 2 2
MIRT555477 POC1B-GALNT4 POC1B-GALNT4 readthrough 2 2
MIRT555978 NPTN neuroplastin 2 2
MIRT557011 HPRT1 hypoxanthine phosphoribosyltransferase 1 2 2
MIRT557706 GALNT4 polypeptide N-acetylgalactosaminyltransferase 4 2 2
MIRT558333 DNAJC28 DnaJ heat shock protein family (Hsp40) member C28 2 4
MIRT558488 DBN1 drebrin 1 2 2
MIRT559942 ZNF567 zinc finger protein 567 2 2
MIRT561127 ATP2B1 ATPase plasma membrane Ca2+ transporting 1 2 2
MIRT561791 PAWR pro-apoptotic WT1 regulator 2 2
MIRT562438 EEF2 eukaryotic translation elongation factor 2 2 2
MIRT563102 PABPC4L poly(A) binding protein cytoplasmic 4 like 2 2
MIRT563212 ZNF813 zinc finger protein 813 2 2
MIRT563426 KIF3A kinesin family member 3A 2 2
MIRT563473 SPIN4 spindlin family member 4 2 2
MIRT564015 HSPA4 heat shock protein family A (Hsp70) member 4 2 4
MIRT564117 ZYG11B zyg-11 family member B, cell cycle regulator 2 2
MIRT564223 SDE2 SDE2 telomere maintenance homolog 2 2
MIRT564503 CACNG1 calcium voltage-gated channel auxiliary subunit gamma 1 2 2
MIRT564515 DUSP3 dual specificity phosphatase 3 2 2
MIRT564811 ZBTB21 zinc finger and BTB domain containing 21 2 2
MIRT565265 TPD52 tumor protein D52 2 2
MIRT566012 RHOB ras homolog family member B 2 2
MIRT566216 PTMA prothymosin, alpha 2 2
MIRT566638 NFYA nuclear transcription factor Y subunit alpha 2 2
MIRT566821 MAPK8 mitogen-activated protein kinase 8 2 2
MIRT566948 LEPROT leptin receptor overlapping transcript 2 2
MIRT567290 HNRNPAB heterogeneous nuclear ribonucleoprotein A/B 2 2
MIRT567895 CSTF2 cleavage stimulation factor subunit 2 2 2
MIRT568731 MTRNR2L3 MT-RNR2-like 3 2 2
MIRT571263 ZNF239 zinc finger protein 239 2 2
MIRT572593 EIF2AK4 eukaryotic translation initiation factor 2 alpha kinase 4 2 2
MIRT573827 TGOLN2 trans-golgi network protein 2 2 2
MIRT576391 Fhl2 four and a half LIM domains 2 2 2
MIRT609901 SMS spermine synthase 2 2
MIRT613710 ELMSAN1 ELM2 and Myb/SANT domain containing 1 2 2
MIRT614406 ADAT1 adenosine deaminase, tRNA specific 1 2 2
MIRT615042 DCX doublecortin 2 2
MIRT617514 C5orf45 MRN complex interacting protein 2 2
MIRT619476 PRDM10 PR/SET domain 10 2 2
MIRT620349 TLN1 talin 1 2 2
MIRT620910 PLA2G7 phospholipase A2 group VII 2 2
MIRT622131 SP4 Sp4 transcription factor 2 2
MIRT622955 OTUD7B OTU deubiquitinase 7B 2 2
MIRT623351 MAGI3 membrane associated guanylate kinase, WW and PDZ domain containing 3 2 2
MIRT623619 INTU inturned planar cell polarity protein 2 2
MIRT624409 CCDC171 coiled-coil domain containing 171 2 2
MIRT625171 CCS copper chaperone for superoxide dismutase 2 2
MIRT625685 RPP40 ribonuclease P/MRP subunit p40 2 2
MIRT625875 ALDH18A1 aldehyde dehydrogenase 18 family member A1 2 2
MIRT626002 FAM107A family with sequence similarity 107 member A 2 2
MIRT626872 HRH4 histamine receptor H4 2 4
MIRT628220 FKBP9 FK506 binding protein 9 2 2
MIRT628265 DIO2 iodothyronine deiodinase 2 2 2
MIRT628402 C8orf37 chromosome 8 open reading frame 37 2 2
MIRT630564 C3orf36 chromosome 3 open reading frame 36 2 4
MIRT631577 RASSF9 Ras association domain family member 9 2 2
MIRT635730 CCDC58 coiled-coil domain containing 58 2 2
MIRT636224 SLC8A1 solute carrier family 8 member A1 2 2
MIRT636613 CLIC5 chloride intracellular channel 5 2 2
MIRT638899 CDK9 cyclin dependent kinase 9 2 2
MIRT640167 ATXN7L1 ataxin 7 like 1 2 2
MIRT642070 GTDC1 glycosyltransferase like domain containing 1 2 2
MIRT643034 CHCHD7 coiled-coil-helix-coiled-coil-helix domain containing 7 2 2
MIRT644572 SPOP speckle type BTB/POZ protein 2 2
MIRT644954 IFNB1 interferon beta 1 2 2
MIRT645948 TTF2 transcription termination factor 2 2 2
MIRT646440 XRCC2 X-ray repair cross complementing 2 2 2
MIRT647896 EPN2 epsin 2 2 2
MIRT648276 ZNF582 zinc finger protein 582 2 2
MIRT649381 NEDD1 neural precursor cell expressed, developmentally down-regulated 1 2 2
MIRT650254 CD68 CD68 molecule 2 2
MIRT650333 ATP5S ATP synthase, H+ transporting, mitochondrial Fo complex subunit s (factor B) 2 2
MIRT651707 VMP1 vacuole membrane protein 1 2 2
MIRT651774 VASP vasodilator stimulated phosphoprotein 2 2
MIRT653144 SRPK2 SRSF protein kinase 2 2 2
MIRT654112 RPS6KA5 ribosomal protein S6 kinase A5 2 2
MIRT654161 RORB RAR related orphan receptor B 2 2
MIRT655716 MLF2 myeloid leukemia factor 2 2 2
MIRT657476 HDAC4 histone deacetylase 4 2 2
MIRT658095 FOXO1 forkhead box O1 2 2
MIRT658860 DTX3L deltex E3 ubiquitin ligase 3L 2 2
MIRT658988 DNAJA1 DnaJ heat shock protein family (Hsp40) member A1 2 2
MIRT660767 ALDH6A1 aldehyde dehydrogenase 6 family member A1 2 2
MIRT661622 C2orf15 chromosome 2 open reading frame 15 2 2
MIRT661694 TFDP2 transcription factor Dp-2 2 2
MIRT662208 PLA2G4E phospholipase A2 group IVE 2 2
MIRT662443 RALGAPA1 Ral GTPase activating protein catalytic alpha subunit 1 2 2
MIRT664422 ADH5 alcohol dehydrogenase 5 (class III), chi polypeptide 2 2
MIRT687505 NECAB1 N-terminal EF-hand calcium binding protein 1 2 2
MIRT689910 SOD2 superoxide dismutase 2 2 2
MIRT690781 PLA2G2C phospholipase A2 group IIC 2 2
MIRT698488 TIAL1 TIA1 cytotoxic granule associated RNA binding protein like 1 2 2
MIRT699685 SFMBT2 Scm like with four mbt domains 2 2 2
MIRT700926 PDS5A PDS5 cohesin associated factor A 2 2
MIRT702258 LMNB1 lamin B1 2 2
MIRT703166 GPR137C G protein-coupled receptor 137C 2 2
MIRT703242 GNS glucosamine (N-acetyl)-6-sulfatase 2 2
MIRT704737 CENPQ centromere protein Q 2 2
MIRT707310 GLRX2 glutaredoxin 2 2 2
MIRT710021 KCNQ5 potassium voltage-gated channel subfamily Q member 5 2 2
MIRT712212 SCOC short coiled-coil protein 2 2
MIRT714742 SETBP1 SET binding protein 1 2 2
MIRT718268 ZNF749 zinc finger protein 749 2 2
MIRT720553 DYRK4 dual specificity tyrosine phosphorylation regulated kinase 4 2 2
MIRT722248 RBM41 RNA binding motif protein 41 2 2
MIRT723767 MPLKIP M-phase specific PLK1 interacting protein 2 2
MIRT723977 KIAA0146 scaffolding protein involved in DNA repair 1 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4282 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4282 Neoadjuvant chemotherapy sensitive tissue (breast cancer)
hsa-miR-4282 Neoadjuvant chemotherapy sensitive tissue (breast cancer)

Error report submission