pre-miRNA Information
pre-miRNA hsa-mir-6839   
Genomic Coordinates chr7: 64679064 - 64679176
Description Homo sapiens miR-6839 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6839-3p
Sequence 92| UUGGGUUUUCUCUUCAAUCCAG |113
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN15661209 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1426245091 3 dbSNP
rs533324498 6 dbSNP
rs1169594864 16 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol HM13   
Synonyms H13, IMP1, IMPAS, IMPAS-1, MSTP086, PSENL3, PSL3, SPP, SPPL1
Description histocompatibility minor 13
Transcript NM_178582   
Other Transcripts NM_030789 , NM_178581 , NM_178580   
Expression
Putative miRNA Targets on HM13
3'UTR of HM13
(miRNA target sites are highlighted)
>HM13|NM_178582|3'UTR
   1 GAACATGACTTTTGGCATCATTCAGAGCCAGGTTTGAATCCTGGCTATAAAACTCAAGGGACTCTTTCCCCTGCACACTG
  81 TAGATGACTAGGACAAGAACAATGACCTCTCTGGGCCACAGTTTCCTTATAGACATGATGAGGATCTGGTGGGTGTTTCC
 161 ACCACCACAGCTGTTGGGAAAGTGATTTGTGAGCAGTAATGTCATGTTAGTTGTGACAGTACTCAGGTGAGTAACACCAG
 241 TACCACCTGCCGGGTGTTGTGGCCTAGCTGTGTGCTAAGTGCCATGTTGGGCTCCTCACACATGATCGTGTTTCGTAAGG
 321 AGCCAGAGGCAGCATAGTGAAAAGTTAGGAGCGTGGGCTCTGGCATTTGACTACCTTACTTTGAGTCCAGACTCTGCCAC
 401 TTAATAGCTCTGTGATCTTGGGCAAGTTACTTAATCTCTCTGGCCTCAATTTCCTGGTGAATGTGGAGAAAAATAATAGT
 481 GCCCTTCCCATGGGGTCATGTGGAAAGCTTTTAGCACAGTATCTGGTGATTTAAAGTGTTCAGTAACTATTAGCTGTTAC
 561 TGTCATTATCTGTGTTAACCTGCCAGACAACCTTATATGGGTTGCTTTTGCTTTCACACCTGTATGATAGTCATGGAAAC
 641 TGAAGCCCAGAGAGGTTAAGAAATTTGCTAGGATCACACCACTAATAAGCAACAGAGCCAGGATTCAAACCCAGGTGTGG
 721 CTCCAGAGCCCATCCTCTTCCCACTGCTACCCTAACTCAAACTGCCACATGCTCGTGTCCTTTCAGTGGGGAGAGTGGTT
 801 CATTAGAGGGGGTTGCTACTTTTATTTTGGACAGGCCAGTTCTCCATTCTGCAGGACTATCCCATGTATTACAAACAGTT
 881 GGCAACCTTGCCCTGCTCACCAAATGGGAGTTGCATACCAGTATTCCCCAGCTTGTGACTACAGAGATGTCCCAGTATGT
 961 TTCTTTCTGCCCCGTTGAAGAGGTGCAGCCTCAGGCTGAGAAACACTGATAGACCAAGAGGTGGCCAGGGTTCCCAGAAG
1041 GAAGGAACTCACCTTGAACTTAGCTTTCTTTGAAGGGTAGGAAACCTGGAAGACGTACAAAGGAGGGAGAGGTCAGGTGC
1121 TAGAAAGTTTGTGCACATTGAGGGCATGGGCAGAATCTGCTCCCAAAAGCATTGAAAGCCAATATGAGGCCAGGTGGTGG
1201 CTCATGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGCGGATCACAAGGTCAGGAGATTGAGACCATCCTGGCCAA
1281 CATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCTGGGCATGGTGGTGCATGCCTGTAGTCCCAGCTACTC
1361 AGGAGGCTGAGGTAGGAGAATCATTGAACCTGGGAGGCGGAGGTTGCAGTGAGCCGAGATTGCACCACTGCATTCCAGCC
1441 TGGCGACAGAGTGAGACTCCATCTCAAAAAAAAAAAAAAAGCCAATATGAATGTGGCTTCATTCTTCTAGGCACACTGGC
1521 AGGACAGTGTGGTAGTCAGGAGCACAGGGTCAAGAGGCAGGCAGCCTTGGGACAAACACCTGGTGCTGCCAGCTC
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' gaCCUAACUUCUCUUUUGGGUu 5'
            |||||       ||||||| 
Target 5' caGGATT------CAAACCCAg 3'
699 - 714 144.00 -10.90
2
miRNA  3' gaCCUAACUU-----C--UCUUUUGGGUu 5'
            || |||||     |  | |||||:|| 
Target 5' caGGTTTGAATCCTGGCTATAAAACTCAa 3'
29 - 57 142.00 -10.50
3
miRNA  3' gaccUAACUUCUCUUUUGGGUu 5'
              || |||   :||:|||| 
Target 5' agtcATGGAAACTGAAGCCCAg 3'
629 - 650 138.00 -11.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30674107 6 COSMIC
COSN30714003 77 COSMIC
COSN21819232 652 COSMIC
COSN5968592 1085 COSMIC
COSN16586884 1473 COSMIC
COSN21640517 2402 COSMIC
COSN21640849 2435 COSMIC
COSN21474654 2727 COSMIC
COSN24155141 3089 COSMIC
COSN22393583 3250 COSMIC
COSN23665202 3354 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs759957424 1 dbSNP
rs1182984684 7 dbSNP
rs1383144477 10 dbSNP
rs963826837 13 dbSNP
rs1446262838 15 dbSNP
rs368766161 18 dbSNP
rs1396063913 26 dbSNP
rs775802773 33 dbSNP
rs763501730 37 dbSNP
rs1395346994 41 dbSNP
rs1037387359 45 dbSNP
rs767193640 46 dbSNP
rs371262676 48 dbSNP
rs764574492 50 dbSNP
rs1266512904 56 dbSNP
rs1373302091 65 dbSNP
rs1205647855 66 dbSNP
rs973412457 69 dbSNP
rs1258718020 78 dbSNP
rs1215684104 81 dbSNP
rs1173666329 86 dbSNP
rs574210945 87 dbSNP
rs1035592680 96 dbSNP
rs538447959 97 dbSNP
rs779753124 101 dbSNP
rs929328385 107 dbSNP
rs1329424111 112 dbSNP
rs1469838988 115 dbSNP
rs981983360 122 dbSNP
rs1014036308 125 dbSNP
rs1384861820 128 dbSNP
rs749222867 130 dbSNP
rs770309025 131 dbSNP
rs927903740 133 dbSNP
rs937818036 141 dbSNP
rs1175138645 142 dbSNP
rs1054992396 161 dbSNP
rs200696305 163 dbSNP
rs1193344589 166 dbSNP
rs1430210952 168 dbSNP
rs1327282907 174 dbSNP
rs543520815 183 dbSNP
rs1192607648 195 dbSNP
rs191848454 202 dbSNP
rs142770853 206 dbSNP
rs946435354 211 dbSNP
rs1224194033 231 dbSNP
rs573930029 232 dbSNP
rs969755596 235 dbSNP
rs1042151356 239 dbSNP
rs1260132048 252 dbSNP
rs1484819202 253 dbSNP
rs1276875986 255 dbSNP
rs1206676489 257 dbSNP
rs1356508363 259 dbSNP
rs1262116942 260 dbSNP
rs1315261730 269 dbSNP
rs1412382246 270 dbSNP
rs979530917 278 dbSNP
rs1167954521 286 dbSNP
rs925330643 295 dbSNP
rs148338252 303 dbSNP
rs956888273 305 dbSNP
rs902143844 308 dbSNP
rs1259342749 309 dbSNP
rs997864084 315 dbSNP
rs1030538698 316 dbSNP
rs890743047 330 dbSNP
rs1196405139 335 dbSNP
rs1480514074 337 dbSNP
rs1051084751 347 dbSNP
rs910235904 349 dbSNP
rs1007669898 353 dbSNP
rs1017753291 354 dbSNP
rs1295471811 358 dbSNP
rs1157703633 360 dbSNP
rs184351003 364 dbSNP
rs1452216503 374 dbSNP
rs1329144523 376 dbSNP
rs1392559240 387 dbSNP
rs973869434 390 dbSNP
rs1160675554 392 dbSNP
rs189099978 398 dbSNP
rs1330168372 408 dbSNP
rs1026399540 431 dbSNP
rs1461872599 437 dbSNP
rs1419985551 439 dbSNP
rs551603505 449 dbSNP
rs1161199921 454 dbSNP
rs950772341 456 dbSNP
rs181720943 460 dbSNP
rs570371103 462 dbSNP
rs1182799516 469 dbSNP
rs1404683417 469 dbSNP
rs1236415053 472 dbSNP
rs141705920 476 dbSNP
rs776250690 477 dbSNP
rs1198137787 481 dbSNP
rs982141916 491 dbSNP
rs927851223 502 dbSNP
rs550387938 506 dbSNP
rs1056886118 519 dbSNP
rs990752423 520 dbSNP
rs375969033 524 dbSNP
rs915030072 532 dbSNP
rs151030793 533 dbSNP
rs1405643034 543 dbSNP
rs1374262399 569 dbSNP
rs946578572 573 dbSNP
rs1306296706 577 dbSNP
rs1441043391 578 dbSNP
rs1042491200 591 dbSNP
rs1315087042 592 dbSNP
rs768541057 595 dbSNP
rs1261208666 597 dbSNP
rs1012838891 601 dbSNP
rs1358549369 603 dbSNP
rs1219961407 616 dbSNP
rs17092263 628 dbSNP
rs1050748832 632 dbSNP
rs890690798 651 dbSNP
rs969428369 665 dbSNP
rs1378736210 669 dbSNP
rs1007744787 682 dbSNP
rs1490393408 693 dbSNP
rs1190824500 695 dbSNP
rs1039277170 700 dbSNP
rs1219999950 711 dbSNP
rs1420328196 713 dbSNP
rs899288004 715 dbSNP
rs1161959781 723 dbSNP
rs1285368307 724 dbSNP
rs1381464003 729 dbSNP
rs1032452513 735 dbSNP
rs774349983 736 dbSNP
rs995053488 743 dbSNP
rs139481041 744 dbSNP
rs1272637543 745 dbSNP
rs988343297 754 dbSNP
rs923474222 755 dbSNP
rs1319999489 763 dbSNP
rs1417659464 770 dbSNP
rs556764979 775 dbSNP
rs549689254 776 dbSNP
rs115778717 784 dbSNP
rs941721423 802 dbSNP
rs575437330 817 dbSNP
rs959372676 832 dbSNP
rs1297701190 847 dbSNP
rs1243228506 852 dbSNP
rs1196235391 854 dbSNP
rs1487519634 856 dbSNP
rs1284782817 859 dbSNP
rs764969853 867 dbSNP
rs973037805 889 dbSNP
rs990701406 896 dbSNP
rs919041203 899 dbSNP
rs1371331477 907 dbSNP
rs1393210117 910 dbSNP
rs1218169694 917 dbSNP
rs1362515497 919 dbSNP
rs1271873447 923 dbSNP
rs1397840200 927 dbSNP
rs1339595078 929 dbSNP
rs187180327 951 dbSNP
rs538706519 955 dbSNP
rs929064184 960 dbSNP
rs1381881229 967 dbSNP
rs915165302 974 dbSNP
rs45565636 975 dbSNP
rs1413998188 984 dbSNP
rs114059600 986 dbSNP
rs1044350018 996 dbSNP
rs1477163829 997 dbSNP
rs1359742721 1005 dbSNP
rs904421266 1007 dbSNP
rs1189152331 1009 dbSNP
rs564109169 1010 dbSNP
rs1484009955 1014 dbSNP
rs190755584 1024 dbSNP
rs1032337964 1046 dbSNP
rs45625042 1054 dbSNP
rs1009659966 1057 dbSNP
rs1177256816 1060 dbSNP
rs1239334811 1068 dbSNP
rs1234942388 1069 dbSNP
rs139781758 1078 dbSNP
rs1302660585 1086 dbSNP
rs553358577 1089 dbSNP
rs954927845 1095 dbSNP
rs180811602 1096 dbSNP
rs1424731925 1099 dbSNP
rs1333509832 1103 dbSNP
rs1170095382 1106 dbSNP
rs1017893713 1107 dbSNP
rs1463602597 1113 dbSNP
rs963589585 1135 dbSNP
rs573195723 1137 dbSNP
rs1425943112 1140 dbSNP
rs1411099391 1143 dbSNP
rs1039688471 1144 dbSNP
rs1480790446 1146 dbSNP
rs899446368 1147 dbSNP
rs1239444992 1163 dbSNP
rs776752601 1165 dbSNP
rs1457234425 1171 dbSNP
rs562034112 1173 dbSNP
rs1273760697 1182 dbSNP
rs760087998 1183 dbSNP
rs1319707150 1186 dbSNP
rs1311822595 1189 dbSNP
rs529149397 1191 dbSNP
rs928950914 1203 dbSNP
rs992605010 1209 dbSNP
rs1444691373 1211 dbSNP
rs565109889 1212 dbSNP
rs1047914893 1220 dbSNP
rs376989778 1237 dbSNP
rs1003599322 1243 dbSNP
rs1419275487 1244 dbSNP
rs751408454 1253 dbSNP
rs1176185156 1255 dbSNP
rs6058058 1262 dbSNP
rs544338548 1263 dbSNP
rs1211556967 1268 dbSNP
rs1204611885 1276 dbSNP
rs562328682 1283 dbSNP
rs1216284465 1288 dbSNP
rs1264614396 1288 dbSNP
rs1461279548 1291 dbSNP
rs186151883 1295 dbSNP
rs968022184 1296 dbSNP
rs373926663 1312 dbSNP
rs978312830 1312 dbSNP
rs923776700 1330 dbSNP
rs1302142061 1338 dbSNP
rs373490889 1341 dbSNP
rs1389010677 1344 dbSNP
rs1030438164 1346 dbSNP
rs955222941 1350 dbSNP
rs529752491 1356 dbSNP
rs1417647459 1377 dbSNP
rs986482168 1384 dbSNP
rs1156459708 1386 dbSNP
rs865896503 1392 dbSNP
rs1418778163 1397 dbSNP
rs145002715 1399 dbSNP
rs566098631 1400 dbSNP
rs1018196585 1415 dbSNP
rs190003637 1416 dbSNP
rs1468266076 1426 dbSNP
rs573920798 1431 dbSNP
rs1026495195 1445 dbSNP
rs920825499 1446 dbSNP
rs950415562 1459 dbSNP
rs1286833869 1465 dbSNP
rs1256638328 1466 dbSNP
rs1301205874 1466 dbSNP
rs1342764929 1466 dbSNP
rs1400918512 1466 dbSNP
rs559799681 1466 dbSNP
rs1363676513 1467 dbSNP
rs992886736 1470 dbSNP
rs917044453 1480 dbSNP
rs1214744077 1481 dbSNP
rs1282217120 1482 dbSNP
rs930885742 1484 dbSNP
rs1173778400 1486 dbSNP
rs1320882616 1487 dbSNP
rs1224806752 1489 dbSNP
rs1265557679 1493 dbSNP
rs1048459887 1511 dbSNP
rs1376938921 1513 dbSNP
rs1171057914 1517 dbSNP
rs1215565459 1523 dbSNP
rs1260737934 1528 dbSNP
rs1240677366 1532 dbSNP
rs925782012 1543 dbSNP
rs1226665935 1544 dbSNP
rs1257155629 1545 dbSNP
rs868722890 1546 dbSNP
rs1482319022 1559 dbSNP
rs551459041 1581 dbSNP
rs1219764713 1590 dbSNP
rs11699147 1597 dbSNP
rs1276665370 1599 dbSNP
rs1056559533 1603 dbSNP
rs895266796 1611 dbSNP
rs945435314 1625 dbSNP
rs1012649051 1627 dbSNP
rs1400855452 1632 dbSNP
rs890426691 1636 dbSNP
rs1022319730 1638 dbSNP
rs552687841 1639 dbSNP
rs1421434655 1640 dbSNP
rs999422585 1646 dbSNP
rs1031345220 1650 dbSNP
rs1039094266 1652 dbSNP
rs537239713 1658 dbSNP
rs1475422510 1683 dbSNP
rs955171476 1687 dbSNP
rs994952685 1692 dbSNP
rs1440963100 1699 dbSNP
rs1346795144 1702 dbSNP
rs557489425 1709 dbSNP
rs1400347828 1710 dbSNP
rs577198155 1720 dbSNP
rs1026547694 1725 dbSNP
rs986627890 1727 dbSNP
rs1017963559 1731 dbSNP
rs963785380 1752 dbSNP
rs370932748 1753 dbSNP
rs974246921 1754 dbSNP
rs919572962 1757 dbSNP
rs1343194316 1768 dbSNP
rs1339548300 1777 dbSNP
rs1309306898 1785 dbSNP
rs1448387819 1789 dbSNP
rs1397958073 1794 dbSNP
rs1330600589 1801 dbSNP
rs1013957085 1805 dbSNP
rs1274887606 1806 dbSNP
rs1161290458 1814 dbSNP
rs929639270 1816 dbSNP
rs1346358882 1833 dbSNP
rs1223767376 1835 dbSNP
rs1384879910 1838 dbSNP
rs182537802 1855 dbSNP
rs1441637119 1858 dbSNP
rs1236811895 1859 dbSNP
rs908163787 1861 dbSNP
rs969713613 1862 dbSNP
rs939493311 1864 dbSNP
rs1208463631 1882 dbSNP
rs1217787658 1883 dbSNP
rs117324032 1884 dbSNP
rs185708928 1886 dbSNP
rs1374014321 1888 dbSNP
rs913184888 1894 dbSNP
rs1437078078 1897 dbSNP
rs1332795583 1901 dbSNP
rs1201722493 1902 dbSNP
rs895214522 1903 dbSNP
rs1404573602 1909 dbSNP
rs1365129598 1922 dbSNP
rs1159477507 1936 dbSNP
rs948140810 1943 dbSNP
rs1044213560 1944 dbSNP
rs1045669862 1948 dbSNP
rs73903603 1950 dbSNP
rs1478620210 1954 dbSNP
rs999939699 1955 dbSNP
rs1197134356 1960 dbSNP
rs190485335 1966 dbSNP
rs558885615 1975 dbSNP
rs1555285 1978 dbSNP
rs1351112641 1979 dbSNP
rs1363365129 1985 dbSNP
rs1219334618 1986 dbSNP
rs1007995382 1991 dbSNP
rs1273020835 1992 dbSNP
rs1435405571 1996 dbSNP
rs1323788397 2002 dbSNP
rs1334704300 2004 dbSNP
rs943354804 2011 dbSNP
rs544083675 2012 dbSNP
rs1278351372 2023 dbSNP
rs1402048616 2028 dbSNP
rs1358900661 2029 dbSNP
rs1158417858 2032 dbSNP
rs561089126 2033 dbSNP
rs1379682571 2034 dbSNP
rs1427794608 2038 dbSNP
rs945741736 2063 dbSNP
rs1480431717 2070 dbSNP
rs1424755976 2077 dbSNP
rs1196345358 2084 dbSNP
rs1487078657 2086 dbSNP
rs1210137846 2087 dbSNP
rs973814597 2090 dbSNP
rs754529539 2091 dbSNP
rs1241328275 2093 dbSNP
rs778663196 2103 dbSNP
rs982889936 2104 dbSNP
rs1047878272 2109 dbSNP
rs908111536 2113 dbSNP
rs1279816264 2117 dbSNP
rs746960976 2120 dbSNP
rs886576799 2122 dbSNP
rs1288519682 2127 dbSNP
rs386813684 2128 dbSNP
rs111401793 2129 dbSNP
rs112235148 2130 dbSNP
rs1437382846 2135 dbSNP
rs970144287 2136 dbSNP
rs567968670 2137 dbSNP
rs770879876 2141 dbSNP
rs1032799435 2146 dbSNP
rs1418265890 2155 dbSNP
rs1182079911 2158 dbSNP
rs1440194263 2170 dbSNP
rs1235212667 2172 dbSNP
rs1202520608 2176 dbSNP
rs760788155 2186 dbSNP
rs988524786 2188 dbSNP
rs1383209992 2191 dbSNP
rs1306706424 2194 dbSNP
rs1313237017 2195 dbSNP
rs1229084665 2196 dbSNP
rs879192530 2202 dbSNP
rs183779280 2210 dbSNP
rs955210826 2212 dbSNP
rs1452029966 2213 dbSNP
rs1401584248 2217 dbSNP
rs1333956254 2221 dbSNP
rs987135342 2224 dbSNP
rs1043780409 2226 dbSNP
rs531977696 2228 dbSNP
rs943388161 2233 dbSNP
rs551700317 2236 dbSNP
rs1330230365 2240 dbSNP
rs974713305 2254 dbSNP
rs188707878 2255 dbSNP
rs1411214248 2256 dbSNP
rs1182380163 2261 dbSNP
rs935330763 2263 dbSNP
rs1239540065 2277 dbSNP
rs531189776 2285 dbSNP
rs930738041 2292 dbSNP
rs146432675 2298 dbSNP
rs1223531495 2299 dbSNP
rs1052408391 2303 dbSNP
rs193268094 2306 dbSNP
rs1285018213 2311 dbSNP
rs1338910417 2316 dbSNP
rs1008068969 2319 dbSNP
rs906109738 2320 dbSNP
rs149085077 2327 dbSNP
rs899624371 2333 dbSNP
rs1294437875 2334 dbSNP
rs182449425 2335 dbSNP
rs892765383 2359 dbSNP
rs8184527 2367 dbSNP
rs539190837 2391 dbSNP
rs1419996531 2392 dbSNP
rs1381607248 2395 dbSNP
rs1020015798 2397 dbSNP
rs1187921837 2399 dbSNP
rs547091345 2401 dbSNP
rs371223838 2404 dbSNP
rs1169162749 2405 dbSNP
rs1267996557 2408 dbSNP
rs142372153 2411 dbSNP
rs1035332697 2412 dbSNP
rs1237003201 2417 dbSNP
rs776847148 2418 dbSNP
rs973928707 2422 dbSNP
rs6059869 2423 dbSNP
rs1302979246 2428 dbSNP
rs1400199396 2439 dbSNP
rs6059870 2455 dbSNP
rs1326098305 2461 dbSNP
rs371049888 2483 dbSNP
rs1280306306 2487 dbSNP
rs1295754752 2490 dbSNP
rs1318784813 2491 dbSNP
rs1452440727 2506 dbSNP
rs1378062996 2507 dbSNP
rs1178131104 2514 dbSNP
rs980034894 2519 dbSNP
rs983514730 2520 dbSNP
rs117939015 2522 dbSNP
rs1222971837 2524 dbSNP
rs1265629734 2528 dbSNP
rs775822059 2531 dbSNP
rs950300973 2532 dbSNP
rs1256727897 2537 dbSNP
rs759402655 2537 dbSNP
rs1052492078 2545 dbSNP
rs905990026 2546 dbSNP
rs763557574 2549 dbSNP
rs112780405 2553 dbSNP
rs944050329 2558 dbSNP
rs1039589353 2559 dbSNP
rs1219653522 2568 dbSNP
rs1341922027 2569 dbSNP
rs1292998659 2571 dbSNP
rs1260714303 2572 dbSNP
rs145651410 2583 dbSNP
rs1402277480 2585 dbSNP
rs1304125112 2591 dbSNP
rs892819205 2592 dbSNP
rs1263448182 2595 dbSNP
rs995333322 2597 dbSNP
rs1048732563 2598 dbSNP
rs138185573 2605 dbSNP
rs1399968072 2607 dbSNP
rs886958432 2608 dbSNP
rs574553266 2609 dbSNP
rs1173547667 2617 dbSNP
rs1427855170 2618 dbSNP
rs539986384 2619 dbSNP
rs1009893338 2625 dbSNP
rs1384754419 2632 dbSNP
rs112353302 2634 dbSNP
rs1428195652 2635 dbSNP
rs1380885248 2639 dbSNP
rs1300349704 2640 dbSNP
rs1341303006 2645 dbSNP
rs1256918903 2651 dbSNP
rs1404412628 2651 dbSNP
rs1308956379 2652 dbSNP
rs1320439853 2652 dbSNP
rs75946530 2652 dbSNP
rs1268844237 2662 dbSNP
rs1226209463 2663 dbSNP
rs1281405669 2665 dbSNP
rs1332780641 2667 dbSNP
rs1003939716 2671 dbSNP
rs1381863676 2675 dbSNP
rs1260040556 2676 dbSNP
rs890877354 2680 dbSNP
rs764404291 2682 dbSNP
rs1167152999 2686 dbSNP
rs1218500960 2686 dbSNP
rs1461638829 2687 dbSNP
rs1369295527 2690 dbSNP
rs1189635423 2694 dbSNP
rs1442858028 2706 dbSNP
rs1286301787 2710 dbSNP
rs1035439700 2714 dbSNP
rs1179795716 2717 dbSNP
rs1490073126 2722 dbSNP
rs1271281633 2725 dbSNP
rs1196679082 2742 dbSNP
rs1008512682 2746 dbSNP
rs959659463 2751 dbSNP
rs1012620889 2756 dbSNP
rs1266850067 2760 dbSNP
rs1243403598 2762 dbSNP
rs1018115921 2768 dbSNP
rs963808895 2769 dbSNP
rs995404012 2773 dbSNP
rs1023883832 2776 dbSNP
rs1333943241 2783 dbSNP
rs1200283875 2788 dbSNP
rs970075661 2789 dbSNP
rs1363717349 2791 dbSNP
rs1452104490 2795 dbSNP
rs1391633553 2801 dbSNP
rs201608283 2802 dbSNP
rs1160753109 2803 dbSNP
rs1361440581 2805 dbSNP
rs1026832080 2808 dbSNP
rs559808804 2819 dbSNP
rs1384661455 2828 dbSNP
rs1159370279 2829 dbSNP
rs1471418454 2839 dbSNP
rs979722914 2840 dbSNP
rs186799736 2850 dbSNP
rs983400226 2864 dbSNP
rs141428912 2871 dbSNP
rs971511750 2880 dbSNP
rs751928124 2882 dbSNP
rs1306272778 2890 dbSNP
rs1241717499 2891 dbSNP
rs1348387945 2913 dbSNP
rs6059873 2916 dbSNP
rs866279600 2919 dbSNP
rs937463085 2922 dbSNP
rs6120664 2936 dbSNP
rs1301113264 2943 dbSNP
rs1054740954 2946 dbSNP
rs975409227 2960 dbSNP
rs921178151 2962 dbSNP
rs1328332042 2964 dbSNP
rs6059874 2969 dbSNP
rs36118790 2978 dbSNP
rs1158484854 2982 dbSNP
rs1048324043 2987 dbSNP
rs1478671898 2990 dbSNP
rs945733769 2990 dbSNP
rs886901500 2999 dbSNP
rs1194683313 3002 dbSNP
rs1490071301 3007 dbSNP
rs939842179 3010 dbSNP
rs1056892162 3011 dbSNP
rs895605257 3012 dbSNP
rs1444771490 3015 dbSNP
rs1283010591 3017 dbSNP
rs1180920253 3022 dbSNP
rs191635249 3023 dbSNP
rs750504962 3025 dbSNP
rs1222694959 3030 dbSNP
rs184116188 3040 dbSNP
rs904209350 3041 dbSNP
rs530311510 3042 dbSNP
rs1343487678 3043 dbSNP
rs1317776411 3046 dbSNP
rs1276712441 3047 dbSNP
rs1408973065 3050 dbSNP
rs1174663026 3061 dbSNP
rs188871367 3069 dbSNP
rs956862785 3070 dbSNP
rs6088509 3071 dbSNP
rs539087241 3083 dbSNP
rs965462596 3090 dbSNP
rs1462557617 3091 dbSNP
rs1261191787 3095 dbSNP
rs138911493 3117 dbSNP
rs375264775 3120 dbSNP
rs1331920063 3131 dbSNP
rs1259808919 3134 dbSNP
rs1216518067 3141 dbSNP
rs927344895 3149 dbSNP
rs1381854145 3155 dbSNP
rs1243485576 3159 dbSNP
rs1314452269 3160 dbSNP
rs1321881644 3161 dbSNP
rs1226093987 3162 dbSNP
rs1335317806 3163 dbSNP
rs1345535141 3163 dbSNP
rs1469788041 3163 dbSNP
rs397865119 3163 dbSNP
rs5841079 3163 dbSNP
rs1249058009 3164 dbSNP
rs931331889 3165 dbSNP
rs79990511 3166 dbSNP
rs1240799704 3179 dbSNP
rs74430772 3180 dbSNP
rs914865332 3183 dbSNP
rs946283125 3193 dbSNP
rs984409807 3195 dbSNP
rs912241180 3196 dbSNP
rs1169982867 3202 dbSNP
rs943677532 3208 dbSNP
rs1272571041 3216 dbSNP
rs1247083656 3218 dbSNP
rs1039477392 3219 dbSNP
rs1421630086 3223 dbSNP
rs569222160 3224 dbSNP
rs1452506125 3233 dbSNP
rs1378328552 3240 dbSNP
rs1467245717 3248 dbSNP
rs1332029401 3251 dbSNP
rs939830846 3255 dbSNP
rs899576474 3256 dbSNP
rs1057009131 3263 dbSNP
rs567508705 3272 dbSNP
rs895667528 3292 dbSNP
rs1162411577 3297 dbSNP
rs985690876 3305 dbSNP
rs758385767 3320 dbSNP
rs1292954574 3326 dbSNP
rs886910148 3329 dbSNP
rs1218694335 3341 dbSNP
rs1247132326 3347 dbSNP
rs1004147907 3349 dbSNP
rs948429773 3352 dbSNP
rs375829018 3372 dbSNP
rs554846614 3380 dbSNP
rs1317984470 3384 dbSNP
rs1222631204 3394 dbSNP
rs1274994888 3396 dbSNP
rs1323367912 3399 dbSNP
rs367978207 3402 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gacCUAACUUCUCUUUUGgguu 5'
             |:|||   || :|:|    
Target 5' ggaGGUUG--CAGUGAGC---- 3'
10 - 25
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 GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000335574.5 | 3UTR | CCAAGAGGCGGAGGUUGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084078
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb
Location of target site ENST00000335574.5 | 3UTR | CCAAGAGGCGGAGGUUGCAGUGAGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
62 hsa-miR-6839-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059162 TXNIP thioredoxin interacting protein 2 2
MIRT064872 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT065802 HOXC8 homeobox C8 2 4
MIRT106005 SDCBP syndecan binding protein 2 2
MIRT275773 TFDP1 transcription factor Dp-1 2 2
MIRT314032 PAPD7 poly(A) RNA polymerase D7, non-canonical 2 2
MIRT360277 HIST1H2BE histone cluster 1 H2B family member e 2 8
MIRT360301 HIST1H2BH histone cluster 1 H2B family member h 2 2
MIRT450086 OR2A4 olfactory receptor family 2 subfamily A member 4 2 2
MIRT468815 RSRC2 arginine and serine rich coiled-coil 2 2 6
MIRT475093 IRF2BP2 interferon regulatory factor 2 binding protein 2 2 4
MIRT477575 EIF1AD eukaryotic translation initiation factor 1A domain containing 2 2
MIRT483926 LCORL ligand dependent nuclear receptor corepressor like 2 6
MIRT504381 HIST1H1C histone cluster 1 H1 family member c 2 4
MIRT506970 HNRNPUL1 heterogeneous nuclear ribonucleoprotein U like 1 2 6
MIRT507028 HIST1H3B histone cluster 1 H3 family member b 2 6
MIRT511561 HIST3H2BB histone cluster 3 H2B family member b 2 4
MIRT511650 HIST1H3D histone cluster 1 H3 family member d 2 6
MIRT511696 HIST1H2BL histone cluster 1 H2B family member l 2 4
MIRT511737 HIST1H2BB histone cluster 1 H2B family member b 2 6
MIRT511746 HIST1H2BA histone cluster 1 H2B family member a 2 8
MIRT515260 CSNK1E casein kinase 1 epsilon 2 2
MIRT516220 RAB3B RAB3B, member RAS oncogene family 2 4
MIRT523281 HIST1H1E histone cluster 1 H1 family member e 2 2
MIRT524121 DMXL1 Dmx like 1 2 2
MIRT530744 GPR82 G protein-coupled receptor 82 2 2
MIRT532214 CCDC117 coiled-coil domain containing 117 2 2
MIRT546182 TPRG1L tumor protein p63 regulated 1 like 2 2
MIRT558638 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT559562 ARF1 ADP ribosylation factor 1 2 4
MIRT560680 HIST1H1T histone cluster 1 H1 family member t 2 2
MIRT570746 AAK1 AP2 associated kinase 1 2 2
MIRT609518 RAB3IP RAB3A interacting protein 2 2
MIRT612583 SYNGAP1 synaptic Ras GTPase activating protein 1 2 4
MIRT615733 RIOK3 RIO kinase 3 2 2
MIRT616068 SIX1 SIX homeobox 1 2 2
MIRT617903 SGCD sarcoglycan delta 2 2
MIRT620851 SERPING1 serpin family G member 1 2 2
MIRT625107 SLC1A5 solute carrier family 1 member 5 2 2
MIRT625120 NUP93 nucleoporin 93 2 2
MIRT625893 LINC00632 long intergenic non-protein coding RNA 632 2 2
MIRT626569 MED7 mediator complex subunit 7 2 2
MIRT626694 ZFP14 ZFP14 zinc finger protein 2 4
MIRT626808 PRR11 proline rich 11 2 2
MIRT628131 HM13 histocompatibility minor 13 2 2
MIRT636596 DCAF5 DDB1 and CUL4 associated factor 5 2 2
MIRT649866 SLFN12L schlafen family member 12 like 2 2
MIRT652133 TRPM7 transient receptor potential cation channel subfamily M member 7 2 2
MIRT652663 TIMELESS timeless circadian clock 2 2
MIRT658335 FAM83D family with sequence similarity 83 member D 2 2
MIRT660615 ANKS4B ankyrin repeat and sterile alpha motif domain containing 4B 2 2
MIRT666304 SLC22A3 solute carrier family 22 member 3 2 2
MIRT668528 ERGIC2 ERGIC and golgi 2 2 2
MIRT692510 PARD3 par-3 family cell polarity regulator 2 2
MIRT694784 DHFRL1 dihydrofolate reductase 2 2 2
MIRT700510 PTPN14 protein tyrosine phosphatase, non-receptor type 14 2 2
MIRT701438 NFYA nuclear transcription factor Y subunit alpha 2 2
MIRT710155 MTRF1L mitochondrial translational release factor 1 like 2 2
MIRT711436 DLC1 DLC1 Rho GTPase activating protein 2 2
MIRT716979 GPR155 G protein-coupled receptor 155 2 2
MIRT720155 POU2F2 POU class 2 homeobox 2 2 2
MIRT722512 DSTYK dual serine/threonine and tyrosine protein kinase 2 2

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