pre-miRNA Information
pre-miRNA hsa-mir-4436b-1   
Genomic Coordinates chr2: 110086433 - 110086523
Description Homo sapiens miR-4436b-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4436b-2   
Genomic Coordinates chr2: 110284853 - 110284943
Description Homo sapiens miR-4436b-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4436b-3p
Sequence 60| CAGGGCAGGAAGAAGUGGACAA |81
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs760150076 9 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SDC2   
Synonyms CD362, HSPG, HSPG1, SYND2
Description syndecan 2
Transcript NM_002998   
Expression
Putative miRNA Targets on SDC2
3'UTR of SDC2
(miRNA target sites are highlighted)
>SDC2|NM_002998|3'UTR
   1 AACTCCAACTTAGTGTCTCTATTTATGAGATCACTGAACTTTTCAAAATAAAGCTTTTGCATAGAATAATGAAGATCTTT
  81 GTTTTTTGTTTTCATTAAAGAGCCATTCTGGCACTTTAATGATAAAATCCCATTGTATTTAAAACATTTCATGTATTTCT
 161 TTAGAACAACATAAAATTAAAATTTAACATCTGCAGTGTTCTGTGAATAGCAGTGGCAAAATATTATGTTATGAAAACCC
 241 TCGATGTTCATGGAATTGGTTTAAACTTTTATGCGCAAATACAAAATGATTGTCTTTTTCCTATGACTCAAAGATGAAAG
 321 CTGTTTCATTTGTGTCAGCATGTCTCAGATTGACCTTACCAAGTTGGTCTTACTTTGTTAATTTATCTGTTGTCCCCTTC
 401 CTCTCCTCTGCCCTCCCTTCTTGTGCCCTTAAAACCAAACCCTATGCCTTTTGTAGCTGTCATGGTGCAATTTGTCTTTG
 481 GAAAATTCAGATAATGGTAATTTAGTGTATATGTGATTTTCAAATATGTAAACTTTAACTTCCACTTTGTATAAATTTTT
 561 AAGTGTCAGACTATCCATTTTACACTTGCTTTATTTTTCATTACCTGTAGCTTTGGGCAGATTTGCAACAGCAAATTAAT
 641 GTGTAAAATTGGATTATTACTACAAAACCGTTTAGTCATATCTATCTAATCAGATCTTCTTTTGGGAGGATTTGATGTAA
 721 GTTACTGACAAGCCTCAGCAAACCCAAAGATGTTAACAGTATTTTAAGAAGTTGCTGCAGATTCCTTTGGCCACTGTATT
 801 TGTTAATTTCTTGCAATTTGAAGGTACGAGTAGAGGTTTAAAGAAAAATCAGTTTTTGTTCTTAAAAATGCATTTAAGTT
 881 GTAAACGTCTTTTTAAGCCTTTGAAGTGCCTCTGATTCTATGTAACTTGTTGCAGACTGGTGTTAATGAGTATATGTAAC
 961 AGTTTAAAAAAAAAGTTGGTATTTTATAAGCACAGACAATTCTAATGGTAACTTTTGTAGTCTTATGAATAGACATAAAT
1041 TGTAATTTGGGAACATAAAAACTACTGAATAAATCATGTGGCCTAATATTGAAAATGTCACTGTTATAAATTTTGTACAT
1121 TTTTGATCAAATGTACATCTCCCCTTTGCTAACGGCCGTCTGCTCTCAAGGATGACGTGGGTTTGATTTCTAAGTGTTTC
1201 ACAGTGTCTGTAAATCAAGACCAAAGAGCCTGTCGATGAGACTGTTTATTACCAGATTCACTTCTGAATTGGCCAGAGGA
1281 AATCTGAATGTATTATCCTGTGTGTGTCTAGGTAGAGATATTGGAAGGCTGCCAGGGGATTTCGAAGTTTGCAACCTTTA
1361 TAGGATAACTGATGGCAATATTAAGACAGACGCCTGCTTTTGCAAATAACTTACAAGACTGTAAATTCCAAAGATCTGAA
1441 TGGGGCTTTCCTGATGTTGGTATCTAAGGCTTAGGCCTATAGATTGATTTACCTTTGGAATTGTGCTCCAAATGTCTACT
1521 GAAGCTTAACCGAAGAACTAATAAATGGACTACAGTAGCTCACGTTACAGGGAAGGAGGGTAGGCAGGGAGGCTCTGTGT
1601 GTTAAAATGAGGGTCTCACTGCTTTAGGATTGAAGTGGCTGGAAAGAGTGATGCCTGGGGAAGGAGATGGAGTTATGAGG
1681 GTACTGTGGCTGGTACTTTCTGTACTAAACATTTCCTTTTTCTATTTTACCACTAATTTTGTTTTAAACTGTGAGCCGTC
1761 CAAGTCAGAAGAAGACAGCAAAAAAAGCAACTTTTCCAACATACAATTTACTTTTAATAAAGTATGAATATTTCATTTTG
1841 AGAACATTCCCTGGAATTGCCACATAATTCATTAAAAACATTTTTTTAAGCAACACTTGGAACAGTGTTTACTTTAAATC
1921 CTTAATGGCCTTAATTAATTCTCAGATTCCTGCCCCATCACTTACAGAACCAATTCACTTTAGAGTGACTAAAAGGAAAC
2001 GATAGCCTAGCTTTCTAAAGCCACGCTGTGTCCCTCAATTACAGAGGGTAGGAATGGGTATACCTCTAACTGTGCAAAGC
2081 AGAGTGAAATTCAATTCATAGAATAACAACTGCTGGGAATATCCGTGCCAGGAAAAGAAAAATTTCTGGCAAATATTTTG
2161 TCACTGCTGTAAAGCAAAATATTTGTGAAAGTGCCAAAATAAAGTCTGTCATGCCAAAAGTAAATCATTGTATAGACTGA
2241 CATCCAGTTTTCTTCAACTGT
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' aaCAGGUGAAGAAG----GACGGGAc 5'
            |||| |||| ||    ||||||| 
Target 5' ttGTCCCCTTCCTCTCCTCTGCCCTc 3'
390 - 415 170.00 -22.20
2
miRNA  3' aacAGGUGAAGAAGGACGGGac 5'
             |:| |   |||||||||  
Target 5' taaTTCTCAGATTCCTGCCCca 3'
1936 - 1957 139.00 -16.70
3
miRNA  3' aacAGGUGAA--GA-------AGGACGGGAc 5'
             ||| |||  ||        :||||:|| 
Target 5' atcTCCCCTTTGCTAACGGCCGTCTGCTCTc 3'
1137 - 1167 129.00 -12.62
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30517048 8 COSMIC
COSN30456542 15 COSMIC
COSN30191078 60 COSMIC
COSN31492347 62 COSMIC
COSN31605885 78 COSMIC
COSN29862494 86 COSMIC
COSN31614503 87 COSMIC
COSN30518969 88 COSMIC
COSN15267434 146 COSMIC
COSN31528712 148 COSMIC
COSN5692937 156 COSMIC
COSN30111305 181 COSMIC
COSN31563963 192 COSMIC
COSN26640864 194 COSMIC
COSN31534155 211 COSMIC
COSN8291502 225 COSMIC
COSN4884532 243 COSMIC
COSN216726 321 COSMIC
COSN31487082 340 COSMIC
COSN9689757 508 COSMIC
COSN28201056 590 COSMIC
COSN28417009 594 COSMIC
COSN6371272 680 COSMIC
COSN8519664 778 COSMIC
COSN31571694 887 COSMIC
COSN24294977 963 COSMIC
COSN8519665 973 COSMIC
COSN19659962 975 COSMIC
COSN30231754 977 COSMIC
COSN26555775 1021 COSMIC
COSN27726359 1158 COSMIC
COSN30165057 1159 COSMIC
COSN26576260 1166 COSMIC
COSN30545423 1169 COSMIC
COSN31489316 1201 COSMIC
COSN31553744 1265 COSMIC
COSN31585676 1344 COSMIC
COSN26564729 1393 COSMIC
COSN26638817 1461 COSMIC
COSN31515406 1465 COSMIC
COSN8519666 1475 COSMIC
COSN31539733 1564 COSMIC
COSN31583410 1596 COSMIC
COSN30538236 1654 COSMIC
COSN8329465 1698 COSMIC
COSN25670096 1772 COSMIC
COSN31585054 1851 COSMIC
COSN31517940 1884 COSMIC
COSN5240381 1941 COSMIC
COSN31604149 2138 COSMIC
COSN26555776 2150 COSMIC
COSN31555221 2212 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1401246075 2 dbSNP
rs1174109112 3 dbSNP
rs778389836 8 dbSNP
rs1234244492 9 dbSNP
rs1313794812 10 dbSNP
rs749588523 12 dbSNP
rs1196928212 13 dbSNP
rs771396875 16 dbSNP
rs774704175 18 dbSNP
rs747603137 20 dbSNP
rs752534316 20 dbSNP
rs759853427 23 dbSNP
rs777907481 33 dbSNP
rs1042403 34 dbSNP
rs1181214234 39 dbSNP
rs923316771 43 dbSNP
rs969915958 50 dbSNP
rs980345799 55 dbSNP
rs1284554263 61 dbSNP
rs955098870 62 dbSNP
rs983726608 68 dbSNP
rs573261061 73 dbSNP
rs1445355726 82 dbSNP
rs962634476 82 dbSNP
rs548787501 83 dbSNP
rs907995040 84 dbSNP
rs918241340 89 dbSNP
rs933675994 92 dbSNP
rs1400183446 98 dbSNP
rs146402363 101 dbSNP
rs910964385 104 dbSNP
rs1471952445 106 dbSNP
rs1417472442 109 dbSNP
rs1189053550 113 dbSNP
rs1486896571 117 dbSNP
rs1261636817 121 dbSNP
rs1215717226 122 dbSNP
rs942170489 125 dbSNP
rs373986380 145 dbSNP
rs541367180 152 dbSNP
rs942847720 155 dbSNP
rs1037908119 160 dbSNP
rs1226207726 164 dbSNP
rs1378776494 165 dbSNP
rs561048921 169 dbSNP
rs193156116 171 dbSNP
rs543261902 172 dbSNP
rs768557943 172 dbSNP
rs1342871295 181 dbSNP
rs1269466079 189 dbSNP
rs563451451 191 dbSNP
rs1431396384 194 dbSNP
rs1204513298 208 dbSNP
rs904089308 212 dbSNP
rs1320396057 214 dbSNP
rs1273901226 222 dbSNP
rs1482018575 224 dbSNP
rs1046462904 225 dbSNP
rs1237797040 227 dbSNP
rs1165999224 228 dbSNP
rs148590352 234 dbSNP
rs1052664786 241 dbSNP
rs1391488956 244 dbSNP
rs906207835 247 dbSNP
rs551839705 251 dbSNP
rs896483126 258 dbSNP
rs558950598 259 dbSNP
rs999810514 275 dbSNP
rs560790084 276 dbSNP
rs1023682404 288 dbSNP
rs1467694710 289 dbSNP
rs866325484 293 dbSNP
rs893758391 294 dbSNP
rs1273415221 302 dbSNP
rs547746704 302 dbSNP
rs1010684031 304 dbSNP
rs568668166 312 dbSNP
rs1294623578 315 dbSNP
rs1018089407 322 dbSNP
rs1335314834 323 dbSNP
rs1358901705 328 dbSNP
rs1446114903 332 dbSNP
rs1273072758 338 dbSNP
rs964743612 345 dbSNP
rs537700559 349 dbSNP
rs1030711330 357 dbSNP
rs1366182083 359 dbSNP
rs775524219 363 dbSNP
rs1016798466 367 dbSNP
rs962563044 369 dbSNP
rs1227825467 372 dbSNP
rs183403899 374 dbSNP
rs1312385354 388 dbSNP
rs1253089486 390 dbSNP
rs1195069011 394 dbSNP
rs1456188656 395 dbSNP
rs774624287 397 dbSNP
rs1204950685 402 dbSNP
rs1309098287 403 dbSNP
rs529784071 407 dbSNP
rs1233478166 417 dbSNP
rs955026920 418 dbSNP
rs1304278451 428 dbSNP
rs986878853 429 dbSNP
rs973548841 437 dbSNP
rs942462077 438 dbSNP
rs1441566325 441 dbSNP
rs1201531550 445 dbSNP
rs1172248848 447 dbSNP
rs1434677274 448 dbSNP
rs1395111784 451 dbSNP
rs916767181 453 dbSNP
rs947752485 464 dbSNP
rs1046151091 471 dbSNP
rs188460795 492 dbSNP
rs768432187 496 dbSNP
rs935005749 505 dbSNP
rs1052562345 510 dbSNP
rs539975429 511 dbSNP
rs1481454757 513 dbSNP
rs868681512 531 dbSNP
rs1387744828 534 dbSNP
rs377450806 534 dbSNP
rs1479305276 551 dbSNP
rs896746030 555 dbSNP
rs1173617625 571 dbSNP
rs1236584564 572 dbSNP
rs949381706 575 dbSNP
rs748915266 577 dbSNP
rs946656551 590 dbSNP
rs1224551226 591 dbSNP
rs1375930804 594 dbSNP
rs1311467304 600 dbSNP
rs553483606 605 dbSNP
rs1376563076 609 dbSNP
rs1315429016 611 dbSNP
rs1450924489 615 dbSNP
rs1362712078 619 dbSNP
rs1159328723 629 dbSNP
rs905254888 631 dbSNP
rs1039485634 632 dbSNP
rs1413174340 636 dbSNP
rs1186915959 640 dbSNP
rs899682701 644 dbSNP
rs1485913119 646 dbSNP
rs996623172 656 dbSNP
rs573349511 664 dbSNP
rs74385761 670 dbSNP
rs535867188 671 dbSNP
rs114021902 672 dbSNP
rs1260254508 674 dbSNP
rs574647686 676 dbSNP
rs898326548 677 dbSNP
rs774327956 679 dbSNP
rs994002582 679 dbSNP
rs150662081 685 dbSNP
rs761520784 687 dbSNP
rs1025531862 695 dbSNP
rs561247811 699 dbSNP
rs764692169 700 dbSNP
rs1381054608 708 dbSNP
rs969582322 717 dbSNP
rs1383548704 724 dbSNP
rs1288917038 730 dbSNP
rs1454928373 733 dbSNP
rs1391826661 737 dbSNP
rs986458219 743 dbSNP
rs1018338581 746 dbSNP
rs1235331551 752 dbSNP
rs1419771293 754 dbSNP
rs1190892206 760 dbSNP
rs1427872441 766 dbSNP
rs963775466 771 dbSNP
rs1344201981 776 dbSNP
rs979142878 778 dbSNP
rs925074084 790 dbSNP
rs563371375 795 dbSNP
rs1221513343 799 dbSNP
rs1466364703 819 dbSNP
rs375281497 828 dbSNP
rs935101355 829 dbSNP
rs987804019 835 dbSNP
rs988277653 836 dbSNP
rs1225754370 837 dbSNP
rs914924314 844 dbSNP
rs1326321636 847 dbSNP
rs1297000554 850 dbSNP
rs1207661315 852 dbSNP
rs1383398896 855 dbSNP
rs1259076936 856 dbSNP
rs1452772129 859 dbSNP
rs1368169284 864 dbSNP
rs1198932904 871 dbSNP
rs1246684538 873 dbSNP
rs545564102 876 dbSNP
rs1324727854 877 dbSNP
rs946604207 887 dbSNP
rs549641392 888 dbSNP
rs1165918944 894 dbSNP
rs1045335850 899 dbSNP
rs1373570400 910 dbSNP
rs1195316796 911 dbSNP
rs1413096631 913 dbSNP
rs1039597530 917 dbSNP
rs1251249141 919 dbSNP
rs899797771 921 dbSNP
rs1269782712 930 dbSNP
rs1469055413 930 dbSNP
rs1194430166 932 dbSNP
rs933829412 937 dbSNP
rs192645093 957 dbSNP
rs1157131607 963 dbSNP
rs1252348297 966 dbSNP
rs1393140328 966 dbSNP
rs942046962 967 dbSNP
rs1037789613 992 dbSNP
rs1302095856 995 dbSNP
rs1441068175 1005 dbSNP
rs772686606 1008 dbSNP
rs1326524019 1009 dbSNP
rs897948416 1020 dbSNP
rs1396949195 1025 dbSNP
rs1169536490 1026 dbSNP
rs1394455501 1035 dbSNP
rs528132757 1035 dbSNP
rs1173052175 1040 dbSNP
rs993989588 1042 dbSNP
rs865980214 1043 dbSNP
rs1179941998 1061 dbSNP
rs890527054 1066 dbSNP
rs1251732006 1087 dbSNP
rs1005394220 1090 dbSNP
rs1484964607 1091 dbSNP
rs35808360 1092 dbSNP
rs1014904011 1093 dbSNP
rs1280294502 1102 dbSNP
rs1290012105 1107 dbSNP
rs1234384213 1108 dbSNP
rs899168233 1110 dbSNP
rs1346584064 1121 dbSNP
rs994879122 1126 dbSNP
rs890981456 1138 dbSNP
rs1237914625 1142 dbSNP
rs762399940 1148 dbSNP
rs766899419 1154 dbSNP
rs547877565 1155 dbSNP
rs139922056 1158 dbSNP
rs561718362 1159 dbSNP
rs1357995826 1163 dbSNP
rs1427361738 1163 dbSNP
rs1000526048 1164 dbSNP
rs1209968780 1172 dbSNP
rs17788084 1173 dbSNP
rs1364648959 1177 dbSNP
rs755310207 1178 dbSNP
rs1184750550 1191 dbSNP
rs1257420649 1194 dbSNP
rs956483289 1200 dbSNP
rs879030166 1205 dbSNP
rs1281549333 1217 dbSNP
rs987859500 1218 dbSNP
rs914868828 1221 dbSNP
rs1204084953 1223 dbSNP
rs1184884067 1224 dbSNP
rs1253006380 1225 dbSNP
rs1472502555 1227 dbSNP
rs1180101778 1228 dbSNP
rs1289903572 1229 dbSNP
rs1231212147 1231 dbSNP
rs1370459245 1232 dbSNP
rs946381692 1235 dbSNP
rs1293757822 1239 dbSNP
rs760531769 1243 dbSNP
rs975080846 1264 dbSNP
rs921176278 1265 dbSNP
rs1316285575 1272 dbSNP
rs933924901 1273 dbSNP
rs1400234313 1285 dbSNP
rs1161729434 1298 dbSNP
rs1460152066 1299 dbSNP
rs1417601889 1317 dbSNP
rs1189205240 1318 dbSNP
rs538288054 1318 dbSNP
rs183753308 1320 dbSNP
rs981394017 1322 dbSNP
rs752931039 1333 dbSNP
rs761136674 1340 dbSNP
rs188215822 1344 dbSNP
rs1036446973 1345 dbSNP
rs1229870436 1347 dbSNP
rs899283706 1355 dbSNP
rs929353064 1361 dbSNP
rs1276323165 1369 dbSNP
rs1051862676 1373 dbSNP
rs144019196 1374 dbSNP
rs756330543 1377 dbSNP
rs1322734448 1379 dbSNP
rs764445108 1380 dbSNP
rs1460090658 1387 dbSNP
rs529971205 1392 dbSNP
rs905423353 1393 dbSNP
rs114610397 1397 dbSNP
rs1000474074 1398 dbSNP
rs1475417472 1406 dbSNP
rs1249379631 1411 dbSNP
rs1191311389 1415 dbSNP
rs1031990460 1416 dbSNP
rs956389488 1419 dbSNP
rs1035163312 1420 dbSNP
rs1253283708 1420 dbSNP
rs1194487441 1422 dbSNP
rs957097178 1426 dbSNP
rs1258641679 1433 dbSNP
rs1223489102 1434 dbSNP
rs1424644808 1439 dbSNP
rs1272138216 1453 dbSNP
rs1009241291 1459 dbSNP
rs1342916195 1460 dbSNP
rs1024731604 1461 dbSNP
rs1383474155 1462 dbSNP
rs1438851680 1467 dbSNP
rs191170843 1480 dbSNP
rs115357976 1483 dbSNP
rs1371146435 1507 dbSNP
rs926857664 1508 dbSNP
rs1328721476 1511 dbSNP
rs184725023 1516 dbSNP
rs1296273760 1519 dbSNP
rs1392622847 1521 dbSNP
rs749401212 1531 dbSNP
rs975028622 1532 dbSNP
rs1396264254 1533 dbSNP
rs973670145 1536 dbSNP
rs919231299 1538 dbSNP
rs920947184 1540 dbSNP
rs1311640415 1541 dbSNP
rs1380118451 1544 dbSNP
rs1205015868 1547 dbSNP
rs1230028941 1552 dbSNP
rs1297667304 1555 dbSNP
rs575578901 1564 dbSNP
rs556259158 1565 dbSNP
rs1232159186 1573 dbSNP
rs557244005 1580 dbSNP
rs146454220 1583 dbSNP
rs1347260696 1587 dbSNP
rs1302162430 1593 dbSNP
rs1221184340 1596 dbSNP
rs1371566246 1598 dbSNP
rs1372943527 1603 dbSNP
rs1249367334 1604 dbSNP
rs912019406 1614 dbSNP
rs1433500372 1617 dbSNP
rs1225824151 1618 dbSNP
rs943860117 1619 dbSNP
rs545600670 1627 dbSNP
rs1416966143 1637 dbSNP
rs552700190 1643 dbSNP
rs1345444819 1644 dbSNP
rs1406839823 1649 dbSNP
rs987128935 1651 dbSNP
rs908495155 1659 dbSNP
rs1039566969 1661 dbSNP
rs899728041 1663 dbSNP
rs1255240467 1666 dbSNP
rs552013015 1669 dbSNP
rs1000712363 1672 dbSNP
rs572646608 1677 dbSNP
rs892096328 1681 dbSNP
rs1315321257 1682 dbSNP
rs920660266 1694 dbSNP
rs981953798 1695 dbSNP
rs541896781 1696 dbSNP
rs1025139291 1697 dbSNP
rs1389592280 1703 dbSNP
rs906313112 1706 dbSNP
rs930735836 1710 dbSNP
rs1379204623 1715 dbSNP
rs1304044596 1722 dbSNP
rs1451077649 1725 dbSNP
rs1168164419 1737 dbSNP
rs777139476 1743 dbSNP
rs1002766954 1747 dbSNP
rs1033829548 1748 dbSNP
rs199532218 1750 dbSNP
rs963553083 1750 dbSNP
rs1045047268 1751 dbSNP
rs565642991 1757 dbSNP
rs1003761571 1758 dbSNP
rs768395964 1759 dbSNP
rs1209606988 1760 dbSNP
rs1436764253 1772 dbSNP
rs1320677361 1775 dbSNP
rs1363738976 1777 dbSNP
rs892751332 1779 dbSNP
rs543857361 1780 dbSNP
rs1233113318 1786 dbSNP
rs1341585310 1786 dbSNP
rs1022441395 1787 dbSNP
rs747800749 1805 dbSNP
rs1360661530 1806 dbSNP
rs561566217 1807 dbSNP
rs374833997 1813 dbSNP
rs771637322 1813 dbSNP
rs996565697 1817 dbSNP
rs1233050700 1818 dbSNP
rs769505289 1825 dbSNP
rs955216724 1826 dbSNP
rs1053590491 1836 dbSNP
rs1370104868 1849 dbSNP
rs530506352 1850 dbSNP
rs986518506 1858 dbSNP
rs1247531734 1863 dbSNP
rs543837695 1865 dbSNP
rs945026066 1866 dbSNP
rs1251438286 1870 dbSNP
rs1209599937 1879 dbSNP
rs1357509133 1879 dbSNP
rs1046090262 1881 dbSNP
rs1247509143 1881 dbSNP
rs906211812 1881 dbSNP
rs1414246433 1882 dbSNP
rs908442725 1888 dbSNP
rs1297665605 1889 dbSNP
rs1230026506 1893 dbSNP
rs961308604 1905 dbSNP
rs546528313 1908 dbSNP
rs973878963 1919 dbSNP
rs995043163 1922 dbSNP
rs552983708 1931 dbSNP
rs919772828 1931 dbSNP
rs1461444535 1938 dbSNP
rs1026559508 1946 dbSNP
rs950972663 1951 dbSNP
rs1451468724 1958 dbSNP
rs1393439206 1960 dbSNP
rs190229892 1965 dbSNP
rs981267622 1966 dbSNP
rs182138041 1968 dbSNP
rs1426891462 1982 dbSNP
rs1458491030 1983 dbSNP
rs926768967 1984 dbSNP
rs939338867 1986 dbSNP
rs547218254 1992 dbSNP
rs567068811 1998 dbSNP
rs1229959144 2001 dbSNP
rs554763216 2002 dbSNP
rs1273812258 2003 dbSNP
rs1428119127 2007 dbSNP
rs765299078 2008 dbSNP
rs974818604 2010 dbSNP
rs892698590 2013 dbSNP
rs1332560737 2015 dbSNP
rs186740305 2025 dbSNP
rs577732607 2026 dbSNP
rs1371071215 2028 dbSNP
rs1309785921 2029 dbSNP
rs140769735 2049 dbSNP
rs1373739610 2054 dbSNP
rs1404841170 2061 dbSNP
rs569223385 2063 dbSNP
rs1281779939 2064 dbSNP
rs538254042 2065 dbSNP
rs1172161943 2066 dbSNP
rs1478465488 2070 dbSNP
rs913804879 2073 dbSNP
rs1180100794 2074 dbSNP
rs201726524 2081 dbSNP
rs1253092199 2085 dbSNP
rs1267817889 2092 dbSNP
rs1207928890 2093 dbSNP
rs772807356 2094 dbSNP
rs945291313 2095 dbSNP
rs1277332174 2099 dbSNP
rs1315320116 2101 dbSNP
rs1346651623 2105 dbSNP
rs557825946 2112 dbSNP
rs1258663713 2113 dbSNP
rs570413668 2125 dbSNP
rs1028483068 2126 dbSNP
rs539343976 2130 dbSNP
rs1412878181 2133 dbSNP
rs1054878538 2134 dbSNP
rs1333552546 2135 dbSNP
rs552787490 2135 dbSNP
rs1266057521 2136 dbSNP
rs189955513 2138 dbSNP
rs1198515972 2140 dbSNP
rs890908142 2143 dbSNP
rs1266524071 2148 dbSNP
rs1473482672 2150 dbSNP
rs1008290884 2151 dbSNP
rs1406839482 2154 dbSNP
rs1413204062 2157 dbSNP
rs1184910440 2162 dbSNP
rs762454847 2163 dbSNP
rs563637887 2164 dbSNP
rs1474501563 2181 dbSNP
rs117561533 2184 dbSNP
rs1187639613 2188 dbSNP
rs1166338121 2192 dbSNP
rs1443652380 2194 dbSNP
rs1259143913 2195 dbSNP
rs143182739 2197 dbSNP
rs1207746599 2205 dbSNP
rs1329536700 2207 dbSNP
rs973996730 2212 dbSNP
rs1026781909 2225 dbSNP
rs1047947547 2227 dbSNP
rs537531036 2229 dbSNP
rs969878526 2231 dbSNP
rs1284768971 2232 dbSNP
rs746180207 2237 dbSNP
rs1372945661 2241 dbSNP
rs926686110 2242 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
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 GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' aaCAGGUGAAGAAGGACGGGAc 5'
            |||| |||| | || |:|| 
Target 5' uuGUCCCCUUCCU-CUCCUCUg 3'
13 - 33
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_002998 | 3UTR | AUUUAUCUGUUGUCCCCUUCCUCUCCUCUGCCCUCCCUUCUUGUGCCCUUAAAACCAAACCCUAUGCCUUUUGUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_002998 | 3UTR | UCUUACUUUGUUAAUUUAUCUGUUGUCCCCUUCCUCUCCUCUGCCCUCCCUUCUUGUGCCCUUAAAACCAAACCCUAUGCCUUUUGUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_002998 | 3UTR | GUUGUCCCCUUCCUCUCCUCUGCCCUCCCUUCUUGUGCCCUUAAAACCAAACCCUAUGCCUUUUGUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_002998 | 3UTR | GUCCCCUUCCUCUCCUCUGCCCUCCCUUCUUGUGCCCUUAAAACCAAACCCUAUGCCUUUUGUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000302190.4 | 3UTR | UUAAUUUAUCUGUUGUCCCCUUCCUCUCCUCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
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
87 hsa-miR-4436b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT066957 ATXN7L3B ataxin 7 like 3B 2 8
MIRT119284 NABP1 nucleic acid binding protein 1 2 6
MIRT128915 KMT2A lysine methyltransferase 2A 2 2
MIRT150116 MIDN midnolin 2 2
MIRT173040 YTHDF3 YTH N6-methyladenosine RNA binding protein 3 2 2
MIRT253117 BCL2L12 BCL2 like 12 2 2
MIRT256997 RGMB repulsive guidance molecule family member b 2 2
MIRT259746 SNX12 sorting nexin 12 2 2
MIRT267278 TMEM109 transmembrane protein 109 2 2
MIRT441934 C1orf109 chromosome 1 open reading frame 109 2 2
MIRT443625 CPSF2 cleavage and polyadenylation specific factor 2 2 2
MIRT445757 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT447835 CTIF cap binding complex dependent translation initiation factor 2 2
MIRT451230 ZNF444 zinc finger protein 444 2 2
MIRT451966 TMPRSS5 transmembrane protease, serine 5 2 2
MIRT453127 HOXC4 homeobox C4 2 2
MIRT454604 RPL13A ribosomal protein L13a 2 2
MIRT455176 SUV39H1 suppressor of variegation 3-9 homolog 1 2 2
MIRT455547 GJB1 gap junction protein beta 1 2 2
MIRT458197 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT458356 NOC2L NOC2 like nucleolar associated transcriptional repressor 2 2
MIRT458923 DNM2 dynamin 2 2 2
MIRT461013 SYT7 synaptotagmin 7 2 2
MIRT461643 ZSWIM4 zinc finger SWIM-type containing 4 2 2
MIRT461997 PACSIN1 protein kinase C and casein kinase substrate in neurons 1 2 2
MIRT462367 BCL7B BCL tumor suppressor 7B 2 2
MIRT464915 TXNIP thioredoxin interacting protein 2 2
MIRT466311 TIMM22 translocase of inner mitochondrial membrane 22 2 2
MIRT466591 TBC1D2B TBC1 domain family member 2B 2 2
MIRT467045 SRSF1 serine and arginine rich splicing factor 1 2 2
MIRT468750 SDC2 syndecan 2 2 2
MIRT468943 RPS24 ribosomal protein S24 2 2
MIRT469474 REEP5 receptor accessory protein 5 2 2
MIRT469913 PTRF caveolae associated protein 1 2 2
MIRT473325 MEX3A mex-3 RNA binding family member A 2 2
MIRT473643 MARK2 microtubule affinity regulating kinase 2 2 2
MIRT474064 LMNB2 lamin B2 2 2
MIRT474357 KMT2D lysine methyltransferase 2D 2 2
MIRT475394 ICMT isoprenylcysteine carboxyl methyltransferase 2 4
MIRT476335 GLTSCR1L BRD4 interacting chromatin remodeling complex associated protein like 2 2
MIRT478651 CTDNEP1 CTD nuclear envelope phosphatase 1 2 2
MIRT479585 CDC42SE1 CDC42 small effector 1 2 2
MIRT479943 CBX5 chromobox 5 2 2
MIRT482001 AMOTL2 angiomotin like 2 2 2
MIRT482043 AMER1 APC membrane recruitment protein 1 2 2
MIRT483070 EXT2 exostosin glycosyltransferase 2 2 6
MIRT484323 KCNH1 potassium voltage-gated channel subfamily H member 1 2 4
MIRT487528 GXYLT2 glucoside xylosyltransferase 2 2 2
MIRT489636 ALS2CL ALS2 C-terminal like 2 2
MIRT490693 SSTR1 somatostatin receptor 1 2 2
MIRT490871 UPK2 uroplakin 2 2 2
MIRT492582 PPM1L protein phosphatase, Mg2+/Mn2+ dependent 1L 2 2
MIRT492945 NEUROD2 neuronal differentiation 2 2 2
MIRT498675 SOD2 superoxide dismutase 2 2 4
MIRT499349 RAB25 RAB25, member RAS oncogene family 2 2
MIRT502338 GIGYF1 GRB10 interacting GYF protein 1 2 4
MIRT502976 CCNL1 cyclin L1 2 8
MIRT503706 NUP62 nucleoporin 62 2 2
MIRT505567 SMUG1 single-strand-selective monofunctional uracil-DNA glycosylase 1 2 2
MIRT507808 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT513242 FBXO41 F-box protein 41 2 6
MIRT513586 EVX1 even-skipped homeobox 1 2 2
MIRT525036 FRK fyn related Src family tyrosine kinase 2 2
MIRT531035 TDGF1P3 teratocarcinoma-derived growth factor 1 pseudogene 3 2 2
MIRT531939 RBMS2 RNA binding motif single stranded interacting protein 2 2 2
MIRT534912 PUM2 pumilio RNA binding family member 2 2 2
MIRT535717 N4BP1 NEDD4 binding protein 1 2 2
MIRT540498 ZMAT4 zinc finger matrin-type 4 2 4
MIRT541465 AURKA aurora kinase A 2 2
MIRT554328 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT561572 SLC6A9 solute carrier family 6 member 9 2 2
MIRT564715 ZNF322P1 zinc finger protein 322 pseudogene 1 2 2
MIRT576176 Hmox1 heme oxygenase 1 2 2
MIRT629712 XKR4 XK related 4 2 2
MIRT636182 THBD thrombomodulin 2 2
MIRT646315 MPHOSPH8 M-phase phosphoprotein 8 2 2
MIRT649174 IQSEC1 IQ motif and Sec7 domain 1 2 2
MIRT666945 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT684057 FOLR1 folate receptor 1 2 2
MIRT687585 MAU2 MAU2 sister chromatid cohesion factor 2 2
MIRT689953 ZNF185 zinc finger protein 185 with LIM domain 2 2
MIRT704071 SRCAP Snf2 related CREBBP activator protein 2 2
MIRT704327 DCUN1D5 defective in cullin neddylation 1 domain containing 5 2 2
MIRT705406 ATP1B3 ATPase Na+/K+ transporting subunit beta 3 2 2
MIRT710488 CDH5 cadherin 5 2 2
MIRT718241 LCE1A late cornified envelope 1A 2 2
MIRT723182 CDCA4 cell division cycle associated 4 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4436b-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4436b-3p Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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