miRTarBase - #MIRT465036


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pre-miRNA Information
pre-miRNA hsa-mir-4464   
Genomic Coordinates chr6: 90312742 - 90312833
Description Homo sapiens miR-4464 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4464
Sequence 12| AAGGUUUGGAUAGAUGCAAUA |32
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 12 6 + 90312764 29233923 MiREDiBase
A-to-I 14 6 + 90312766 29233923 MiREDiBase
A-to-I 19 6 + 90312771 29233923 MiREDiBase
A-to-I 21 6 + 90312773 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1240632245 2 dbSNP
rs34899210 2 dbSNP
rs1003034046 13 dbSNP
rs1475351324 14 dbSNP
rs1257582329 17 dbSNP
rs1193587810 20 dbSNP
Putative Targets

Gene Information
Gene Symbol TTC39C   
Synonyms C18orf17, HsT2697
Description tetratricopeptide repeat domain 39C
Transcript NM_001135993   
Other Transcripts NM_153211   
Expression
Putative miRNA Targets on TTC39C
3'UTR of TTC39C
(miRNA target sites are highlighted)		 
>TTC39C|NM_001135993|3'UTR
   1 CAGACCCGGAACACCCGCTCCGTCCCTCCCCACCCAGGGTCCGCACTTTAAAATAAAAGCAGAGGACAAAGCTCTTGTGA
  81 AGATGGGCTTTTCTTCTGAAAACCACCTGTGCCAGGGACACATTTTCCCAGTTAAGCTGACATATTAAAGATCTCCTCTT
 161 TTAAACATGTAGCTGAAAAGTAATAATGATGTTGAGGAGGATGATGATGGTAATAATAACTAACCACCTGGGGAGAGGGT
 241 TAAGTGACCTTGCTCAAACGTTTTAGTTTTGTGATTTATTATTTTTAAAATAAAATCAAACGGAACATCCAACCCAAGAT
 321 CCTGTAGGAACACCTACCTTAAGCACATATCTGAATGGGTAACATGATGAGGTACCTGTAAAATTATTAACAATATCATG
 401 ACATAGCATTTATATTTGTGTTTTGAAAAAATAAAAGTGCTTTCTAGTGTTTTACTTTATCCTCAAAATACTCCAGTGAA
 481 TAACATAGCACAGATATTCTTAACCCCACTTTGCAGACAGTGAAACTCAGGCACAAAAAGGCAAATTGACTTATCCCAAT
 561 TAATTATTCCTGTTATCAGCAGAGCAATGAATAGAAAGCAGATCTCCTGACCACCAACTGACTTTTATTGTAAAAATAAT
 641 TCATGTTAATAGGCCAGAATTCCATGTTTTACTTATTAAAAGAACAAAATCTTCAGCTGAAGTTATGTCACCAGAAATAG
 721 TCATCTCCAGATTGTCTACAGAATGTTTCAAAGCGATGGACACTCTTTTTCCTTTGAAAGCCAACCAAGTAAGAGCAAAT
 801 ATTAATAGAAGATAATTTTACAACTAAAAGTGTGACTCTTTTGCTAATCTATTAGCCTAGTCTATAGATTAGACAAACAG
 881 TATCTACATTTTAGGAGTTTACCTTTCTTTGTGAAAATTGTCAAATTACCAACTTTTGGAAATCTTTTGACACATTACTT
 961 GAAAAGGTTATTCGTGAATGAACATAGATTTTGGCCTCAAAATATTTGCTGGTGGAACATTTGCTGGGCTACACAGTGCC
1041 AGGATTTAATCATTTTCCCCTTAGCTCAGGTTATTTAGATATTATACAAGGAATTCAAAGTTATTTTTTTATTCTTCATT
1121 GCTAATTTTTGTCATTTAATTTACCTCCATGCCCGGTACTGCAAACCTGTGGTTTTGAAGAATCTAAATACCTCAGTCAC
1201 TTTTAAGAATCTCTGCCATAATTTGGCTCAATGTTTAAGGTTAGATTTTTAAAGAAATTTTTATTGAGCTAAAGGATATC
1281 ATTTTAGGGTATCGTTTATTTACAAATTCTTTTGGCTGAAACATGATCTCATATTAATATTTTAATATTTCTTTTCAAAA
1361 TAAAACAGAAAAGCAAGTAGAATGTTGGCAAATTTTATCTGATTTGACCTTGTTTTGAGGGAATAGTCATAATTTCTTTG
1441 AAAGAAGTTATTTCTCACTGATTTTGGCTAAACAGTATTCATATTTCTTCATCTCTGTTACTGACCACTTTTCAGTAGAC
1521 TGTTTCCAAAATGTGTATTCACATTGACTTTCTCCCTGATGTGAATTCCGTGTGGGTTTTAGATAATAGTAAGAGAGAAG
1601 AGATTGCTCTCCTATATTCAGTGAATGAGAAGGGAACTTTTTTCTGAAGAGCAAAATTGGTGCCCAAAAATATTGGACAT
1681 CTGTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGC
1761 GTGATCTTGGCTCACTGCAACCTCTGCCTCCTGGGTTCACACCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTAC
1841 AGGCACCCGCAACCACACCCGGCTAATTTTTTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTAGCCAGGATTGTC
1921 TCCATCTCCTGACCTCGTGATCCACCCGCCTTGGCCTCCCAAAGAGCTGGGATTACTGGTGTGAGCCACCGTGCCCGGCC
2001 TGGACATCTGGTTTTAACTAGATGGAAGGGAAGAACATTATGAATCTTTAAAATACGGCTGTTGCCATTTTTCTCTCTTC
2081 TTAACATGCAGCATAGGTGACAAGCTTTTCTGTCATCATCATGGAGCATTCTGAATCATGACATTTTTGTTTGAGAGTTC
2161 ATTCTTGAATTTTCAGTTCAAAATATTGTTTGAACTATTATTCCACATTCAAAGATTATATAAGGTCCTGTGCTTTTGAA
2241 TCTTTTTCAAAACATTTATTTCTGCCTGCTTAAAAAAAATACTTTTATTTCCCCACAGAGAGTTCAGGACTTCAGATTAG
2321 TTTGTGTTCAGCTCACTTAACTGGATAGACAATTTTGCGTTTTGCAACACCATCCTGTAGGTTTTCTTTACTAGTCAAAG
2401 TGTAGGTCTTTTTAAAATTTTTAATCTTTATTTTTATTTTTATTTTGAAACAGAGTCTCACTCTGTTGCCCAGGCTGGAG
2481 TGCAGTGGTGTGATCTGTGCTCACTGCAACCTCTGTCACCCGGGTTTAAGCGATTCTTCTGCCTGAGCCTCCCAAGTAGC
2561 TGGGATTACAAGTTCCTGCCACCGTGCCTGGCTAATTTTTGCAGTTTTAGTAGAGGCAGGGTTCCACCACCTTGGCCAGG
2641 CTGGTCTTGAACTCCTGACCTCATGATCCACCCACCTTGTCCTCTCAAAATGCTTACAGGCATGAACCACTGTGACCGGC
2721 CAGGTCTTTTTTTTTTTAAAGAGTCTATCCTAGGCTTGGTACAGATGGCGCCTGTGGTAAATCTGTGTTAACATGGTGGT
2801 AGACCATGGAGAATGGGTAGATGGAGCTTCTAGACTCCAAAACAACAAAACCACAGTGTGAGTACACTGTCCCATTAGGT
2881 TGACTGAAGTCTGAGTACATTTTCTGGCCTGCGTGCCGTGACTTATCCAACCTGTGAACTGATTGTGATCTGCTTGGTAA
2961 CTTGGTTTGGTGTAAACTGCTCTTAACCCTTTGCTGATGAAGAAAATAATCATATAAGTGGAACTATTTGCATCTAAAAA
3041 AAAAAAAAA
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' auaacguagAU-AGGUUUGGAa 5'
                   || | ||||||| 
Target 5' catgcccggTACTGCAAACCTg 3'
 1148 - 1169 144.00 -9.10
2 
miRNA  3' auAACGUAGAUA-GGUUUGGAa 5'
            | ||: ||:|  :|||:|| 
Target 5' gaTGGCGCCTGTGGTAAATCTg 3'
 2764 - 2785 123.00 -9.80
3 
miRNA  3' auaACGUAGAUAGGUUUGGAa 5'
             || | :||| | ||||| 
Target 5' ccgTG-ACTTAT-CCAACCTg 3'
 2916 - 2934 120.00 -10.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31563721 5 COSMIC
COSN27000407 8 COSMIC
COSN28790687 17 COSMIC
COSN30450259 21 COSMIC
COSN30167135 22 COSMIC
COSN511329 23 COSMIC
COSN30450168 35 COSMIC
COSN30180365 42 COSMIC
COSN16413274 51 COSMIC
COSN28640179 83 COSMIC
COSN30185625 118 COSMIC
COSN25305976 298 COSMIC
COSN9328047 483 COSMIC
COSN20247893 695 COSMIC
COSN6116111 987 COSMIC
COSN22753667 1083 COSMIC
COSN16817914 1097 COSMIC
COSN16844142 1134 COSMIC
COSN16818121 1199 COSMIC
COSN16843995 1230 COSMIC
COSN9328048 1300 COSMIC
COSN16844386 1329 COSMIC
COSN8248583 1429 COSMIC
COSN30539021 1437 COSMIC
COSN31577156 1487 COSMIC
COSN20054606 1549 COSMIC
COSN20114798 1682 COSMIC
COSN27230400 1687 COSMIC
COSN25991028 1688 COSMIC
COSN20114800 1691 COSMIC
COSN30552917 1708 COSMIC
COSN17181701 1808 COSMIC
COSN9328049 2086 COSMIC
COSN28232579 2491 COSMIC
COSN17962739 2547 COSMIC
COSN27382097 2738 COSMIC
COSN27486343 2738 COSMIC
COSN19655923 2739 COSMIC
COSN31520884 2742 COSMIC
COSN31540356 2896 COSMIC
COSN26677722 2919 COSMIC
COSN31961410 2921 COSMIC
COSN31551762 2928 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs769913052 6 dbSNP
rs756180429 7 dbSNP
rs766451277 8 dbSNP
rs202129133 9 dbSNP
rs758286275 10 dbSNP
rs1299738602 15 dbSNP
rs76450357 17 dbSNP
rs201275114 18 dbSNP
rs1323796358 19 dbSNP
rs780990322 22 dbSNP
rs371932283 23 dbSNP
rs369918334 29 dbSNP
rs1163389824 32 dbSNP
rs187918854 40 dbSNP
rs368148244 43 dbSNP
rs774972936 44 dbSNP
rs1251774728 45 dbSNP
rs1223918715 46 dbSNP
rs767934627 47 dbSNP
rs1490968556 49 dbSNP
rs568700566 50 dbSNP
rs62089641 73 dbSNP
rs1244157901 75 dbSNP
rs1489162293 81 dbSNP
rs1309396541 94 dbSNP
rs1226390288 98 dbSNP
rs1349684025 105 dbSNP
rs930797266 112 dbSNP
rs1363563437 113 dbSNP
rs1292500439 123 dbSNP
rs955332998 123 dbSNP
rs796515347 128 dbSNP
rs1156450528 130 dbSNP
rs1472034740 139 dbSNP
rs1411711129 141 dbSNP
rs191858324 142 dbSNP
rs948971367 143 dbSNP
rs1362187484 162 dbSNP
rs1320756950 169 dbSNP
rs767481957 191 dbSNP
rs1209370708 192 dbSNP
rs550638687 203 dbSNP
rs772949397 211 dbSNP
rs1159814829 217 dbSNP
rs1207083214 221 dbSNP
rs1328680759 222 dbSNP
rs1283687402 228 dbSNP
rs964682072 229 dbSNP
rs1329328710 230 dbSNP
rs1007564387 232 dbSNP
rs1362788474 239 dbSNP
rs184154616 240 dbSNP
rs1286555261 260 dbSNP
rs559923718 260 dbSNP
rs1052177413 261 dbSNP
rs1033063706 272 dbSNP
rs1387051093 275 dbSNP
rs112907260 278 dbSNP
rs750598282 282 dbSNP
rs1471149245 288 dbSNP
rs1376476468 291 dbSNP
rs1198816889 293 dbSNP
rs760537905 296 dbSNP
rs1333512872 299 dbSNP
rs989010348 300 dbSNP
rs892260781 302 dbSNP
rs1464668024 303 dbSNP
rs1263972018 313 dbSNP
rs950358329 314 dbSNP
rs1011075790 322 dbSNP
rs982082172 338 dbSNP
rs1228086865 340 dbSNP
rs1019754509 344 dbSNP
rs1022094037 349 dbSNP
rs926984355 350 dbSNP
rs1219976347 360 dbSNP
rs1433699165 361 dbSNP
rs1264704859 366 dbSNP
rs888960202 368 dbSNP
rs539934052 374 dbSNP
rs548692398 387 dbSNP
rs1400544417 389 dbSNP
rs1172299360 390 dbSNP
rs1248455348 394 dbSNP
rs1375280277 409 dbSNP
rs1166854763 412 dbSNP
rs1448914260 414 dbSNP
rs372937960 421 dbSNP
rs1018839580 426 dbSNP
rs1185685335 433 dbSNP
rs1440855917 439 dbSNP
rs1255225501 441 dbSNP
rs536147965 444 dbSNP
rs898267323 446 dbSNP
rs556132828 459 dbSNP
rs966002538 465 dbSNP
rs376328546 467 dbSNP
rs890938202 469 dbSNP
rs1008186261 472 dbSNP
rs1018141293 481 dbSNP
rs544794145 486 dbSNP
rs188327629 489 dbSNP
rs1392318888 492 dbSNP
rs1026352240 493 dbSNP
rs780007625 497 dbSNP
rs985296100 506 dbSNP
rs996134960 507 dbSNP
rs1032948724 508 dbSNP
rs1385964901 510 dbSNP
rs1165012658 536 dbSNP
rs765886062 541 dbSNP
rs957462287 547 dbSNP
rs1458067419 552 dbSNP
rs948926125 553 dbSNP
rs1439308512 558 dbSNP
rs1294950845 560 dbSNP
rs1204379572 564 dbSNP
rs1397430941 576 dbSNP
rs989288402 586 dbSNP
rs1309438809 597 dbSNP
rs9965422 599 dbSNP
rs1226111379 604 dbSNP
rs928906622 612 dbSNP
rs971968611 613 dbSNP
rs193197493 614 dbSNP
rs1352744065 626 dbSNP
rs1286790883 628 dbSNP
rs1322141741 634 dbSNP
rs559890974 645 dbSNP
rs528922280 655 dbSNP
rs1366730218 656 dbSNP
rs1052061401 662 dbSNP
rs1249846371 663 dbSNP
rs1403659388 664 dbSNP
rs1390344218 665 dbSNP
rs548849567 666 dbSNP
rs532369628 676 dbSNP
rs1457319099 679 dbSNP
rs892133715 688 dbSNP
rs946457649 689 dbSNP
rs927534036 690 dbSNP
rs1043883509 691 dbSNP
rs888935399 703 dbSNP
rs1007375058 705 dbSNP
rs1181828909 708 dbSNP
rs1270940783 712 dbSNP
rs973747974 724 dbSNP
rs754649157 725 dbSNP
rs1414925110 728 dbSNP
rs1425941623 735 dbSNP
rs1326569271 737 dbSNP
rs1166388619 738 dbSNP
rs1266701974 738 dbSNP
rs372960180 740 dbSNP
rs1421017373 742 dbSNP
rs1346754281 748 dbSNP
rs562470339 755 dbSNP
rs993375656 756 dbSNP
rs1204411583 757 dbSNP
rs1464834860 758 dbSNP
rs929768211 762 dbSNP
rs1459026504 763 dbSNP
rs1026247576 764 dbSNP
rs1401898190 765 dbSNP
rs1158218044 766 dbSNP
rs1470104100 773 dbSNP
rs9957536 776 dbSNP
rs1189428400 788 dbSNP
rs1006290115 792 dbSNP
rs1477626430 806 dbSNP
rs890997460 807 dbSNP
rs1023501956 809 dbSNP
rs970245009 812 dbSNP
rs1267077585 824 dbSNP
rs1208544174 827 dbSNP
rs1324760016 828 dbSNP
rs1229821216 831 dbSNP
rs1293255386 837 dbSNP
rs981647727 852 dbSNP
rs899776429 860 dbSNP
rs1317506236 863 dbSNP
rs1000707651 868 dbSNP
rs1363348523 869 dbSNP
rs1320103119 871 dbSNP
rs1453600878 880 dbSNP
rs1360703100 882 dbSNP
rs1219529913 887 dbSNP
rs928791834 901 dbSNP
rs551896152 904 dbSNP
rs1173620476 916 dbSNP
rs960745 919 dbSNP
rs893109099 927 dbSNP
rs989075081 929 dbSNP
rs1321547180 974 dbSNP
rs752298982 975 dbSNP
rs1246837634 980 dbSNP
rs1183847946 981 dbSNP
rs140597970 984 dbSNP
rs1483996083 984 dbSNP
rs1020779606 990 dbSNP
rs913544153 999 dbSNP
rs144562327 1001 dbSNP
rs1238563328 1014 dbSNP
rs1274294303 1014 dbSNP
rs758938023 1022 dbSNP
rs1003062193 1029 dbSNP
rs1296901585 1033 dbSNP
rs1247001983 1050 dbSNP
rs1034488624 1075 dbSNP
rs1300930633 1081 dbSNP
rs958972218 1083 dbSNP
rs1262985389 1090 dbSNP
rs1355085372 1091 dbSNP
rs974305205 1095 dbSNP
rs1477275882 1103 dbSNP
rs1389027144 1104 dbSNP
rs919634327 1110 dbSNP
rs79103214 1113 dbSNP
rs777536578 1115 dbSNP
rs566738807 1116 dbSNP
rs1180525994 1119 dbSNP
rs982436531 1126 dbSNP
rs1252939418 1129 dbSNP
rs550126580 1145 dbSNP
rs568700111 1148 dbSNP
rs912301525 1150 dbSNP
rs1274014199 1151 dbSNP
rs535882358 1155 dbSNP
rs901699510 1156 dbSNP
rs993354148 1157 dbSNP
rs59530034 1159 dbSNP
rs1373818252 1168 dbSNP
rs11877735 1172 dbSNP
rs1053627580 1174 dbSNP
rs1296092128 1176 dbSNP
rs1303295859 1180 dbSNP
rs1347797411 1230 dbSNP
rs1458972817 1230 dbSNP
rs1006669325 1232 dbSNP
rs1163673706 1234 dbSNP
rs182522157 1236 dbSNP
rs186842784 1239 dbSNP
rs970091628 1240 dbSNP
rs1251705664 1245 dbSNP
rs1191889765 1247 dbSNP
rs1365496383 1257 dbSNP
rs148878010 1265 dbSNP
rs1263710777 1268 dbSNP
rs536434567 1275 dbSNP
rs1330012406 1282 dbSNP
rs1002946027 1290 dbSNP
rs142542703 1294 dbSNP
rs573278783 1295 dbSNP
rs1285711821 1302 dbSNP
rs1388403593 1310 dbSNP
rs1488836654 1317 dbSNP
rs1364904678 1319 dbSNP
rs1034543670 1323 dbSNP
rs34468889 1323 dbSNP
rs72352648 1323 dbSNP
rs1264881732 1331 dbSNP
rs556512032 1331 dbSNP
rs1476874369 1341 dbSNP
rs989043708 1346 dbSNP
rs1161895090 1348 dbSNP
rs1190106179 1352 dbSNP
rs1455949790 1357 dbSNP
rs1425319176 1362 dbSNP
rs1416067583 1367 dbSNP
rs995794081 1367 dbSNP
rs1156809824 1378 dbSNP
rs1265365373 1380 dbSNP
rs914835418 1392 dbSNP
rs1359605722 1400 dbSNP
rs1250111448 1403 dbSNP
rs967731136 1409 dbSNP
rs979545257 1413 dbSNP
rs1299878847 1424 dbSNP
rs910219736 1429 dbSNP
rs1310292186 1435 dbSNP
rs1300068739 1440 dbSNP
rs1329552009 1458 dbSNP
rs1435167812 1460 dbSNP
rs191726117 1470 dbSNP
rs982872148 1472 dbSNP
rs1275484192 1475 dbSNP
rs1040120258 1477 dbSNP
rs1433844912 1481 dbSNP
rs923092131 1487 dbSNP
rs929172303 1497 dbSNP
rs912198517 1500 dbSNP
rs1173458784 1505 dbSNP
rs965528903 1506 dbSNP
rs1376416697 1510 dbSNP
rs1047633859 1524 dbSNP
rs887732020 1536 dbSNP
rs1392055910 1540 dbSNP
rs1238553539 1547 dbSNP
rs1006141205 1549 dbSNP
rs1464566892 1553 dbSNP
rs1256601465 1554 dbSNP
rs1201953738 1559 dbSNP
rs1309193379 1560 dbSNP
rs1044757373 1562 dbSNP
rs1255315132 1570 dbSNP
rs1354778738 1571 dbSNP
rs1343711721 1577 dbSNP
rs1227224402 1584 dbSNP
rs905876202 1584 dbSNP
rs1053516935 1592 dbSNP
rs1219237269 1592 dbSNP
rs1398135507 1603 dbSNP
rs1290111491 1604 dbSNP
rs1002934657 1608 dbSNP
rs913826833 1612 dbSNP
rs1392114862 1629 dbSNP
rs1166722260 1638 dbSNP
rs183510548 1642 dbSNP
rs1663514 1645 dbSNP
rs1220423946 1653 dbSNP
rs1421799439 1655 dbSNP
rs891954693 1656 dbSNP
rs1478737795 1658 dbSNP
rs576631960 1664 dbSNP
rs1203799769 1666 dbSNP
rs1356676839 1668 dbSNP
rs1285563062 1673 dbSNP
rs1484354162 1674 dbSNP
rs1292998897 1680 dbSNP
rs1339097551 1680 dbSNP
rs150961977 1681 dbSNP
rs1165250156 1682 dbSNP
rs1306320674 1682 dbSNP
rs1367684746 1682 dbSNP
rs1369248247 1682 dbSNP
rs1372938529 1682 dbSNP
rs1391773183 1682 dbSNP
rs1379611674 1683 dbSNP
rs1042139583 1684 dbSNP
rs1157953046 1684 dbSNP
rs1159698924 1684 dbSNP
rs1182625147 1684 dbSNP
rs1196122607 1684 dbSNP
rs1209792385 1684 dbSNP
rs1229381383 1684 dbSNP
rs1248235079 1684 dbSNP
rs1273019243 1684 dbSNP
rs1286966957 1684 dbSNP
rs1325534449 1684 dbSNP
rs1331771275 1684 dbSNP
rs1355125093 1684 dbSNP
rs1403880355 1684 dbSNP
rs1409443240 1684 dbSNP
rs1412157140 1684 dbSNP
rs1450735711 1684 dbSNP
rs1458592863 1684 dbSNP
rs1478280665 1684 dbSNP
rs373854050 1684 dbSNP
rs751032770 1684 dbSNP
rs1266570584 1685 dbSNP
rs1331693782 1685 dbSNP
rs1223722016 1686 dbSNP
rs1346325065 1686 dbSNP
rs112724867 1687 dbSNP
rs1434377176 1687 dbSNP
rs1370588254 1688 dbSNP
rs1385224385 1688 dbSNP
rs1386196272 1689 dbSNP
rs139665498 1689 dbSNP
rs71163663 1689 dbSNP
rs1415033991 1690 dbSNP
rs866775860 1690 dbSNP
rs1190133196 1691 dbSNP
rs1390211766 1691 dbSNP
rs1453233980 1691 dbSNP
rs1491431431 1691 dbSNP
rs4800548 1691 dbSNP
rs907184028 1691 dbSNP
rs1160215528 1693 dbSNP
rs1240789962 1693 dbSNP
rs1388362591 1694 dbSNP
rs1281316990 1695 dbSNP
rs1404949527 1696 dbSNP
rs1003000047 1697 dbSNP
rs1324487596 1698 dbSNP
rs1230888858 1699 dbSNP
rs1351635453 1699 dbSNP
rs1444657270 1700 dbSNP
rs1330837203 1701 dbSNP
rs1360866113 1702 dbSNP
rs1448448453 1702 dbSNP
rs1010854547 1703 dbSNP
rs1433972273 1704 dbSNP
rs1021873440 1705 dbSNP
rs1299156679 1705 dbSNP
rs1447347891 1706 dbSNP
rs1282753711 1707 dbSNP
rs1356128640 1708 dbSNP
rs1227336125 1709 dbSNP
rs1290165186 1711 dbSNP
rs113195287 1712 dbSNP
rs1469588828 1712 dbSNP
rs1196194860 1713 dbSNP
rs969335417 1717 dbSNP
rs1458135024 1718 dbSNP
rs985735922 1718 dbSNP
rs1180469642 1719 dbSNP
rs1366452850 1720 dbSNP
rs1472354117 1723 dbSNP
rs1163988951 1724 dbSNP
rs1416221117 1731 dbSNP
rs564926926 1732 dbSNP
rs536694718 1734 dbSNP
rs1295086488 1735 dbSNP
rs1401171547 1740 dbSNP
rs964372246 1742 dbSNP
rs894530940 1743 dbSNP
rs1351021953 1747 dbSNP
rs770050898 1761 dbSNP
rs923059653 1762 dbSNP
rs929139804 1763 dbSNP
rs1449217943 1764 dbSNP
rs1416421975 1765 dbSNP
rs758996162 1769 dbSNP
rs1475199303 1772 dbSNP
rs1253132905 1775 dbSNP
rs769764899 1778 dbSNP
rs1027129501 1779 dbSNP
rs909055191 1780 dbSNP
rs140771873 1782 dbSNP
rs546759105 1784 dbSNP
rs1318030677 1786 dbSNP
rs1232435449 1789 dbSNP
rs1044338410 1793 dbSNP
rs1290172112 1794 dbSNP
rs905845284 1799 dbSNP
rs1372001799 1802 dbSNP
rs1438250634 1805 dbSNP
rs1004452634 1806 dbSNP
rs1019719676 1808 dbSNP
rs189545085 1809 dbSNP
rs965011382 1810 dbSNP
rs1187979876 1821 dbSNP
rs938691555 1822 dbSNP
rs1249914508 1824 dbSNP
rs1191833655 1825 dbSNP
rs193058781 1826 dbSNP
rs1489618318 1828 dbSNP
rs576228332 1838 dbSNP
rs1251341019 1839 dbSNP
rs1329636606 1845 dbSNP
rs549356829 1846 dbSNP
rs762865588 1849 dbSNP
rs1170272413 1850 dbSNP
rs1424361958 1852 dbSNP
rs1467260617 1861 dbSNP
rs1324835899 1862 dbSNP
rs4800549 1864 dbSNP
rs1402103888 1866 dbSNP
rs957745046 1867 dbSNP
rs1322890318 1868 dbSNP
rs538537109 1874 dbSNP
rs1336525164 1875 dbSNP
rs1338946056 1878 dbSNP
rs989733055 1879 dbSNP
rs1176936141 1891 dbSNP
rs751306319 1892 dbSNP
rs904700704 1893 dbSNP
rs1007536572 1895 dbSNP
rs1277199271 1896 dbSNP
rs556121372 1903 dbSNP
rs367876859 1904 dbSNP
rs1253795081 1908 dbSNP
rs1345146709 1909 dbSNP
rs1301991100 1915 dbSNP
rs894580035 1916 dbSNP
rs144591403 1918 dbSNP
rs754017608 1921 dbSNP
rs1298252566 1922 dbSNP
rs189970186 1924 dbSNP
rs1029957348 1927 dbSNP
rs1049066995 1929 dbSNP
rs1467980518 1933 dbSNP
rs1373718801 1935 dbSNP
rs950486490 1937 dbSNP
rs887263630 1938 dbSNP
rs1282142800 1940 dbSNP
rs1190807756 1943 dbSNP
rs983234096 1945 dbSNP
rs1193142636 1948 dbSNP
rs749399634 1949 dbSNP
rs573366683 1952 dbSNP
rs181442264 1953 dbSNP
rs1343910011 1954 dbSNP
rs1377180213 1957 dbSNP
rs996470803 1959 dbSNP
rs980412841 1966 dbSNP
rs927227374 1967 dbSNP
rs1313803897 1968 dbSNP
rs1417241504 1974 dbSNP
rs1354104208 1975 dbSNP
rs779626144 1978 dbSNP
rs1398672457 1980 dbSNP
rs753127285 1981 dbSNP
rs1461618804 1986 dbSNP
rs1466969696 1990 dbSNP
rs1368834405 1991 dbSNP
rs1027917655 1992 dbSNP
rs758882336 1993 dbSNP
rs1182765202 1994 dbSNP
rs1419490068 1994 dbSNP
rs374081519 1995 dbSNP
rs555690881 1997 dbSNP
rs1194881374 1998 dbSNP
rs989227259 1999 dbSNP
rs138543523 2001 dbSNP
rs1057114169 2004 dbSNP
rs891808547 2011 dbSNP
rs868716479 2012 dbSNP
rs946091278 2013 dbSNP
rs1293243778 2014 dbSNP
rs1360749247 2024 dbSNP
rs1410921950 2047 dbSNP
rs1337623060 2049 dbSNP
rs1314409221 2055 dbSNP
rs966563821 2055 dbSNP
rs535961577 2057 dbSNP
rs186124004 2058 dbSNP
rs142253449 2061 dbSNP
rs1330031630 2062 dbSNP
rs1366991911 2063 dbSNP
rs937890083 2076 dbSNP
rs1459708363 2081 dbSNP
rs991498038 2094 dbSNP
rs1159832839 2098 dbSNP
rs1473494606 2112 dbSNP
rs773212584 2113 dbSNP
rs1230746968 2121 dbSNP
rs915899068 2123 dbSNP
rs747356973 2127 dbSNP
rs1451876749 2136 dbSNP
rs1233818288 2143 dbSNP
rs931410750 2144 dbSNP
rs1211388991 2154 dbSNP
rs1048469287 2155 dbSNP
rs1007094401 2157 dbSNP
rs1351148309 2169 dbSNP
rs1229551384 2171 dbSNP
rs1039932288 2175 dbSNP
rs565214524 2176 dbSNP
rs887307450 2179 dbSNP
rs940209775 2187 dbSNP
rs770511265 2191 dbSNP
rs143884966 2196 dbSNP
rs901450878 2201 dbSNP
rs1328201475 2212 dbSNP
rs998401887 2226 dbSNP
rs527614113 2238 dbSNP
rs1393465639 2249 dbSNP
rs1320978226 2251 dbSNP
rs573261324 2253 dbSNP
rs11082962 2254 dbSNP
rs188533599 2256 dbSNP
rs1478085210 2258 dbSNP
rs764311184 2272 dbSNP
rs893471856 2272 dbSNP
rs1453347500 2273 dbSNP
rs1252835402 2284 dbSNP
rs1433860094 2284 dbSNP
rs1195980030 2286 dbSNP
rs1379001898 2287 dbSNP
rs77892285 2288 dbSNP
rs1020711626 2292 dbSNP
rs966825658 2297 dbSNP
rs1205009367 2311 dbSNP
rs1345823822 2332 dbSNP
rs1016044127 2334 dbSNP
rs1305636675 2346 dbSNP
rs1232454782 2347 dbSNP
rs963534637 2350 dbSNP
rs1365950634 2353 dbSNP
rs375168052 2359 dbSNP
rs569266806 2360 dbSNP
rs1317580306 2366 dbSNP
rs531772599 2368 dbSNP
rs1291449394 2369 dbSNP
rs1389312765 2395 dbSNP
rs959909413 2395 dbSNP
rs34452859 2397 dbSNP
rs913210953 2399 dbSNP
rs531318427 2405 dbSNP
rs946099643 2414 dbSNP
rs1193109166 2416 dbSNP
rs1374553707 2419 dbSNP
rs1282639091 2422 dbSNP
rs545388526 2423 dbSNP
rs745896114 2427 dbSNP
rs1318528352 2442 dbSNP
rs1242809935 2443 dbSNP
rs1359616652 2448 dbSNP
rs550333126 2452 dbSNP
rs1448749126 2453 dbSNP
rs774925205 2465 dbSNP
rs372423478 2474 dbSNP
rs1215625299 2477 dbSNP
rs554298913 2484 dbSNP
rs1433527424 2491 dbSNP
rs1370591293 2503 dbSNP
rs568588973 2522 dbSNP
rs915951426 2523 dbSNP
rs952734521 2525 dbSNP
rs1457683570 2532 dbSNP
rs1475850213 2533 dbSNP
rs1039814607 2534 dbSNP
rs984493359 2537 dbSNP
rs901364186 2540 dbSNP
rs1179848698 2541 dbSNP
rs998370494 2544 dbSNP
rs12607257 2547 dbSNP
rs761649704 2555 dbSNP
rs1004586604 2557 dbSNP
rs1291398487 2560 dbSNP
rs1367524953 2573 dbSNP
rs1016423905 2574 dbSNP
rs1461692615 2583 dbSNP
rs1350575333 2584 dbSNP
rs1299381572 2585 dbSNP
rs1439646410 2590 dbSNP
rs766745640 2602 dbSNP
rs565089916 2603 dbSNP
rs1001291967 2604 dbSNP
rs1328654818 2607 dbSNP
rs1034154787 2609 dbSNP
rs1462327003 2621 dbSNP
rs1420417910 2622 dbSNP
rs1163414262 2623 dbSNP
rs1133162 2625 dbSNP
rs575611529 2632 dbSNP
rs1408887636 2636 dbSNP
rs992724013 2641 dbSNP
rs1479807701 2645 dbSNP
rs140711593 2660 dbSNP
rs1214510393 2668 dbSNP
rs181339583 2676 dbSNP
rs1270966180 2690 dbSNP
rs1232672591 2692 dbSNP
rs572267192 2695 dbSNP
rs1308579512 2705 dbSNP
rs1298694339 2711 dbSNP
rs867190774 2718 dbSNP
rs1375173561 2719 dbSNP
rs1442583216 2722 dbSNP
rs1397142237 2725 dbSNP
rs1042426497 2727 dbSNP
rs375658371 2727 dbSNP
rs1161423816 2728 dbSNP
rs902275999 2731 dbSNP
rs373336972 2732 dbSNP
rs759743591 2739 dbSNP
rs540970724 2765 dbSNP
rs561061063 2766 dbSNP
rs1394068026 2767 dbSNP
rs942759923 2770 dbSNP
rs1003688933 2772 dbSNP
rs975487793 2775 dbSNP
rs922755557 2780 dbSNP
rs1395457230 2781 dbSNP
rs934188881 2783 dbSNP
rs1012202838 2785 dbSNP
rs185855791 2787 dbSNP
rs887405596 2794 dbSNP
rs543129229 2800 dbSNP
rs758655731 2805 dbSNP
rs562998134 2822 dbSNP
rs952015476 2838 dbSNP
rs1317396150 2845 dbSNP
rs1199753629 2855 dbSNP
rs941609701 2859 dbSNP
rs1363043848 2867 dbSNP
rs1291166455 2868 dbSNP
rs765416862 2873 dbSNP
rs1452191433 2874 dbSNP
rs572392235 2879 dbSNP
rs956862090 2881 dbSNP
rs1436873126 2888 dbSNP
rs1393471369 2892 dbSNP
rs1193200703 2894 dbSNP
rs908509725 2896 dbSNP
rs1428925606 2910 dbSNP
rs1235105714 2912 dbSNP
rs898838400 2913 dbSNP
rs551717404 2914 dbSNP
rs1001259341 2916 dbSNP
rs369195459 2918 dbSNP
rs976802874 2919 dbSNP
rs922809395 2924 dbSNP
rs1034122137 2926 dbSNP
rs932830675 2930 dbSNP
rs562721219 2931 dbSNP
rs758860507 2934 dbSNP
rs1014138116 2936 dbSNP
rs1381079252 2944 dbSNP
rs1340428157 2945 dbSNP
rs946932608 2957 dbSNP
rs138246384 2966 dbSNP
rs1373661262 2973 dbSNP
rs967288990 2978 dbSNP
rs547820834 2979 dbSNP
rs902155625 2982 dbSNP
rs1462631954 2983 dbSNP
rs1374645254 2996 dbSNP
rs1427895887 2999 dbSNP
rs567509096 2999 dbSNP
rs1356197835 3002 dbSNP
rs1056217036 3027 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' auaacguagAU-AGGUUUGGAa 5'
                   || | ||||||| 
Target 5' caugcccggUACUGCAAACCUg 3'
 		17 - 38
2 
miRNA  3' auaacguAGAUAGGUU---UGGAa 5'
                 || ||::||   |||| 
Target 5' -------UC-AUUUAAUUUACCUc 3'
 		1 - 16
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 GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000540918.2 | 3UTR | UCAUUUAAUUUACCUCCAUGCCCGGUACUGCAAACCUG
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
81 hsa-miR-4464 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT056004 ARL5B ADP ribosylation factor like GTPase 5B 2 2
MIRT061568 BTG2 BTG anti-proliferation factor 2 2 2
MIRT078651 ICT1 mitochondrial ribosomal protein L58 2 2
MIRT087551 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 4
MIRT088139 SEPT2 septin 2 2 4
MIRT095089 SEC24A SEC24 homolog A, COPII coat complex component 2 4
MIRT099065 FOXC1 forkhead box C1 2 4
MIRT150194 MIDN midnolin 2 2
MIRT178173 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 4
MIRT178942 C11ORF57 chromosome 11 open reading frame 57 2 2
MIRT188776 SESN2 sestrin 2 2 2
MIRT267026 EFHD2 EF-hand domain family member D2 2 2
MIRT307213 ACVR2B activin A receptor type 2B 2 2
MIRT324750 ACER2 alkaline ceramidase 2 2 2
MIRT442732 TEAD1 TEA domain transcription factor 1 2 2
MIRT444087 C12orf73 chromosome 12 open reading frame 73 2 2
MIRT445527 KLF9 Kruppel like factor 9 2 2
MIRT449604 INIP INTS3 and NABP interacting protein 2 2
MIRT451129 ZNF99 zinc finger protein 99 2 2
MIRT452271 RPL30 ribosomal protein L30 2 2
MIRT452486 DDX4 DEAD-box helicase 4 2 2
MIRT454868 DNAJC15 DnaJ heat shock protein family (Hsp40) member C15 2 6
MIRT455773 TSPAN6 tetraspanin 6 2 4
MIRT463844 WRN Werner syndrome RecQ like helicase 2 2
MIRT465036 TTC39C tetratricopeptide repeat domain 39C 2 2
MIRT465176 TRPV2 transient receptor potential cation channel subfamily V member 2 2 4
MIRT465294 TRIB3 tribbles pseudokinase 3 2 4
MIRT467931 SLC16A7 solute carrier family 16 member 7 2 2
MIRT471906 NUAK2 NUAK family kinase 2 2 2
MIRT472724 MTUS1 microtubule associated scaffold protein 1 2 6
MIRT479785 CCND1 cyclin D1 2 2
MIRT482446 ADM adrenomedullin 2 10
MIRT485365 MYLIP myosin regulatory light chain interacting protein 2 12
MIRT498399 KIF6 kinesin family member 6 2 2
MIRT503202 ACTB actin beta 2 6
MIRT503819 TMEM242 transmembrane protein 242 2 2
MIRT504706 ZNF117 zinc finger protein 117 2 2
MIRT507802 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT509968 KANSL1L KAT8 regulatory NSL complex subunit 1 like 2 4
MIRT517306 ELF4 E74 like ETS transcription factor 4 2 6
MIRT523900 ENPP6 ectonucleotide pyrophosphatase/phosphodiesterase 6 2 6
MIRT532018 NOX5 NADPH oxidase 5 2 2
MIRT535334 PHACTR2 phosphatase and actin regulator 2 2 2
MIRT536944 HCN4 hyperpolarization activated cyclic nucleotide gated potassium channel 4 2 4
MIRT539322 AHSA2 activator of HSP90 ATPase homolog 2 2 2
MIRT540189 GSTM4 glutathione S-transferase mu 4 2 2
MIRT545015 ZNF439 zinc finger protein 439 2 2
MIRT545265 TRIM36 tripartite motif containing 36 2 4
MIRT547230 PAG1 phosphoprotein membrane anchor with glycosphingolipid microdomains 1 2 4
MIRT548425 ELOVL5 ELOVL fatty acid elongase 5 2 2
MIRT549910 ADH4 alcohol dehydrogenase 4 (class II), pi polypeptide 2 2
MIRT550185 TMEM106C transmembrane protein 106C 2 2
MIRT550775 ENOX2 ecto-NOX disulfide-thiol exchanger 2 2 4
MIRT552401 ZNF487P zinc finger protein 487 1 1
MIRT554782 RHEBP1 RHEB pseudogene 1 2 4
MIRT557311 HIF1A hypoxia inducible factor 1 alpha subunit 2 2
MIRT558635 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT563168 RPS14 ribosomal protein S14 2 2
MIRT564886 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon 2 2
MIRT565778 SEPHS1 selenophosphate synthetase 1 2 2
MIRT566480 PDCD4 programmed cell death 4 2 2
MIRT567206 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT568931 SMCR8 Smith-Magenis syndrome chromosome region, candidate 8 2 2
MIRT570698 FBXO41 F-box protein 41 2 2
MIRT573474 MTRNR2L9 MT-RNR2-like 9 2 2
MIRT576170 Hmox1 heme oxygenase 1 2 2
MIRT607555 GLI2 GLI family zinc finger 2 2 2
MIRT608203 ERBB2 erb-b2 receptor tyrosine kinase 2 2 2
MIRT609779 VWC2L von Willebrand factor C domain containing protein 2 like 2 4
MIRT616312 CELF2 CUGBP Elav-like family member 2 2 2
MIRT617190 CDH13 cadherin 13 2 2
MIRT626842 RPLP1 ribosomal protein lateral stalk subunit P1 2 2
MIRT636438 MARCH1 membrane associated ring-CH-type finger 1 2 2
MIRT639101 GLIPR1L2 GLI pathogenesis related 1 like 2 2 2
MIRT691018 CRTC3 CREB regulated transcription coactivator 3 2 2
MIRT700008 RPS21 ribosomal protein S21 2 2
MIRT701144 PANK1 pantothenate kinase 1 2 2
MIRT712691 NUDT7 nudix hydrolase 7 2 2
MIRT715505 MAZ MYC associated zinc finger protein 2 2
MIRT722509 PTPRC protein tyrosine phosphatase, receptor type C 2 2
MIRT724982 TNS1 tensin 1 2 2
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
miR-4464 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4464 Tamoxifen 2733525 NSC180973 approved sensitive cell line (LCC2)

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