miRTarBase - #MIRT306846


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pre-miRNA Information
pre-miRNA hsa-mir-488   
Genomic Coordinates chr1: 177029363 - 177029445
Synonyms MIRN488, hsa-mir-488, MIR488
Description Homo sapiens miR-488 stem-loop
Comment miR-488-3p cloned in has a 1 nt 3' extension (U), which is incompatible with the genome sequence.
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-488-3p
Sequence 52| UUGAAAGGCUAUUUCUUGGUC |72
Evidence Experimental
Experiments Cloned
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 5 1 - 177029390 27229138, 28550310, 29165639, 29233923 MiREDiBase
A-to-I 6 1 - 177029389 29233923 MiREDiBase
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN1079766 12 COSMIC
COSN19660590 16 COSMIC
COSN30190142 18 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1210074726 7 dbSNP
rs1310911055 17 dbSNP
rs1248997320 19 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol FYTTD1   
Synonyms UIF
Description forty-two-three domain containing 1
Transcript NM_001011537   
Other Transcripts NM_032288   
Expression
Putative miRNA Targets on FYTTD1
3'UTR of FYTTD1
(miRNA target sites are highlighted)		 
>FYTTD1|NM_001011537|3'UTR
   1 GTCCCATGTCAAAGGAACTTTTGAGTGATGACTCTGAGAAGTTGAATTGCTTGAAGAGTTCATCACGGAAATTCAAGAAA
  81 CTTTACTTCAAAATATTCACAAGGCTAAATAACTCTTATTTTTATTTTTGAAGGTTTTTTTTTTTAAAAAAAAAAACGTA
 161 TAAAATAATGCCCTGAAAGAATAATAGGGATTATACCTGTCTGTTCTTAAAGATTTCATGGTTGGCTCAGACAGAACAAT
 241 CATCTGTTTGACTTCTTTGGTTCCTCATGCAGCAGAAGGAAGACAGAAAGATAGAAATTGATTATTTTTATGATAGCAGT
 321 ATTCAGGATCTCATCACCTTTGCCCGTGTTTTAGACTTTGTCATGGTAAATCCTGGTCTTCATAAACATGAGTAGGTCCC
 401 TTGGTTGCTGTCACTTGCCCTTTAATAGTGTTGATGTAGTCAGTGCCGTTGCCTTTTCTTCATTAGAGACACAGAACAAT
 481 GTATTAGAATTTCCAGCTGTGGGTTTGAAGACTTAGGGGGACATCCAGAACGTGCTTCCTCTTTCAGACGGTGTAAAGTC
 561 CCCTGGAATTACACAGCTTTAGTGCTGAGCTTTTAACAGGAAATGTGGCCCTAGGTATTAGTCTTAGTTTAAAATGTTGG
 641 TGTTTAGAGACTGTAAATGCATATTCACAAAGTTATCTGATAGGGCCTTGGAGGAGAAGGTCCAGTTTTAAAAAATGACA
 721 GTTTGTGTTTAATAAATGAAGGCATGAGAGGAAGTAAGTAGCAAGTTGAAGGACAGGTAGTTGAGATGAAACACTTCAAA
 801 ACCCTGGTTATAGATGTACTGTTTGGATGTAGCATAGTCTTGAGTCTAGCGTCCACAAAGAATTATTCAAATGATATTTA
 881 GAAGAATTATAACTATTACATTGAATGGAGTCCCTTGGATATTTTGATAGTAAAATTAATAGCCATAAAGTCCTAGACTT
 961 CTTATTTGAAGTTAAAATTTCTTATTTGAAAAGTTGAAATTTATGAGCTTTGAAGATTGCTAAATTAAATAATTTATAGC
1041 TCCAAAAACAAAAATATACTTGTATATGTCACAGAGAAAAAAAATGCAAAATTTATAATAGAGTTACATTAACCTTGTTG
1121 TTTACCTTTCACTGATTTCTTATATGGTATAAATTAAAGTTCAGGCATTTATGGGGAGAAAAGGCCCTCCCCACCGACCC
1201 GCCACCTGCCACCTCTGACGGAGTGGGAGAAGTTAGTCTGTGCTAAGATAGTACTGAGTCCCCAGATGTTGTATACTGTA
1281 AATTACAGTATAATGCCAAATGCAGCAAAATCTTCCAGCTGTACGTTACAAGTTTGGTCATTTTGAAGCTTGACATTTTA
1361 GTTTGCCATTATGTTAAAAACATCTAAATAGGTGTTAGTTTCTCAGGAGTAGATTGTTAGTGTTGACTTTTCCTGTAAAG
1441 CAGACATCGTTCTTGGCCTGCCCTGCATTGTATACTAGATTTCATTGTTGTCTCTCATGCTTCTTGAGTTGCTTCATGGT
1521 TTATGCTCGCCATGGAAAGCTATCAGTAACAGTTTCATGCTTATACCAAAGAATTAAATCTGATCTTTAATATCTGATAT
1601 TTTCCTGGTACTCGTACTGATAAGGGATTATTGGAAGTCAGTCACAGAATTTGGAAATAAATTCTAGTCTCTCCTTAGCT
1681 ATTTGATGCTTTTCATATAGGCCAAGAACTCATTGCAAAACATTTTTGCAAGGATGAATGCCTGTATTTGGTCTAGGAAC
1761 AGTACATTTTAGTCTGATTTAGAATTACTGGTAGCTTATTTTAAAGCAAGGAAAAGCAGCTGAGCTCAAGTTTGCTGTCT
1841 TTAGAATGGTTTGTGAAAATATGGTATAAAGGTGTTTTCATTTTCCTGTTCTTACCTATTATTGTATAGAGCTATTCATG
1921 CCATTTTTTGGGAAAACTTTAAAAATTGCCCCAAATACTGACATTGAGTGCATTAAATAACAAATTATCTTTGATACATT
2001 AAACTTTTATTCTTCATGCATCTGTAATTTAATTTTAAGTATAATGTTTTGCCTTTGGTACAACTAAATTAAAACTCTTG
2081 GTGGTCACATATTGTATATAAACAAAACAATATGCTTTGTTGAAGGAAAATTTTCTTTATTGGAATGTGGTTGTAATCCT
2161 TGTTCAGTTCTTAAGTTTCGGTTTTTTTTAAAAACAGGATGCAACTTAAACTTTTCTTTGCATCAAGGTATATGCAAAAC
2241 ATTGGTGCCGTGCATCACCAAATGAAAGTTTGTATTTAACGAGGAGGTGCTTTACACTGTACTTTTTGGTGTTTTTTGGA
2321 AAAGTTACATTTAGATCTATTCTGAAGCTGTTCATTTTTAACAAATAAAATGTTACAGGTTTCACATGATTTATTCTCAG
2401 CTCTAAAGATTGAGTTGTGGTTTTTAGATTGTTCTATGTTACGAAGAACTTTGTAGTGGTTATCTATATTTGTAGTTTTT
2481 AGGGTGTGAAACCTTATCTACTAGCAAAATTGGTAAATCACTGTAGACTCTTCTATT
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' cugguucuuuAUCGGAAAGUu 5'
                    || ||||||| 
Target 5' ccttgttgttTA-CCTTTCAc 3'
 1113 - 1132 142.00 -7.90
2 
miRNA  3' cuGGUUCUUUAUCGGAAAGUu 5'
            |:|   :|| ||:||||| 
Target 5' agCTATTTGAT-GCTTTTCAt 3'
 1677 - 1696 134.00 -8.70
3 
miRNA  3' cuGGUUCUUUAU----CGGAAAGUu 5'
            |||: | :|:     :|||||| 
Target 5' atCCAGAACGTGCTTCCTCTTTCAg 3'
 523 - 547 129.00 -9.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30450395 6 COSMIC
COSN31573336 39 COSMIC
COSN30115617 68 COSMIC
COSN31508802 125 COSMIC
COSN20074666 146 COSMIC
COSN28840022 146 COSMIC
COSN29013771 146 COSMIC
COSN14630193 147 COSMIC
COSN5532199 245 COSMIC
COSN27659890 291 COSMIC
COSN7759160 368 COSMIC
COSN24041438 382 COSMIC
COSN31609143 1032 COSMIC
COSN30541128 1054 COSMIC
COSN26641845 1133 COSMIC
COSN1274677 1150 COSMIC
COSN24868213 1201 COSMIC
COSN30544650 1210 COSMIC
COSN30165082 1220 COSMIC
COSN31534091 1221 COSMIC
COSN31537745 1230 COSMIC
COSN5042681 1287 COSMIC
COSN30108189 1430 COSMIC
COSN26678289 1436 COSMIC
COSN31564994 1479 COSMIC
COSN31480942 1497 COSMIC
COSN31519651 1572 COSMIC
COSN4816057 1639 COSMIC
COSN25571480 1764 COSMIC
COSN1940499 1881 COSMIC
COSN1940500 1899 COSMIC
COSN31483992 1933 COSMIC
COSN31542963 2059 COSMIC
COSN16038233 2182 COSMIC
COSN31512853 2190 COSMIC
COSN7600529 2660 COSMIC
COSN17636423 2837 COSMIC
COSN22868697 2889 COSMIC
COSN30390781 3018 COSMIC
COSN29349709 3254 COSMIC
COSN7600532 3410 COSMIC
COSN21979759 3578 COSMIC
COSN27253451 4043 COSMIC
COSN21618318 4044 COSMIC
COSN24348120 4194 COSMIC
COSN9003048 4207 COSMIC
COSN16162483 4208 COSMIC
COSN9543840 4254 COSMIC
COSN9543841 4543 COSMIC
COSN27952014 4619 COSMIC
COSN7759161 5006 COSMIC
COSN9543842 5384 COSMIC
COSN17926307 5425 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1342431536 1 dbSNP
rs377383238 4 dbSNP
rs780490716 8 dbSNP
rs371177123 14 dbSNP
rs755549300 19 dbSNP
rs771632139 19 dbSNP
rs1404514109 21 dbSNP
rs1221023642 23 dbSNP
rs1261768852 29 dbSNP
rs781111401 36 dbSNP
rs773096714 40 dbSNP
rs748321278 42 dbSNP
rs377398293 43 dbSNP
rs1444918721 48 dbSNP
rs1295401144 57 dbSNP
rs115948973 59 dbSNP
rs1278045482 62 dbSNP
rs1344593600 63 dbSNP
rs760844351 67 dbSNP
rs1233695716 80 dbSNP
rs1042455776 85 dbSNP
rs764249987 93 dbSNP
rs753997247 101 dbSNP
rs1479227418 108 dbSNP
rs80068202 109 dbSNP
rs1485258338 116 dbSNP
rs973410335 116 dbSNP
rs1242053056 118 dbSNP
rs1467084808 119 dbSNP
rs926627525 125 dbSNP
rs1331685104 126 dbSNP
rs77851484 130 dbSNP
rs141531082 132 dbSNP
rs1321733110 135 dbSNP
rs1372179642 135 dbSNP
rs1236871802 141 dbSNP
rs75658829 144 dbSNP
rs1284348152 145 dbSNP
rs546696585 145 dbSNP
rs1287058732 146 dbSNP
rs1389142882 146 dbSNP
rs187769681 146 dbSNP
rs532153464 147 dbSNP
rs1468029388 148 dbSNP
rs1431062399 152 dbSNP
rs1176254053 155 dbSNP
rs1416712055 156 dbSNP
rs1185317985 157 dbSNP
rs1439093419 158 dbSNP
rs757803140 159 dbSNP
rs1249165051 161 dbSNP
rs1203496210 163 dbSNP
rs1460255571 170 dbSNP
rs765848111 187 dbSNP
rs573583263 188 dbSNP
rs1307014809 191 dbSNP
rs1250646258 198 dbSNP
rs1230656694 199 dbSNP
rs1051590854 201 dbSNP
rs890389180 204 dbSNP
rs150844014 208 dbSNP
rs912103673 211 dbSNP
rs1303091163 214 dbSNP
rs1461137650 215 dbSNP
rs1352370801 217 dbSNP
rs1015324058 218 dbSNP
rs540928527 219 dbSNP
rs1391394977 229 dbSNP
rs1183445724 231 dbSNP
rs139308112 240 dbSNP
rs995324628 244 dbSNP
rs1201272754 247 dbSNP
rs112013489 251 dbSNP
rs1327038598 253 dbSNP
rs1350111420 255 dbSNP
rs1207470970 256 dbSNP
rs921744774 299 dbSNP
rs566672101 301 dbSNP
rs1294897842 306 dbSNP
rs193231120 307 dbSNP
rs1290967500 318 dbSNP
rs1273557 319 dbSNP
rs868700420 333 dbSNP
rs759031821 339 dbSNP
rs1313210928 343 dbSNP
rs891450370 344 dbSNP
rs1251856260 346 dbSNP
rs571450635 347 dbSNP
rs967609572 364 dbSNP
rs185042161 366 dbSNP
rs1193586777 368 dbSNP
rs1045663094 371 dbSNP
rs1163526800 373 dbSNP
rs977725248 374 dbSNP
rs755783517 379 dbSNP
rs1370669548 383 dbSNP
rs1198416626 384 dbSNP
rs1485792719 400 dbSNP
rs1418860612 407 dbSNP
rs1248693273 410 dbSNP
rs923599734 411 dbSNP
rs1483437832 413 dbSNP
rs777223438 426 dbSNP
rs1260026162 432 dbSNP
rs989600440 434 dbSNP
rs748797882 437 dbSNP
rs1265944191 440 dbSNP
rs770792927 448 dbSNP
rs556966310 449 dbSNP
rs1289849399 458 dbSNP
rs1001414433 470 dbSNP
rs1300786107 471 dbSNP
rs1387982441 473 dbSNP
rs1051557042 479 dbSNP
rs890313736 480 dbSNP
rs1453518423 481 dbSNP
rs1034588464 484 dbSNP
rs575518291 497 dbSNP
rs899129232 503 dbSNP
rs543322268 515 dbSNP
rs1253788369 518 dbSNP
rs1268422647 526 dbSNP
rs1034411716 532 dbSNP
rs764925712 538 dbSNP
rs554837056 539 dbSNP
rs778896747 550 dbSNP
rs1484783348 555 dbSNP
rs1269739074 567 dbSNP
rs950730454 569 dbSNP
rs1228741793 574 dbSNP
rs1315065611 583 dbSNP
rs1376658135 590 dbSNP
rs1004803460 591 dbSNP
rs1395271728 594 dbSNP
rs1331124881 600 dbSNP
rs1455757304 614 dbSNP
rs745859521 616 dbSNP
rs1324812336 624 dbSNP
rs771867255 627 dbSNP
rs1176491829 634 dbSNP
rs978069030 640 dbSNP
rs966695323 642 dbSNP
rs114363203 657 dbSNP
rs546612505 659 dbSNP
rs1428935892 660 dbSNP
rs1273272764 665 dbSNP
rs1348041879 669 dbSNP
rs1212544890 670 dbSNP
rs1170969644 671 dbSNP
rs1479055881 681 dbSNP
rs989178077 684 dbSNP
rs149973613 691 dbSNP
rs921656024 694 dbSNP
rs1249789539 702 dbSNP
rs989918167 703 dbSNP
rs1209182619 704 dbSNP
rs532292080 705 dbSNP
rs1460656950 720 dbSNP
rs945702561 728 dbSNP
rs1276085583 731 dbSNP
rs1201772462 738 dbSNP
rs1045806573 744 dbSNP
rs1482451530 745 dbSNP
rs931717276 755 dbSNP
rs1224584688 759 dbSNP
rs1363720598 760 dbSNP
rs1300443104 769 dbSNP
rs775196131 773 dbSNP
rs1405734819 776 dbSNP
rs987223378 782 dbSNP
rs928603376 793 dbSNP
rs937241579 797 dbSNP
rs911720688 802 dbSNP
rs1055654747 805 dbSNP
rs1167454729 807 dbSNP
rs1389605715 810 dbSNP
rs898350671 816 dbSNP
rs1189073099 817 dbSNP
rs1443805500 818 dbSNP
rs752336368 820 dbSNP
rs930611020 821 dbSNP
rs1049139639 825 dbSNP
rs1271835561 836 dbSNP
rs886489427 837 dbSNP
rs1175716510 838 dbSNP
rs1004926894 841 dbSNP
rs894504552 845 dbSNP
rs544204292 846 dbSNP
rs114976836 851 dbSNP
rs903315163 852 dbSNP
rs999035166 857 dbSNP
rs1450601379 858 dbSNP
rs1033654732 866 dbSNP
rs957655226 867 dbSNP
rs997082549 872 dbSNP
rs1028595098 876 dbSNP
rs1169181577 887 dbSNP
rs760904575 902 dbSNP
rs996814798 913 dbSNP
rs1411507817 921 dbSNP
rs1371047753 925 dbSNP
rs1029223771 930 dbSNP
rs1235886558 944 dbSNP
rs957540103 945 dbSNP
rs1300728853 948 dbSNP
rs1231961433 950 dbSNP
rs1179495860 952 dbSNP
rs1483762374 952 dbSNP
rs776114187 958 dbSNP
rs529980188 959 dbSNP
rs1239399961 966 dbSNP
rs1321692011 972 dbSNP
rs1288329089 973 dbSNP
rs1230449911 979 dbSNP
rs1261662654 982 dbSNP
rs1357413521 985 dbSNP
rs548483408 986 dbSNP
rs1408192134 989 dbSNP
rs1207349926 990 dbSNP
rs990284170 992 dbSNP
rs188966866 1003 dbSNP
rs1404398086 1015 dbSNP
rs529236963 1023 dbSNP
rs1468930509 1026 dbSNP
rs1166750738 1030 dbSNP
rs566498539 1031 dbSNP
rs1406910826 1033 dbSNP
rs971936966 1043 dbSNP
rs1473391892 1046 dbSNP
rs920453543 1051 dbSNP
rs967111281 1052 dbSNP
rs1198132296 1055 dbSNP
rs1487215017 1063 dbSNP
rs1423234967 1067 dbSNP
rs981158798 1076 dbSNP
rs1432808865 1077 dbSNP
rs930558913 1077 dbSNP
rs527474637 1078 dbSNP
rs1365295248 1086 dbSNP
rs1455475833 1087 dbSNP
rs758804393 1088 dbSNP
rs1267941778 1092 dbSNP
rs936997877 1095 dbSNP
rs1056129118 1098 dbSNP
rs552136694 1109 dbSNP
rs1319754105 1115 dbSNP
rs1331565688 1126 dbSNP
rs1395138222 1127 dbSNP
rs1442376114 1138 dbSNP
rs1218727293 1142 dbSNP
rs919806471 1144 dbSNP
rs1365510460 1146 dbSNP
rs931148006 1157 dbSNP
rs1437057069 1160 dbSNP
rs1344501887 1163 dbSNP
rs915905673 1165 dbSNP
rs558735280 1173 dbSNP
rs1046879701 1183 dbSNP
rs886561607 1185 dbSNP
rs1005366187 1192 dbSNP
rs1040400079 1195 dbSNP
rs901860865 1196 dbSNP
rs1045804617 1197 dbSNP
rs538784856 1201 dbSNP
rs999399172 1202 dbSNP
rs1191240524 1208 dbSNP
rs1478673358 1214 dbSNP
rs1226965311 1216 dbSNP
rs1054614360 1220 dbSNP
rs1267979356 1221 dbSNP
rs1466478247 1222 dbSNP
rs893315427 1225 dbSNP
rs997049666 1234 dbSNP
rs1028542582 1242 dbSNP
rs953012141 1247 dbSNP
rs9829434 1248 dbSNP
rs893353497 1250 dbSNP
rs111898273 1260 dbSNP
rs1364440489 1263 dbSNP
rs1295303289 1267 dbSNP
rs1437010050 1274 dbSNP
rs1177960440 1287 dbSNP
rs7643554 1288 dbSNP
rs1360519426 1290 dbSNP
rs1176233435 1291 dbSNP
rs1471457152 1306 dbSNP
rs961809288 1317 dbSNP
rs1187165209 1319 dbSNP
rs1020450746 1323 dbSNP
rs762002238 1325 dbSNP
rs536499265 1326 dbSNP
rs1181606078 1333 dbSNP
rs920438457 1335 dbSNP
rs951893220 1338 dbSNP
rs1210989821 1350 dbSNP
rs879252672 1358 dbSNP
rs991370477 1361 dbSNP
rs1272405310 1367 dbSNP
rs773940823 1368 dbSNP
rs765474955 1369 dbSNP
rs958621195 1372 dbSNP
rs1311807512 1377 dbSNP
rs1348760036 1403 dbSNP
rs1380979813 1405 dbSNP
rs1303000147 1411 dbSNP
rs991129603 1413 dbSNP
rs1442337256 1414 dbSNP
rs919884896 1416 dbSNP
rs1374117799 1417 dbSNP
rs1299476461 1421 dbSNP
rs1348256062 1426 dbSNP
rs1408912924 1431 dbSNP
rs539269370 1450 dbSNP
rs934742433 1452 dbSNP
rs1054984815 1462 dbSNP
rs747695632 1463 dbSNP
rs931224421 1464 dbSNP
rs750938792 1478 dbSNP
rs893273585 1479 dbSNP
rs1049944531 1482 dbSNP
rs1160275279 1484 dbSNP
rs891392853 1485 dbSNP
rs1264793830 1490 dbSNP
rs868411202 1495 dbSNP
rs1323229250 1497 dbSNP
rs572116312 1498 dbSNP
rs1408798602 1503 dbSNP
rs1018594534 1508 dbSNP
rs897525906 1512 dbSNP
rs943864079 1515 dbSNP
rs993253140 1516 dbSNP
rs1230497415 1517 dbSNP
rs1288389333 1518 dbSNP
rs1027824468 1519 dbSNP
rs1040873507 1524 dbSNP
rs540818690 1527 dbSNP
rs991338052 1529 dbSNP
rs901893283 1530 dbSNP
rs1410018199 1537 dbSNP
rs1184522664 1539 dbSNP
rs1483385268 1540 dbSNP
rs865852998 1543 dbSNP
rs1022858559 1545 dbSNP
rs368368455 1545 dbSNP
rs1207940474 1546 dbSNP
rs1050409346 1547 dbSNP
rs763413058 1555 dbSNP
rs1265855349 1561 dbSNP
rs559221198 1567 dbSNP
rs971289848 1568 dbSNP
rs1326705578 1569 dbSNP
rs1289826218 1570 dbSNP
rs752061921 1572 dbSNP
rs1228472755 1575 dbSNP
rs1329944878 1583 dbSNP
rs1020524106 1587 dbSNP
rs1181800768 1595 dbSNP
rs1257934616 1605 dbSNP
rs1476087250 1607 dbSNP
rs576996963 1611 dbSNP
rs544337696 1614 dbSNP
rs766714746 1615 dbSNP
rs1413007086 1619 dbSNP
rs1386735076 1641 dbSNP
rs562437459 1644 dbSNP
rs1161575785 1646 dbSNP
rs1409981755 1650 dbSNP
rs1470568850 1673 dbSNP
rs751898484 1674 dbSNP
rs1003007017 1678 dbSNP
rs1035847951 1694 dbSNP
rs990213672 1695 dbSNP
rs146559911 1705 dbSNP
rs932794591 1719 dbSNP
rs541715651 1734 dbSNP
rs1269641180 1735 dbSNP
rs563261808 1741 dbSNP
rs1208909973 1742 dbSNP
rs1343711414 1754 dbSNP
rs1253777228 1755 dbSNP
rs891319288 1758 dbSNP
rs192171805 1765 dbSNP
rs1313156170 1775 dbSNP
rs952656321 1791 dbSNP
rs982683789 1793 dbSNP
rs1450666006 1795 dbSNP
rs1282885961 1808 dbSNP
rs1379092343 1820 dbSNP
rs1401547856 1824 dbSNP
rs1401743991 1824 dbSNP
rs1170949229 1826 dbSNP
rs1467641519 1830 dbSNP
rs993572421 1834 dbSNP
rs1187785283 1837 dbSNP
rs1447458140 1844 dbSNP
rs1249620949 1847 dbSNP
rs908428242 1848 dbSNP
rs777412005 1859 dbSNP
rs887538602 1863 dbSNP
rs1204660025 1865 dbSNP
rs184008250 1873 dbSNP
rs1201680568 1892 dbSNP
rs1443880161 1897 dbSNP
rs115553015 1903 dbSNP
rs1281700598 1905 dbSNP
rs1236761510 1907 dbSNP
rs932071510 1918 dbSNP
rs981371553 1919 dbSNP
rs1188260763 1922 dbSNP
rs1387752609 1925 dbSNP
rs1448385179 1930 dbSNP
rs753545938 1950 dbSNP
rs1050440396 1955 dbSNP
rs956045179 1958 dbSNP
rs1397868930 1961 dbSNP
rs1376094033 1963 dbSNP
rs1376913837 1965 dbSNP
rs1427785121 1968 dbSNP
rs1416458837 1969 dbSNP
rs1168352347 1973 dbSNP
rs1472305911 1975 dbSNP
rs563957521 1980 dbSNP
rs1359002688 1986 dbSNP
rs1189133858 1988 dbSNP
rs757850456 1990 dbSNP
rs57503561 1995 dbSNP
rs530594355 2002 dbSNP
rs1482395633 2005 dbSNP
rs985548690 2007 dbSNP
rs78759994 2008 dbSNP
rs1356015115 2010 dbSNP
rs1282662663 2015 dbSNP
rs1247212254 2016 dbSNP
rs781617480 2025 dbSNP
rs1307548737 2028 dbSNP
rs1408076882 2034 dbSNP
rs1372336438 2040 dbSNP
rs944211572 2043 dbSNP
rs1404573851 2047 dbSNP
rs1304367136 2059 dbSNP
rs1347403852 2067 dbSNP
rs903394648 2077 dbSNP
rs1217749884 2078 dbSNP
rs1164753466 2079 dbSNP
rs1475360610 2081 dbSNP
rs1410757008 2089 dbSNP
rs1003489370 2093 dbSNP
rs918851726 2094 dbSNP
rs139410410 2099 dbSNP
rs894247480 2101 dbSNP
rs1048743901 2107 dbSNP
rs1205773407 2109 dbSNP
rs1451424402 2111 dbSNP
rs1447406559 2116 dbSNP
rs1288219292 2119 dbSNP
rs1215915176 2133 dbSNP
rs887464882 2136 dbSNP
rs1287892675 2137 dbSNP
rs536639963 2139 dbSNP
rs1404318118 2144 dbSNP
rs1375562824 2147 dbSNP
rs1044200982 2162 dbSNP
rs189810031 2163 dbSNP
rs867195863 2166 dbSNP
rs771927840 2168 dbSNP
rs567131062 2176 dbSNP
rs9845296 2180 dbSNP
rs1003801470 2181 dbSNP
rs559158112 2182 dbSNP
rs956140040 2182 dbSNP
rs965321573 2188 dbSNP
rs540999656 2190 dbSNP
rs921088129 2201 dbSNP
rs1171682418 2212 dbSNP
rs1245470333 2216 dbSNP
rs954079547 2222 dbSNP
rs1469143026 2229 dbSNP
rs537890403 2237 dbSNP
rs953835296 2243 dbSNP
rs986226681 2250 dbSNP
rs866152729 2251 dbSNP
rs914624499 2258 dbSNP
rs947371208 2259 dbSNP
rs556300239 2261 dbSNP
rs965550222 2262 dbSNP
rs1041735303 2265 dbSNP
rs1305444616 2277 dbSNP
rs1441380809 2281 dbSNP
rs924888672 2282 dbSNP
rs574496509 2295 dbSNP
rs1318161922 2297 dbSNP
rs11540624 2298 dbSNP
rs918790805 2301 dbSNP
rs1174814261 2303 dbSNP
rs938936294 2306 dbSNP
rs1412256002 2314 dbSNP
rs78239670 2324 dbSNP
rs1048715171 2326 dbSNP
rs1455004978 2343 dbSNP
rs1434544189 2344 dbSNP
rs1247842407 2349 dbSNP
rs768942060 2350 dbSNP
rs894662709 2360 dbSNP
rs1487007829 2363 dbSNP
rs1242913291 2366 dbSNP
rs948373084 2371 dbSNP
rs559929549 2374 dbSNP
rs1282408527 2377 dbSNP
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rs1180174805 5523 dbSNP
rs1439904209 5527 dbSNP
rs1469198888 5538 dbSNP
rs1159857405 5542 dbSNP
rs1188875110 5548 dbSNP
rs146501413 5549 dbSNP
rs896355088 5555 dbSNP
rs1013889177 5568 dbSNP
rs1223727518 5570 dbSNP
rs1353486217 5576 dbSNP
rs377395405 5580 dbSNP
rs1020875197 5588 dbSNP
rs1287854689 5594 dbSNP
rs1300683979 5600 dbSNP
rs1385098486 5602 dbSNP
rs1369671130 5606 dbSNP
rs1399291520 5607 dbSNP
rs764493441 5607 dbSNP
rs1358448392 5613 dbSNP
rs1026234328 5619 dbSNP
rs139624985 5625 dbSNP
rs890360575 5628 dbSNP
rs543294586 5631 dbSNP
rs1017430720 5632 dbSNP
rs1000835244 5634 dbSNP
rs149716071 5636 dbSNP
rs975504877 5640 dbSNP
rs1434355597 5653 dbSNP
rs1268938278 5657 dbSNP
rs1285561442 5666 dbSNP
rs557039938 5669 dbSNP
rs1261564967 5670 dbSNP
rs575292035 5676 dbSNP
rs1255582931 5678 dbSNP
rs1231204725 5682 dbSNP
rs375274035 5685 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' cugguucuuuAUCGGAAAGUu 5'
                    || ||||||| 
Target 5' ccuuguuguuUA-CCUUUCAc 3'
 		10 - 29
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 ENST00000241502.4 | 3UTR | UUACAUUAACCUUGUUGUUUACCUUUCACUG
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
GSE26953 Aortic valvular endothelial cells 0.518 4.8e-3 0.211 1.6e-1 24 Click to see details
GSE28544 Breast cancer 0.452 1.3e-2 0.578 1.5e-3 24 Click to see details
GSE28260 Renal cortex and medulla 0.47 5.3e-2 0.317 1.5e-1 13 Click to see details
GSE21849 B cell lymphoma -0.288 6.5e-2 -0.325 4.3e-2 29 Click to see details
GSE21687 Ependynoma primary tumors -0.144 1.3e-1 -0.207 5.0e-2 64 Click to see details
GSE27834 Pluripotent stem cells 0.205 2.2e-1 0.179 2.5e-1 16 Click to see details
GSE38226 Liver fibrosis 0.09 3.5e-1 0.303 9.1e-2 21 Click to see details
GSE15076 Monocyte-derived dendritic cells 0.428 3.6e-1 0.500 3.3e-1 3 Click to see details
GSE34608 Pulmonary tuberculosis and sarcoidosis 0.083 3.6e-1 -0.555 5.5e-3 20 Click to see details
GSE17306 Multiple myeloma 0.037 4.0e-1 0.473 3.0e-4 49 Click to see details
GSE42095 Differentiated embryonic stem cells 0.052 4.1e-1 -0.148 2.5e-1 23 Click to see details
GSE32688 Pancreatic cancer 0.02 4.6e-1 -0.028 4.4e-1 32 Click to see details
GSE38974 Chronic obstructive pulmonary disease -0.021 4.6e-1 -0.049 4.1e-1 25 Click to see details
GSE19350 CNS germ cell tumors 0.022 4.7e-1 0.294 1.8e-1 12 Click to see details
GSE19350 CNS germ cell tumors 0.022 4.7e-1 0.294 1.8e-1 12 Click to see details
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
HNSC -0.934 0 -1.000 0.5 6 Click to see details
ESCA 0.956 0.09 1.000 0.5 3 Click to see details
UCEC -0.406 0.1 -0.434 0.08 12 Click to see details
LIHC 0.467 0.12 0.762 0.01 8 Click to see details
PRAD -0.245 0.18 -0.132 0.31 16 Click to see details
LUSC 0.382 0.23 0.600 0.1 6 Click to see details
PCPG -0.661 0.27 -0.500 0.33 3 Click to see details
KIRP 0.368 0.27 0.600 0.14 5 Click to see details
THCA -0.194 0.4 0.200 0.4 4 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
BRCA 0.053 0.43 -0.016 0.48 13 Click to see details
116 hsa-miR-488-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT005899 POMC proopiomelanocortin 3 1
MIRT038008 CYP2E1 cytochrome P450 family 2 subfamily E member 1 1 1
MIRT054483 SLC39A8 solute carrier family 39 member 8 2 1
MIRT058884 C11ORF58 chromosome 11 open reading frame 58 2 2
MIRT061194 MED17 mediator complex subunit 17 2 2
MIRT167237 TMEM167A transmembrane protein 167A 2 2
MIRT188343 ARID1A AT-rich interaction domain 1A 2 2
MIRT218170 MRPL18 mitochondrial ribosomal protein L18 2 2
MIRT218297 C6ORF120 chromosome 6 open reading frame 120 2 2
MIRT263337 ANAPC16 anaphase promoting complex subunit 16 2 2
MIRT294633 ZNF548 zinc finger protein 548 2 2
MIRT305053 SRPRB SRP receptor beta subunit 2 6
MIRT306846 FYTTD1 forty-two-three domain containing 1 2 2
MIRT442753 NRIP3 nuclear receptor interacting protein 3 2 2
MIRT443955 S1PR2 sphingosine-1-phosphate receptor 2 2 2
MIRT444032 SYNM synemin 2 2
MIRT444519 WWTR1 WW domain containing transcription regulator 1 2 2
MIRT444569 UNC5C unc-5 netrin receptor C 2 2
MIRT444779 ECE1 endothelin converting enzyme 1 2 2
MIRT445195 FAXC failed axon connections homolog 2 2
MIRT445345 FAM169A family with sequence similarity 169 member A 2 2
MIRT445539 TBC1D8 TBC1 domain family member 8 2 2
MIRT446058 RABIF RAB interacting factor 2 2
MIRT446358 EFCAB6 EF-hand calcium binding domain 6 2 2
MIRT446486 PRELP proline and arginine rich end leucine rich repeat protein 2 2
MIRT446973 CARKD NAD(P)HX dehydratase 2 2
MIRT446984 MOB1B MOB kinase activator 1B 2 2
MIRT446987 TMEM9B TMEM9 domain family member B 2 2
MIRT447376 AGPAT5 1-acylglycerol-3-phosphate O-acyltransferase 5 2 2
MIRT447857 MLLT1 MLLT1, super elongation complex subunit 2 2
MIRT448077 BRMS1L breast cancer metastasis-suppressor 1 like 2 2
MIRT448970 CBX5 chromobox 5 2 2
MIRT449072 RPS15A ribosomal protein S15a 2 2
MIRT449200 PTPLAD2 3-hydroxyacyl-CoA dehydratase 4 1 1
MIRT449459 HAT1 histone acetyltransferase 1 2 2
MIRT449588 PCDHA6 protocadherin alpha 6 2 2
MIRT449885 ZNF621 zinc finger protein 621 2 2
MIRT449892 C11orf34 placenta expressed transcript 1 1 2
MIRT450669 SGIP1 SH3 domain GRB2 like endophilin interacting protein 1 2 2
MIRT450866 GPR107 G protein-coupled receptor 107 2 2
MIRT450881 EIF6 eukaryotic translation initiation factor 6 2 2
MIRT455373 AAED1 AhpC/TSA antioxidant enzyme domain containing 1 2 2
MIRT458266 FUT10 fucosyltransferase 10 2 2
MIRT464839 RPS27A ribosomal protein S27a 2 12
MIRT465335 TPM3 tropomyosin 3 2 4
MIRT467939 SLC16A1 solute carrier family 16 member 1 2 2
MIRT468719 SDC4 syndecan 4 2 2
MIRT469844 PXK PX domain containing serine/threonine kinase like 2 8
MIRT474545 KLHDC3 kelch domain containing 3 2 2
MIRT480700 BRPF1 bromodomain and PHD finger containing 1 2 2
MIRT482087 ALG8 ALG8, alpha-1,3-glucosyltransferase 2 2
MIRT491225 KCNA5 potassium voltage-gated channel subfamily A member 5 2 2
MIRT497790 DTX3L deltex E3 ubiquitin ligase 3L 2 2
MIRT497831 GPR26 G protein-coupled receptor 26 2 2
MIRT497910 HERC2 HECT and RLD domain containing E3 ubiquitin protein ligase 2 2 2
MIRT498428 DDX39A DExD-box helicase 39A 2 2
MIRT499196 TJAP1 tight junction associated protein 1 2 2
MIRT500396 ZNF281 zinc finger protein 281 2 6
MIRT501523 PPP1R15B protein phosphatase 1 regulatory subunit 15B 2 10
MIRT504445 MC2R melanocortin 2 receptor 2 2
MIRT505270 TUBB2A tubulin beta 2A class IIa 2 2
MIRT508584 CCDC115 coiled-coil domain containing 115 2 12
MIRT509269 NPM3 nucleophosmin/nucleoplasmin 3 2 4
MIRT512466 CCDC149 coiled-coil domain containing 149 2 2
MIRT513534 PRDM2 PR/SET domain 2 2 4
MIRT514218 ZNF83 zinc finger protein 83 2 4
MIRT518526 FLCN folliculin 2 6
MIRT524841 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT524855 ARL5B ADP ribosylation factor like GTPase 5B 2 4
MIRT525048 FRK fyn related Src family tyrosine kinase 2 2
MIRT528635 SENP6 SUMO1/sentrin specific peptidase 6 2 2
MIRT529557 SNRNP48 small nuclear ribonucleoprotein U11/U12 subunit 48 2 2
MIRT532319 GHSR growth hormone secretagogue receptor 2 2
MIRT534232 SLC25A16 solute carrier family 25 member 16 2 2
MIRT534254 SLC12A7 solute carrier family 12 member 7 2 2
MIRT536223 LRRC41 leucine rich repeat containing 41 2 2
MIRT537658 ERBB2IP erbb2 interacting protein 2 2
MIRT537795 EIF1AX eukaryotic translation initiation factor 1A, X-linked 2 2
MIRT540404 PITPNC1 phosphatidylinositol transfer protein, cytoplasmic 1 2 2
MIRT544563 POLDIP3 DNA polymerase delta interacting protein 3 2 2
MIRT546045 VPS4B vacuolar protein sorting 4 homolog B 2 2
MIRT546846 RAB4A RAB4A, member RAS oncogene family 2 2
MIRT548480 EEF2 eukaryotic translation elongation factor 2 2 2
MIRT549337 ARF6 ADP ribosylation factor 6 2 2
MIRT550855 SNAP47 synaptosome associated protein 47 2 4
MIRT551607 ZNF267 zinc finger protein 267 2 2
MIRT553222 TWF1 twinfilin actin binding protein 1 2 2
MIRT553874 SUPT7L SPT7 like, STAGA complex gamma subunit 2 4
MIRT557956 FAM222B family with sequence similarity 222 member B 2 2
MIRT559264 BAG4 BCL2 associated athanogene 4 2 4
MIRT562245 GRWD1 glutamate rich WD repeat containing 1 2 2
MIRT563184 YDJC YdjC chitooligosaccharide deacetylase homolog 2 2
MIRT563834 SMDT1 single-pass membrane protein with aspartate rich tail 1 2 2
MIRT563967 RAB6A RAB6A, member RAS oncogene family 2 2
MIRT564808 ZBTB21 zinc finger and BTB domain containing 21 2 2
MIRT565188 TSHZ1 teashirt zinc finger homeobox 1 2 2
MIRT565549 SMG1 SMG1, nonsense mediated mRNA decay associated PI3K related kinase 2 2
MIRT566969 LBR lamin B receptor 2 2
MIRT570926 ZNF284 zinc finger protein 284 2 2
MIRT612283 ZMAT3 zinc finger matrin-type 3 2 2
MIRT612695 PKNOX1 PBX/knotted 1 homeobox 1 2 2
MIRT625293 ZNF619 zinc finger protein 619 2 2
MIRT628496 LINS lines homolog 1 2 2
MIRT640282 FAM169B family with sequence similarity 169 member B 2 2
MIRT647212 CYP2U1 cytochrome P450 family 2 subfamily U member 1 2 2
MIRT654668 PSMB5 proteasome subunit beta 5 2 2
MIRT657516 HAS2 hyaluronan synthase 2 2 2
MIRT670337 C1orf106 chromosome 1 open reading frame 106 2 4
MIRT702010 MIDN midnolin 2 2
MIRT704253 DHCR24 24-dehydrocholesterol reductase 2 2
MIRT710205 ENAH ENAH, actin regulator 2 2
MIRT712126 TGFBR2 transforming growth factor beta receptor 2 2 2
MIRT714890 COQ10B coenzyme Q10B 2 2
MIRT716588 PAX6 paired box 6 2 2
MIRT720810 CIAO1 cytosolic iron-sulfur assembly component 1 2 2
MIRT724953 AHCY adenosylhomocysteinase 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-488 Glucose NULL 5793 Quantitative real-time PCR endothelial cells 24394957 2014 down-regulated
miR-488 Diethylstilbestrol approved 448537 Microarray mammosphere-derived epithelial cells (MDEC) 19549897 2009 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-488 Doxorubicin 31703 NSC123127 approved resistant High Chronic Myelogenous Leukemia cell line (K562)
hsa-miR-488 Chemotherapy sensitive High Epithelial Ovarian Cancer tissue
hsa-miR-488 Cisplatin 5460033 NSC119875 approved resistant Low Non-Small Cell Lung Cancer cell line (A549, H1299)
hsa-miR-488 Daunorubicin 30323 NSC82151 approved resistant High Acute Promyelocytic Leukemia cell line (HL60)
hsa-miR-488 Vemurafenib 42611257 NSC761431 approved sensitive High Melanoma cell line (A375)
hsa-miR-488 Taxane 9548828 sensitive High Breast Cancer tissue
hsa-miR-488 Doxorubicin 31703 NSC123127 approved sensitive High Anaplastic Thyroid Cancer tissue
hsa-mir-488 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-mir-488 Fluorouracil 3385 NSC19893 approved resistant cell line (OE19)
hsa-miR-488 Sunitinib 5329102 NSC750690 approved resistant tissue (CardA)
hsa-miR-488 Pegylated interferon alpha+Ribavirin sensitive tissue (chronic hepatitis C)
hsa-miR-488 Doxorubicin 31703 NSC123127 approved resistant cell line (K562)
hsa-miR-488 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-488-3p Paclitaxel 36314 NSC125973 approved resistant High Prostate Cancer cell line (DU-145, PC-3)
hsa-miR-488-3p Cisplatin 5460033 NSC119875 approved sensitive Low Melanoma cell line (SK-Mel-28)
hsa-miR-488-3p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-488-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-488-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)

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