miRTarBase - #MIRT478707


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pre-miRNA Information
pre-miRNA hsa-mir-6871   
Genomic Coordinates chr20: 41169023 - 41169078
Description Homo sapiens miR-6871 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6871-3p
Sequence 35| CAGCACCCUGUGGCUCCCACAG |56
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN16670239 4 COSMIC
COSN1872096 9 COSMIC
COSM1741616 16 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs545076040 1 dbSNP
rs1273348199 2 dbSNP
rs1202373059 5 dbSNP
rs1340707970 7 dbSNP
rs372994756 8 dbSNP
rs869070782 15 dbSNP
rs931272568 16 dbSNP
rs1333765165 18 dbSNP
Putative Targets

Gene Information
Gene Symbol CSRNP2   
Synonyms C12orf2, C12orf22, FAM130A1, PPP1R72, TAIP-12
Description cysteine and serine rich nuclear protein 2
Transcript NM_030809   
Expression
Putative miRNA Targets on CSRNP2
3'UTR of CSRNP2
(miRNA target sites are highlighted)		 
>CSRNP2|NM_030809|3'UTR
   1 CAGGCGCTAGAGGTCCTGCCTCTTACCCATTCTCTATTTATTCCCTTATTTTATCTAACACCATTTCAAAACAAAACTGT
  81 AGAAGCAGCTGCTGCTCCCATGTTATTTTATTGGGGTCTTTGGGGAATGGGTGGGAAAGGATTGTTTGAGTATTTTTTAA
 161 AAGGGAAACAGTACCAAGGAGACCAGCCCTACCTTGATCTGGGGATAGTCTTGGGGCAAAGAAAGCTGCGTAGTGCTGAA
 241 CATTAAGCTTTCTGGGCCACTGGAACAAAGAACTAGGATCTCACAGGAAAAGCTGGGTAACTCAAGCAGCTATTCTTTCT
 321 GTAGGGACCAGAACACGAGAATTTGAAGAGCATGGCAAAGCCCTTTCTCTCCCAAGCCCCAGGCAGAGTACAAGCTCATT
 401 TTTCTCGGTGGTTATTCTGATATCCCATTTTGGTGTGTCATAATACTTCAAACTGGAAAGTCACCTGGTCGAGTCTAGGG
 481 AGGAGGGAGTGGAAGGGTCTCTGCTTCTGTACAAAATCTCCAGGATTTACAAAAATGTAACCTGCCTTCCTTCAATCCCA
 561 TATTTGGTAAATAAGTTAATATTTGACATGTTTGGTGTTCTCTGACCTGTTCCCCACACTGGGGATTCCTGGTCTGTAAC
 641 TTGAATTGTTTCTTCCACATGTTCTTAAGTACTAGAGTTAAACTTGTCTATGTGTCTTTTTTCTCTCCATCCTTTTTCCT
 721 TCGGAGAAAGAGCTGGATTGGCTGGGGATATGGTATAACGAGCCTGAGCCTTCTGTACGTGTCTGACACTAGCACTGTCA
 801 GGCAGCTTTCGGCTGGGGCTCACCCATCCCATAGGAGGCCTATGTGGAGCATTAACTGTGGCCAAAGGAGGCAGCGGGAA
 881 CAGGCTGCTTGCTATCTGGAAAGATGACATATTTGTGCCATGCTTGTTTTTTCACCCAGGTTTTTCCCTCTTTGTGAGAT
 961 CTGAGCTTTAGTGGAATGTAGAATGTGGCAATCTTAAGGTCACCAATCAGTTTTTGTTCTTTTTTCCTGGATCTACCCTC
1041 ATGGTCGTTTTCAACATAGCGGGTTAGAGTTCTTATACTGTTCCAGTTCAATTCCAAGAATTGCAAATGTTTATTGGACC
1121 CCTCCATCTTGATGATATATAAAAATTGGAAGCCAAACCAGTTCTTAAATGCTACATGCAACTCCCAGATTCCAAAGGAT
1201 TCAAGTTCTAATTATAACCTTTGAAGCGTATAGAATGGAACTCATTCAGTTTGATTCAGTTCTTACCTCTGTCAGGAGGA
1281 ATACAGTTCCTGTTCATCCTGTGTTCTAAGATCTCCATTGAACAGCACTGATTTCCTTTCATTAGCAAAGTGATCTTTGT
1361 CTCTGTTCTAAAATGGAGGCAGTAGGGAGCAAAACTATTCTTCTCAAGCATCCTTTACACCATACTTTACTTCTGGTATG
1441 GTTTATTAACCACACACACACACAAAAGTGAAAAACTGTGTTGGGGGGGAGACACTACTCCTACTTATCTTGCTCATAAA
1521 GCCTTTTCTGGTGGGATATTAAGGCCCTGGTGTCTTACAGAAACCATCACGTATGTCGCAGCAGCATTTCACCCCTGAAG
1601 TCTCTAAACTCTGAGCCTGAAAAGATTTGTATTTAATACACATAACATTTTTTAGTTCATTCTGCCTTTCCTATTTGTTC
1681 CAGTTTTTGCTTGGTTTTAGTTTGGAGGGGAACTTAAGTACACAGATCCTTATCTCTCCCCATCCCCTAGCCTCACAAAA
1761 CACAGTTGAGAGTCTTTTAAGTACCTGAGCTCTCGAAGCTACCCAGAACTGAACTAGACTCCCCTACCTTAGACTGGTAC
1841 CCTCAAACACAGGACTGAAGCTTAATTGGGAATTTGGCTTTATGGAGAAAAGAATCTTTTTCAAAGTTTGTGTCGGAAGG
1921 GGAGGGTGAGGTTTGCCCACTGTCTCTGCAGGAAGGCTCCGGCTTAATCTAGGAAGTAGATTCCAGCTGCACGATGAGGA
2001 ACACATTAGCTTTTGGGATCAAACCAGGAATATGAATCTGTAATTATTAAGCTCATTGCCAACCCACAAGATATGTTTCT
2081 GAAAACCTGTAGTTTCTTAATTTAAGTCCATCCCCTTCATTAACGCTACAGTTGTGACTCACACTGATCCCAAACTTTTA
2161 AGTGCTAAATATTAACATTTAGCATTAACTGTCTTGTCAAGCGAAAGGCCTTCTCTACAACCTAGTCCATCTCACTTCTG
2241 GTGCTACCTGAGTTGGACAGAATTCTAGCTCATGGTTGCTAGGAAAGCTAGGCCTCTGATCATAGAAGCAGATAGCTTCA
2321 GTCCCAGTCTAGGCCTAGATAAATGACTCTTATTACCACAACCCTTATTATTTTCCAATTTCCTTTCTCACATACTGTAC
2401 ACAGGTAGTATTTTCAATGTGAATCCAAAGCTTGTCTGGTTCTCTGAAAATAATTTTTTCCCCTTTAGGTTCTTTACATT
2481 GTGATAATGCTGTATTTAAAGAGAATATTTAAATGTAATATTAAAGAAATATTCAAAAGAAAAAAAAAAAAA
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' gaCACCCUCGGUGUCCCACGAc 5'
            | ||||   ||||| |||| 
Target 5' caGCGGGA---ACAGGCTGCTt 3'
 872 - 890 133.00 -16.20
2 
miRNA  3' gacacccucggugucCCACGAc 5'
                         |||||| 
Target 5' gtccatctcacttctGGTGCTa 3'
 2225 - 2246 120.00 -13.20
3 
miRNA  3' gacacccUCGGUGU-CCCACGAc 5'
                 |||: || || |||| 
Target 5' gaattctAGCT-CATGGTTGCTa 3'
 2260 - 2281 118.00 -9.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN4730116 18 COSMIC
COSN31552937 32 COSMIC
COSN30530718 35 COSMIC
COSN31515173 38 COSMIC
COSN5717012 107 COSMIC
COSN31558849 112 COSMIC
COSN23670102 140 COSMIC
COSN2519953 218 COSMIC
COSN5834603 371 COSMIC
COSN7373333 499 COSMIC
COSN26510932 695 COSMIC
COSN4730115 781 COSMIC
COSN30177358 859 COSMIC
COSN20908730 878 COSMIC
COSN5945807 1412 COSMIC
COSN15947527 1732 COSMIC
COSN31595911 2188 COSMIC
COSN26669490 2241 COSMIC
COSN26554781 2269 COSMIC
COSN16242208 2466 COSMIC
COSN7373332 2485 COSMIC
COSN31960786 2530 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1156916912 2 dbSNP
rs1317245361 4 dbSNP
rs372354834 5 dbSNP
rs202000571 6 dbSNP
rs778785019 10 dbSNP
rs989107947 11 dbSNP
rs755010963 20 dbSNP
rs541378088 25 dbSNP
rs765963536 26 dbSNP
rs12317980 27 dbSNP
rs749899593 29 dbSNP
rs767181790 37 dbSNP
rs761401053 43 dbSNP
rs1430641568 51 dbSNP
rs574118624 52 dbSNP
rs1302981188 54 dbSNP
rs1033316949 62 dbSNP
rs1450020731 72 dbSNP
rs773313295 86 dbSNP
rs1001888788 95 dbSNP
rs1313871949 99 dbSNP
rs971283083 111 dbSNP
rs1444167671 114 dbSNP
rs112998981 115 dbSNP
rs906410209 116 dbSNP
rs1210705636 121 dbSNP
rs1210371045 128 dbSNP
rs1488733443 129 dbSNP
rs776482515 131 dbSNP
rs142747009 140 dbSNP
rs1004170859 141 dbSNP
rs886922620 144 dbSNP
rs1182009325 146 dbSNP
rs895404272 148 dbSNP
rs1037683400 149 dbSNP
rs1006242202 152 dbSNP
rs12304202 153 dbSNP
rs1244886290 164 dbSNP
rs546362351 166 dbSNP
rs1048259528 169 dbSNP
rs768574777 183 dbSNP
rs933459627 189 dbSNP
rs922421150 194 dbSNP
rs150504099 221 dbSNP
rs1377232317 224 dbSNP
rs1448528577 226 dbSNP
rs1277610732 229 dbSNP
rs796949786 230 dbSNP
rs1300482070 238 dbSNP
rs1219743711 239 dbSNP
rs1039637936 240 dbSNP
rs911155449 242 dbSNP
rs989076969 252 dbSNP
rs1262588378 253 dbSNP
rs1164279000 255 dbSNP
rs1206820525 257 dbSNP
rs944048463 262 dbSNP
rs141806451 263 dbSNP
rs1192310233 264 dbSNP
rs978075838 267 dbSNP
rs946346128 270 dbSNP
rs914714328 271 dbSNP
rs541292479 276 dbSNP
rs1479724312 278 dbSNP
rs970536001 282 dbSNP
rs17229232 295 dbSNP
rs1217716254 307 dbSNP
rs1326364413 308 dbSNP
rs1444999856 312 dbSNP
rs1353736091 318 dbSNP
rs1436868426 321 dbSNP
rs1276364194 323 dbSNP
rs1012441339 330 dbSNP
rs1283492137 331 dbSNP
rs957751884 336 dbSNP
rs555295590 337 dbSNP
rs980401482 344 dbSNP
rs959585220 348 dbSNP
rs1437437398 365 dbSNP
rs1222822397 369 dbSNP
rs1336844768 371 dbSNP
rs1490019369 379 dbSNP
rs970378014 380 dbSNP
rs1423723067 397 dbSNP
rs1476084316 398 dbSNP
rs1024665990 400 dbSNP
rs1165812068 401 dbSNP
rs577113120 406 dbSNP
rs527327224 407 dbSNP
rs886436875 408 dbSNP
rs1363425535 413 dbSNP
rs148064219 417 dbSNP
rs539172699 423 dbSNP
rs899892181 425 dbSNP
rs1040831204 427 dbSNP
rs1268459089 433 dbSNP
rs942549603 435 dbSNP
rs911083388 436 dbSNP
rs1053609559 437 dbSNP
rs1357650933 440 dbSNP
rs1429071859 441 dbSNP
rs936639436 457 dbSNP
rs923593203 460 dbSNP
rs977792177 464 dbSNP
rs769075205 470 dbSNP
rs183286436 475 dbSNP
rs749667795 480 dbSNP
rs1383188326 488 dbSNP
rs990600007 489 dbSNP
rs1159003598 501 dbSNP
rs1407640917 503 dbSNP
rs879343982 503 dbSNP
rs1316386334 504 dbSNP
rs1016480447 506 dbSNP
rs1449029413 509 dbSNP
rs1041752163 512 dbSNP
rs1381065174 514 dbSNP
rs1245759602 517 dbSNP
rs951005530 542 dbSNP
rs1353547099 544 dbSNP
rs1203846873 546 dbSNP
rs547598361 548 dbSNP
rs1442455194 550 dbSNP
rs534467438 555 dbSNP
rs1054992972 560 dbSNP
rs1443601205 579 dbSNP
rs1426053198 588 dbSNP
rs1017629999 590 dbSNP
rs1451557631 594 dbSNP
rs1184942506 595 dbSNP
rs937502386 597 dbSNP
rs114002264 601 dbSNP
rs145529391 607 dbSNP
rs1338754349 612 dbSNP
rs531600640 614 dbSNP
rs970492578 616 dbSNP
rs917545955 618 dbSNP
rs982487106 622 dbSNP
rs951333157 634 dbSNP
rs1026908828 646 dbSNP
rs1042418861 650 dbSNP
rs1366358531 652 dbSNP
rs140342418 653 dbSNP
rs1279441184 655 dbSNP
rs963841410 656 dbSNP
rs1346305818 657 dbSNP
rs1205063832 661 dbSNP
rs552682649 662 dbSNP
rs1260703485 670 dbSNP
rs532676636 672 dbSNP
rs1460639957 675 dbSNP
rs1198819583 679 dbSNP
rs1252406159 681 dbSNP
rs564239712 690 dbSNP
rs1181027124 703 dbSNP
rs11542511 705 dbSNP
rs1378181254 706 dbSNP
rs1481358161 707 dbSNP
rs1178750181 708 dbSNP
rs1403928935 713 dbSNP
rs1469488660 713 dbSNP
rs1018089387 722 dbSNP
rs1399115506 726 dbSNP
rs138639324 728 dbSNP
rs1328569068 729 dbSNP
rs1346772065 730 dbSNP
rs113938082 738 dbSNP
rs937778964 752 dbSNP
rs1008254358 753 dbSNP
rs1212506485 755 dbSNP
rs564208686 757 dbSNP
rs1275852753 759 dbSNP
rs891226075 760 dbSNP
rs527525944 764 dbSNP
rs984980206 770 dbSNP
rs1439028333 778 dbSNP
rs1042087204 779 dbSNP
rs1010240385 782 dbSNP
rs893346337 788 dbSNP
rs1054705704 789 dbSNP
rs1267782988 792 dbSNP
rs1026579501 800 dbSNP
rs937599118 807 dbSNP
rs145731739 810 dbSNP
rs369287401 811 dbSNP
rs1480123130 812 dbSNP
rs1171202875 814 dbSNP
rs1168419196 821 dbSNP
rs1409646253 823 dbSNP
rs570115818 829 dbSNP
rs949092243 830 dbSNP
rs1366518658 831 dbSNP
rs1407299172 836 dbSNP
rs1301789911 837 dbSNP
rs555120182 843 dbSNP
rs1007588462 863 dbSNP
rs1172964581 875 dbSNP
rs536613703 876 dbSNP
rs1032548947 887 dbSNP
rs982818251 894 dbSNP
rs1458151076 900 dbSNP
rs1292238886 906 dbSNP
rs191015620 910 dbSNP
rs1220191959 913 dbSNP
rs1268158130 928 dbSNP
rs902376135 933 dbSNP
rs919622727 937 dbSNP
rs1306610848 940 dbSNP
rs1278833665 950 dbSNP
rs1042291532 954 dbSNP
rs973945095 956 dbSNP
rs1169921782 958 dbSNP
rs754882627 959 dbSNP
rs1346093245 980 dbSNP
rs1303111593 981 dbSNP
rs1448253277 998 dbSNP
rs963960982 1009 dbSNP
rs1018036968 1010 dbSNP
rs1296570039 1016 dbSNP
rs1359171173 1021 dbSNP
rs1381335113 1026 dbSNP
rs575607426 1026 dbSNP
rs1441502164 1031 dbSNP
rs1384515623 1033 dbSNP
rs1243556336 1037 dbSNP
rs1317510897 1040 dbSNP
rs775340512 1041 dbSNP
rs1217791058 1046 dbSNP
rs1008036225 1047 dbSNP
rs1188187095 1054 dbSNP
rs955604082 1060 dbSNP
rs375191968 1061 dbSNP
rs1393107565 1063 dbSNP
rs1182200641 1067 dbSNP
rs1384987510 1069 dbSNP
rs757301201 1076 dbSNP
rs79248357 1076 dbSNP
rs1172782250 1081 dbSNP
rs929477082 1083 dbSNP
rs753965992 1089 dbSNP
rs1410041655 1099 dbSNP
rs113415044 1106 dbSNP
rs576536813 1109 dbSNP
rs906132810 1127 dbSNP
rs547801477 1136 dbSNP
rs1484483241 1138 dbSNP
rs1158809942 1147 dbSNP
rs950202715 1163 dbSNP
rs1208231177 1180 dbSNP
rs1280118470 1183 dbSNP
rs1241294153 1192 dbSNP
rs1462868149 1195 dbSNP
rs886638113 1199 dbSNP
rs1237299075 1200 dbSNP
rs1470690097 1202 dbSNP
rs1046807611 1205 dbSNP
rs534129310 1208 dbSNP
rs1406476869 1225 dbSNP
rs929737587 1227 dbSNP
rs919591029 1228 dbSNP
rs1319271546 1230 dbSNP
rs1054773073 1233 dbSNP
rs1335620617 1235 dbSNP
rs148953623 1241 dbSNP
rs973724388 1244 dbSNP
rs942599197 1259 dbSNP
rs1444170104 1260 dbSNP
rs887467650 1271 dbSNP
rs532693454 1274 dbSNP
rs758254316 1278 dbSNP
rs1379918240 1286 dbSNP
rs929086862 1290 dbSNP
rs879543484 1291 dbSNP
rs1278247505 1292 dbSNP
rs76827732 1308 dbSNP
rs752472302 1313 dbSNP
rs1312104258 1329 dbSNP
rs1207152452 1333 dbSNP
rs1231522571 1334 dbSNP
rs554951528 1341 dbSNP
rs1454078202 1347 dbSNP
rs1020578394 1349 dbSNP
rs1270448401 1353 dbSNP
rs1346928491 1358 dbSNP
rs944919097 1365 dbSNP
rs1419835532 1368 dbSNP
rs988897063 1370 dbSNP
rs957699223 1378 dbSNP
rs1032988745 1383 dbSNP
rs1168126935 1396 dbSNP
rs1353644935 1396 dbSNP
rs910821623 1397 dbSNP
rs1304827492 1399 dbSNP
rs1343542154 1401 dbSNP
rs1403225596 1405 dbSNP
rs986376043 1405 dbSNP
rs957350972 1406 dbSNP
rs925987984 1408 dbSNP
rs1001538716 1410 dbSNP
rs906077509 1418 dbSNP
rs538567425 1435 dbSNP
rs1341851700 1436 dbSNP
rs1223907096 1437 dbSNP
rs187559066 1445 dbSNP
rs1489992770 1448 dbSNP
rs769466640 1451 dbSNP
rs967875454 1451 dbSNP
rs571950219 1452 dbSNP
rs1013444464 1457 dbSNP
rs1474047432 1458 dbSNP
rs1256300410 1459 dbSNP
rs1404687324 1463 dbSNP
rs1048391881 1465 dbSNP
rs1322992682 1465 dbSNP
rs960585327 1465 dbSNP
rs1217844117 1470 dbSNP
rs1364699827 1476 dbSNP
rs1033581979 1477 dbSNP
rs1487013699 1479 dbSNP
rs1002144189 1482 dbSNP
rs929714366 1484 dbSNP
rs1215779712 1485 dbSNP
rs1322851566 1486 dbSNP
rs761070068 1490 dbSNP
rs776445956 1490 dbSNP
rs898259751 1497 dbSNP
rs1231506630 1499 dbSNP
rs897570315 1500 dbSNP
rs1355087528 1503 dbSNP
rs759479630 1507 dbSNP
rs1472431340 1508 dbSNP
rs1279033679 1509 dbSNP
rs750495918 1513 dbSNP
rs532612170 1519 dbSNP
rs942377870 1530 dbSNP
rs1382577721 1538 dbSNP
rs1385796829 1542 dbSNP
rs767579405 1544 dbSNP
rs1402570995 1552 dbSNP
rs541939684 1566 dbSNP
rs566966679 1570 dbSNP
rs753157174 1571 dbSNP
rs1244738346 1577 dbSNP
rs1395098064 1578 dbSNP
rs1353431762 1580 dbSNP
rs910746346 1584 dbSNP
rs868462310 1593 dbSNP
rs1461503946 1596 dbSNP
rs1205101436 1602 dbSNP
rs547111235 1606 dbSNP
rs527477907 1612 dbSNP
rs936291826 1618 dbSNP
rs1416717435 1624 dbSNP
rs957437811 1630 dbSNP
rs1033101921 1632 dbSNP
rs925944669 1641 dbSNP
rs561947160 1642 dbSNP
rs970042345 1644 dbSNP
rs1400542704 1645 dbSNP
rs1395851134 1646 dbSNP
rs1329960109 1647 dbSNP
rs1338108193 1648 dbSNP
rs541727797 1660 dbSNP
rs1227034629 1662 dbSNP
rs1287166707 1664 dbSNP
rs531515556 1665 dbSNP
rs767884163 1673 dbSNP
rs1323575219 1682 dbSNP
rs1224994404 1702 dbSNP
rs762131150 1709 dbSNP
rs7978518 1713 dbSNP
rs746890892 1719 dbSNP
rs960508964 1731 dbSNP
rs182930844 1732 dbSNP
rs774781762 1733 dbSNP
rs980673394 1738 dbSNP
rs1436019210 1744 dbSNP
rs1275544382 1749 dbSNP
rs1211937266 1750 dbSNP
rs1334165174 1752 dbSNP
rs1251211490 1765 dbSNP
rs1026461541 1767 dbSNP
rs1229973340 1770 dbSNP
rs1376206017 1771 dbSNP
rs1465721939 1773 dbSNP
rs1324877730 1779 dbSNP
rs995419291 1783 dbSNP
rs1027281847 1786 dbSNP
rs898219509 1787 dbSNP
rs993587183 1789 dbSNP
rs2306732 1790 dbSNP
rs1371676190 1794 dbSNP
rs1006635622 1795 dbSNP
rs1438090709 1796 dbSNP
rs1393175990 1797 dbSNP
rs1008641496 1802 dbSNP
rs1337156428 1805 dbSNP
rs1204376529 1809 dbSNP
rs889433133 1826 dbSNP
rs1051214568 1832 dbSNP
rs1050561281 1837 dbSNP
rs1201757074 1846 dbSNP
rs936229451 1850 dbSNP
rs1194123268 1856 dbSNP
rs1375167712 1860 dbSNP
rs1428280014 1866 dbSNP
rs145722932 1870 dbSNP
rs1370967553 1873 dbSNP
rs913142833 1892 dbSNP
rs1366203899 1895 dbSNP
rs1170218316 1897 dbSNP
rs1382465135 1903 dbSNP
rs1454951893 1910 dbSNP
rs540360883 1912 dbSNP
rs574914569 1914 dbSNP
rs935823338 1915 dbSNP
rs1192244209 1923 dbSNP
rs1468423170 1940 dbSNP
rs1361522290 1942 dbSNP
rs1219202346 1943 dbSNP
rs763461192 1944 dbSNP
rs917277412 1948 dbSNP
rs1488171594 1952 dbSNP
rs1205771642 1955 dbSNP
rs149767308 1958 dbSNP
rs925813311 1960 dbSNP
rs992907754 1961 dbSNP
rs538506926 1968 dbSNP
rs1188387563 1980 dbSNP
rs1337722302 1983 dbSNP
rs1250927234 1985 dbSNP
rs937440382 1986 dbSNP
rs1348816094 1987 dbSNP
rs980161786 1993 dbSNP
rs1305338167 1996 dbSNP
rs1290082535 1998 dbSNP
rs569581719 2005 dbSNP
rs1433827232 2009 dbSNP
rs775891222 2012 dbSNP
rs1384676553 2015 dbSNP
rs559338795 2029 dbSNP
rs1226562443 2042 dbSNP
rs1027997087 2046 dbSNP
rs1370121236 2057 dbSNP
rs1317416403 2064 dbSNP
rs1239944807 2066 dbSNP
rs1270074504 2071 dbSNP
rs970157151 2072 dbSNP
rs1208268672 2074 dbSNP
rs917227109 2074 dbSNP
rs1244161953 2075 dbSNP
rs1329007886 2076 dbSNP
rs1484413034 2079 dbSNP
rs1180456299 2084 dbSNP
rs1413753803 2095 dbSNP
rs1392580333 2099 dbSNP
rs972030440 2106 dbSNP
rs993258452 2113 dbSNP
rs1409044707 2114 dbSNP
rs7722 2125 dbSNP
rs566892447 2131 dbSNP
rs1336929230 2134 dbSNP
rs1435744232 2141 dbSNP
rs376346945 2141 dbSNP
rs1445600046 2149 dbSNP
rs546755375 2152 dbSNP
rs530230641 2157 dbSNP
rs1397338612 2160 dbSNP
rs1018599903 2172 dbSNP
rs571319882 2174 dbSNP
rs888869689 2174 dbSNP
rs777834044 2178 dbSNP
rs1228037358 2195 dbSNP
rs748209242 2195 dbSNP
rs746336604 2200 dbSNP
rs568126113 2201 dbSNP
rs1314132153 2202 dbSNP
rs376432410 2203 dbSNP
rs779049916 2207 dbSNP
rs995133956 2208 dbSNP
rs1237206180 2211 dbSNP
rs776014460 2212 dbSNP
rs1250094339 2215 dbSNP
rs904719957 2215 dbSNP
rs1042342661 2220 dbSNP
rs1486775874 2229 dbSNP
rs1282255827 2230 dbSNP
rs770357610 2231 dbSNP
rs1017753125 2236 dbSNP
rs946356309 2250 dbSNP
rs895810274 2253 dbSNP
rs746515000 2255 dbSNP
rs1463487905 2257 dbSNP
rs1306052804 2259 dbSNP
rs1006583845 2272 dbSNP
rs868709991 2300 dbSNP
rs937369935 2313 dbSNP
rs1240568850 2317 dbSNP
rs777457778 2324 dbSNP
rs1370077863 2332 dbSNP
rs1044875651 2340 dbSNP
rs1305658940 2349 dbSNP
rs889549665 2350 dbSNP
rs930458616 2353 dbSNP
rs920479689 2355 dbSNP
rs1483015123 2357 dbSNP
rs1050743723 2364 dbSNP
rs998267271 2369 dbSNP
rs372953324 2370 dbSNP
rs961944055 2371 dbSNP
rs545789091 2373 dbSNP
rs911519497 2392 dbSNP
rs368406143 2394 dbSNP
rs1419987771 2396 dbSNP
rs987118652 2397 dbSNP
rs548371527 2405 dbSNP
rs1434447220 2408 dbSNP
rs953105589 2409 dbSNP
rs191151666 2410 dbSNP
rs1469039994 2411 dbSNP
rs1363363975 2418 dbSNP
rs1188713209 2419 dbSNP
rs1476339841 2422 dbSNP
rs891494811 2443 dbSNP
rs562441682 2450 dbSNP
rs7309789 2454 dbSNP
rs1441567352 2463 dbSNP
rs935925083 2466 dbSNP
rs1206888646 2468 dbSNP
rs1295847142 2473 dbSNP
rs925761481 2477 dbSNP
rs999973258 2484 dbSNP
rs1348452964 2490 dbSNP
rs1259680589 2503 dbSNP
rs1276421755 2504 dbSNP
rs969287596 2505 dbSNP
rs1044262464 2508 dbSNP
rs948760810 2515 dbSNP
rs186392323 2516 dbSNP
rs1450937268 2518 dbSNP
rs1186503718 2520 dbSNP
rs917326117 2526 dbSNP
rs1020484059 2530 dbSNP
rs992811222 2532 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' gacacccucggugucCCACGAc 5'
                         |||||| 
Target 5' -uccaucucacuucuGGUGCUa 3'
 		1 - 21
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 ENST00000228515.1 | 3UTR | UCCAUCUCACUUCUGGUGCUACCUG
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
88 hsa-miR-6871-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT061678 BTG2 BTG anti-proliferation factor 2 2 4
MIRT116181 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT150139 MIDN midnolin 2 2
MIRT197058 NKIRAS2 NFKB inhibitor interacting Ras like 2 2 2
MIRT225108 GOLGA7 golgin A7 2 2
MIRT376288 CALM3 calmodulin 3 2 2
MIRT454810 NEDD9 neural precursor cell expressed, developmentally down-regulated 9 2 2
MIRT464228 VEGFA vascular endothelial growth factor A 2 6
MIRT466961 STAT3 signal transducer and activator of transcription 3 2 2
MIRT468219 SGK1 serum/glucocorticoid regulated kinase 1 2 2
MIRT472460 NASP nuclear autoantigenic sperm protein 2 2
MIRT474203 LEPRE1 prolyl 3-hydroxylase 1 1 1
MIRT475836 HDGF heparin binding growth factor 2 4
MIRT478667 CTC1 CST telomere replication complex component 1 2 14
MIRT478707 CSRNP2 cysteine and serine rich nuclear protein 2 2 2
MIRT478982 COMMD2 COMM domain containing 2 2 2
MIRT479693 CCNT2 cyclin T2 2 6
MIRT488440 ULBP2 UL16 binding protein 2 2 2
MIRT492511 RAET1L retinoic acid early transcript 1L 2 2
MIRT492975 NCS1 neuronal calcium sensor 1 2 2
MIRT494158 COL4A1 collagen type IV alpha 1 chain 2 6
MIRT495934 SLC7A5P2 solute carrier family 7 member 5 pseudogene 2 2 2
MIRT496210 PLEKHG2 pleckstrin homology and RhoGEF domain containing G2 2 2
MIRT496356 PPY pancreatic polypeptide 2 2
MIRT496385 ZC3H6 zinc finger CCCH-type containing 6 2 2
MIRT496463 DCTN5 dynactin subunit 5 2 2
MIRT497642 GLDN gliomedin 2 2
MIRT498496 FRK fyn related Src family tyrosine kinase 2 2
MIRT501928 MCL1 MCL1, BCL2 family apoptosis regulator 2 8
MIRT513286 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT514767 RBM4B RNA binding motif protein 4B 2 2
MIRT514916 MDM2 MDM2 proto-oncogene 2 6
MIRT515669 LRRC27 leucine rich repeat containing 27 2 2
MIRT520367 UBE2G2 ubiquitin conjugating enzyme E2 G2 2 2
MIRT523960 DYNLT1 dynein light chain Tctex-type 1 2 4
MIRT526859 KIFC1 kinesin family member C1 2 2
MIRT527673 CASP8 caspase 8 2 2
MIRT527828 TMEM74B transmembrane protein 74B 2 2
MIRT529553 EI24 EI24, autophagy associated transmembrane protein 2 2
MIRT530547 SYNPO synaptopodin 2 2
MIRT531725 TARS threonyl-tRNA synthetase 2 2
MIRT533340 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT533620 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT537226 GAN gigaxonin 2 2
MIRT544430 ZNF460 zinc finger protein 460 2 4
MIRT546905 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 2
MIRT547102 PLAG1 PLAG1 zinc finger 2 2
MIRT547820 ISG20L2 interferon stimulated exonuclease gene 20 like 2 2 2
MIRT548236 FEM1B fem-1 homolog B 2 2
MIRT550034 WWTR1 WW domain containing transcription regulator 1 2 2
MIRT554337 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 4
MIRT565483 SPRTN SprT-like N-terminal domain 2 2
MIRT568200 CBX6 chromobox 6 2 2
MIRT569754 C2orf71 chromosome 2 open reading frame 71 2 2
MIRT571369 ZNF45 zinc finger protein 45 2 2
MIRT609886 CLASP1 cytoplasmic linker associated protein 1 2 4
MIRT640543 C3orf36 chromosome 3 open reading frame 36 2 2
MIRT640885 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT643494 LRCH3 leucine rich repeats and calponin homology domain containing 3 2 2
MIRT643627 YY2 YY2 transcription factor 2 2
MIRT644384 ZNF286A zinc finger protein 286A 2 2
MIRT646126 SLC26A9 solute carrier family 26 member 9 2 2
MIRT655939 NDUFA4P1 NDUFA4, mitochondrial complex associated pseudogene 1 2 2
MIRT656057 MYLK4 myosin light chain kinase family member 4 2 2
MIRT658767 EIF4EBP2 eukaryotic translation initiation factor 4E binding protein 2 2 2
MIRT661583 EPHX2 epoxide hydrolase 2 2 2
MIRT664285 RNMTL1 mitochondrial rRNA methyltransferase 3 2 2
MIRT689391 ZNF850 zinc finger protein 850 2 2
MIRT694530 TRIM72 tripartite motif containing 72 2 2
MIRT694626 ZFPM1 zinc finger protein, FOG family member 1 2 2
MIRT695133 PRY2 PTPN13-like, Y-linked 2 2 2
MIRT695150 PRY PTPN13-like, Y-linked 2 2
MIRT697468 ZC3H4 zinc finger CCCH-type containing 4 2 2
MIRT701919 MLXIP MLX interacting protein 2 2
MIRT704548 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT704791 CDK6 cyclin dependent kinase 6 2 2
MIRT705696 ANKRD13A ankyrin repeat domain 13A 2 2
MIRT707992 OTUD4 OTU deubiquitinase 4 2 2
MIRT708739 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT713401 FAM179A TOG array regulator of axonemal microtubules 2 2 2
MIRT713846 FAM3D family with sequence similarity 3 member D 2 2
MIRT716998 ARL6IP4 ADP ribosylation factor like GTPase 6 interacting protein 4 2 2
MIRT718511 DIRAS1 DIRAS family GTPase 1 2 2
MIRT718698 BTBD9 BTB domain containing 9 2 2
MIRT719578 TYRO3 TYRO3 protein tyrosine kinase 2 2
MIRT720892 CSGALNACT1 chondroitin sulfate N-acetylgalactosaminyltransferase 1 2 2
MIRT722633 C8A complement C8 alpha chain 2 2
MIRT723333 DGAT1 diacylglycerol O-acyltransferase 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-6871-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-6871-3p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-6871-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-6871-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)

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