miRTarBase - #MIRT484029


—
pre-miRNA Information
pre-miRNA hsa-mir-642b   
Genomic Coordinates chr19: 45674932 - 45675008
Description Homo sapiens miR-642b stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-642b-3p
Sequence 47| AGACACAUUUGGAGAGGGACCC |68
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN24410683 6 COSMIC
COSN8407659 14 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs778534861 2 dbSNP
rs111664333 4 dbSNP
rs998995912 5 dbSNP
rs1206620651 6 dbSNP
rs1317907103 7 dbSNP
rs374751972 13 dbSNP
rs78902025 15 dbSNP
rs775648115 20 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol LARP4B   
Synonyms KIAA0217, LARP5
Description La ribonucleoprotein domain family member 4B
Transcript NM_015155   
Expression
Putative miRNA Targets on LARP4B
3'UTR of LARP4B
(miRNA target sites are highlighted)		 
>LARP4B|NM_015155|3'UTR
   1 AAACCGTACGTCTGGGAGGGGTCGCAGAGCGCTGTGTTAACCACAAACGAGACACTCTCCCACTCAGTGCGAGGGCGAGC
  81 CGCTGGTTAGGAGCTTGCAGTGTCTGAGGCCTGTGGGATCCTCAAGTTGGTTTTCTTCTGTGAGTTGGATTCTCCCCCTC
 161 TTGAAAAAAAATCGATTTTTCAGGATTTAATTAATACAAACCTTATTTTAGGTTGGTGCTTAACTGGAGGTGATGCATAA
 241 GTCTGATTTTTTTTTCCAAGATAGAAAAAGCATTTATCCTAACAAATTGGTATTTTTTATTAAGCCTCCATGTGGCTCTG
 321 AATGCAAGCTATATATAGTGAGTTTTTCTAAATTAAGGGAACTCTGCTTTTTTTTTTTTTTTTTAAGTAACTGGTCTGTA
 401 AGTGCATATCTCTAGAACGTCCCCGCAGATGAATGAGGGCCAGTGGCCTTGGCAGAGGCAGGTGTGGCCTCGTAGAGGCA
 481 GTGCTGGCCGCGCCAGGGCATCAGTGCTGATGTGGGAGCTGTGCTTCCACCTAAGCCGTTGGTAGGGGACTGTGGCATTT
 561 AAGAATGTAGAGAGCGCATCCTTTTTGATCTCCTGGGCGGAGTGAACCTGCAGGGGCCACCCCAGAAACCTTGGTTCTGA
 641 TGCACTGCAAGCAAGTAACCAGCTTCTCACTCCAGTTTCAAGTGGCTATTATGTAATATAAATTCAAAGCACATTGTGAA
 721 TAGAACCTACATGAAAACATACACTTTGTTGCCCACTGACATGTTACCAGAAGTTGTACCATGATGTTGTTTTGACCCCT
 801 GTGAGCTGATGGCCCCGGCCCTGCTCTGTGCACATTTCTGTCCGTGTTCCCCAGCACTCTGGTTGGAGAGAGTCCACATC
 881 TTCAGCTCCGTGTGGACATCTCCCTGTACCTCTGCATCAGCACATGGATTTAAGAGTTATGTAATCGTGAGAGAATGGTG
 961 TTTGTGGTTTTTCCCCCTCTTTGGCTGGTGGAGGATAAAGTTCCTGCTCTTTTACCTCCAAGACGAGGGCCTCATTGATT
1041 CACTTCCAGAAGTGCTGCACTTCTGAAGAACAAGGATGCACTAAAGTTAGCAAGTTTATAATAAAGTTAAATATAAATTA
1121 TTTTGTTTTAAAATGCCTCAAATTTTTCTTTATTCTAAGCAGCAAACATTAAAATAAGAATATTTCCTGCTAAATGTAAC
1201 CATACACTTTATTCCACAAAATGTTATTTAACAAGACTGAGGGTTTTTTTTAAGAAAAAATTATTTCCATCCAATATTTA
1281 AAGACTTGAATTTTATTTAAACTTGAAAATGACTTTGCCTTAACTTTTGTATAAGACAGCTTAGAGTCCATGGAGCCCGG
1361 CCCTGGGTTGGCGTGAGTGGGTCAGAGTTACTCAGTTACTGCGTGGATCTCCTGTCGCTAGTTTTACTGAGTAAGCATAC
1441 TGTAGTACAAGAGCTAGTAGTAGTTTTTGTAATATACCTTAAAGATCTTCAACAGTTGATCTTTTTTCAGAATGTTGGAA
1521 AATCCTGTAAATGCAAATAGTCAATACTGTATTAAATACGTGCACTTGGAGTGTGCTTCGCTTGTACAGTTGTAAATAAT
1601 CAGAACATATGAAAAAGGTACCCTACAGAGAAAATTCTGATACAGATTATTGATATATTATAAATGTTGCTGTTGAGCGG
1681 GATGTAGATAAACTAAATGTTGTGGTTTGAATATTATTTTGATTTGTTGAGATTTTCTTTTTTCTCTTACATCGGTGTGT
1761 TGAACTGATTCTGCCTCTTTGCTGCAAAAGGGAATTGGAAAGTCTTATTAAAAGCCTCCAGATGTTTTCATACTCTTTTA
1841 AAATGTATGTAAATGCATACTAATCATATCTAATGTGAAAGAGTTTTAAAGTATATAGAGAGCAAAAACTGGCAGGATCG
1921 TAAGTGAAGGTGACTAGTAATCTAATTTAAATCACCTGCAGCTAAGCATGATTGACCCTGCCAGAGGAAAACATGCCTAT
2001 TTGACCATTTCCTTTAAAGCAGTTGCCATTATTCAAATACAGAGAAATAGCCACAGGGCTAGTGTTTTTCAAATGCATTT
2081 TAAAGAACATGGGGATTTTTTTTTGTAGTTGTCAGTTCACTGACCAAAAAAAAAAAAAAAATCAGAAATAATTGATCTGT
2161 GAAACCCAAACTCTCAATACTCAGAAAGCTGGGAGGCAACCTCGAGGCCTGGGCCTACGAGCTGCATCTTCGCTACGGAA
2241 GGGCCAGGGCGCCATCAGCCATTCCCAAAACACAAGGCCTGCCCGTCCGCCAGTGAGTCCTTGGTTTTTAATAATGAGAA
2321 GTCCTTTCCCCCAAGGTGTGAGCATTGCAGCGCAGTGTGTGTGTGTGGTTAGAGCCAGCTTAGTCCTTCACTTTGTCGAC
2401 CGAAGTGGGAGCTCAACAGCTGCATGAGGAGGGCAGCGCGTGCATTAGCCAGTCGCCACTGGAGGGCTCTGCTGCCCTCC
2481 GGTCAATACACTGTAGTTACTGCCTAGCCAGCAGCAGTCTTCTGCATCAAGAACTGAAACGTTGCTCGGAGGTGATTTTT
2561 ATAGCATCCTTTTTAATTAAAGGTGAAATACAGATTGCTATATAATGTCTGAAAAAACCTGATACTACTTCAAGAGTTTC
2641 TGCTCAGAAGAAAATGAGAGTTATCATAATAGGAAGCTGTGGCGGTCCATGCCAACTGTGCTGTGTCACATACAGCGATG
2721 AGAGTGGCTTTCATACTTTTTTTTTTTTTAAGTTAACACCCTCCTTTACCCCCAGCAGTATCTCAGGTTATAGAATCAGA
2801 GATGCAGCAGTGACAAATGGCATTTTAACTTGTAAAATCGTGTGATGATGCTTATCATTTTGAAATAGAAGAATAAAAAC
2881 CTGGTCCCGTTTCACCAGACATGAATTTCAAGTGGAGTCGTCGTTCTCTGAGAGTGAGTGTCTTGACATTTTCACCCAGG
2961 CCCTCCTGTCATCACATCACCGGCTGTCACTGGCGGGTGGCCGTAAACGTCCTGCGTTGCTATATTAGGATCTCTGCAGT
3041 TCAGGCTTCAAAACCAGTTCAGTGTATCCGGGCGACGGGTAGTGGTGGTGCATGCCTGTCTGTGTGCCCCGCTGGCGAGC
3121 TGTAGTTGCGGCTTGCGTGCCTCGCGGCCCACTACAGGGCTGCAGACAATCGAGGCGAGGGCGCTGGCCGCCAGCAGCTC
3201 ACAGCGCGGGGGTCATGTGGTCGCTCCTCGAGGGTTTCGTTTTTGTTCTGCTTCATTAAGACTGGAATCAAGCTTACATG
3281 TAAACTATTGGTAATTTAAGTTTCCTTTTGTGTCATTCAGTGTAAAACTGTCTAATTTGAAAAAAAATGTAGGTTATGAA
3361 AATAAAGATTTAGGCACTGTTCAATTTTTCTTTTGATTTTTTTTAAATTAAAATTTCTTCAATAATGCATCTTTTCTAAA
3441 CATAGTTTTTTGTCTGTTCCCATAAGTGCATGAGAAAGAAACACGGGCCTCATATATGATTGGATCCTAAAGCCTTCTCA
3521 CCTACGTGGGGGCTGGCTGTGGCACACGGGGCTCACCCTTTGTGTTTTAGTGGTTCAGAGTGAGCATTAACATCAGATGC
3601 TCATGCGGAGACAGCCATTACTGTGACTGCCAAGATGTACTGCAAAAATACATGTTCCTGTATCAGGACTTTGATTTTGT
3681 TAAAATGGCACTCTCTCCAAAGCTGTGTCCATGAAGCTGTTTGGAGCTAACGTTGGGTCTTCATGGTGATGGACTCATCC
3761 TTAGGCAGCAGTGATGTCTGCACTAGGAAGAGGCTGGCGGGAGGCGGGGCCCCTCCTGTGCCAGGCACCGAGTGGATGGG
3841 GGACTGATTAACATGTTGCTGCCTTCCTCCTCTGTGCATTGCCTTTTCATGTCGTCTTCCCATTTTTACTCTTTTTCTGA
3921 TGGAATTAATATTCTTGATCTGTTAAGGCTATTAATCCTTTGTCATATATGTTACAAATATTTTCTTTCAATCTACCATT
4001 TGTCTTAACTCTTTATTTAGAATAGTATCTTTTACGGTGTTTAATTATTGTGTAGTAAAATCTATCAATCTTCTCCTTTG
4081 TTGAGTGTCTTGGACTTGCTTAAGAAGCCTTTCCCTACTCCAGGGTCATAAAGTTAATAGTGTGTGTGTATGTGTGCGTG
4161 TGTGTGTGTGTGTGCGTGCACACGCACACACACACACACACGCTTTTAATCCAGCTGGGCCTAATCGTGTGTGTGGTGTG
4241 CGTGCTTAGGCAGGAACCCAGTTTTACTTTATGCCATGTGGAAAGTTTCTTTTTCCAGTATCACCAGTGAGTTCACTGTC
4321 TCTCCACTGGTCTGCAGTGCTGCTTCTGTTACTTGCAGACTTCCCACGTGTGCATGGATCTCCACCTGGGGTCTCTAGGG
4401 TCTCTATTCTACACTGCCTATTTCCCTTTCTGTCCTAACACCATAGCATTTAACTCACCCGTCATCCTGTGTTGCTGAGA
4481 ATTTCCTTCATAGAACTCATCAAAGTATGATTAACTGTGCTCCCTGAGGGCAGGAATTATGCCATCTGGATCACCAGCCT
4561 CTCCCTTGTCCTTAGCACGCCATCTGCAAATTAGCAGATACTCGGTAAATGTGTATTAACTCGAAGTATATTTTGTGTCT
4641 TCTCTGTGCACAGCACTGCCCTGGGAAGAACTAGGATGAGGTATTGACTTGCTGTTGCCACATAACAAACCCTGCCAGAA
4721 CTCCCTGGATGGAAGTGACCACCGTGTATCTGTGGATTGTCTGCAGGGCTCTGCTGGGGTCAGCAGGTCCCACAAGAGAG
4801 CCAGGGCTCGGTCTCCTCATGGCTGTCAGAGGTTTACGTATTCCGCCTCCACCCACCAAAGTCTGAAGTTGTTGTATTCC
4881 ATTCCTTGCTATATCCACATCTTTTAATAATGCTAAAATCCCGTGTTTCTCTAAAGCATTGGATTGAACCAACTGAAGAA
4961 GGACCACGTGTGTTGCTGGGCCTGCTTGGGCACAAGCCGTTTCCGATCCAAGTCAACTGCTGGTCTGCTTAGACGAAGGT
5041 GTGTGGGTGTCTCCACCACGGAGAGGAGGGACAGCAGGTGAGACCATAGGCCAGGAAGGAAGGGCACAGCCTAAGCGTGC
5121 AGTGGCTTAGCCAGAGACCCTCGTGCACCAGCCTTCAGGTGCTTATGGAACTTATGTCAGCCCAGGCCATATCCAAGTGT
5201 GTGATGTCTCGGAGCATATATGCCAGGCCAGCCGGAGAGGCTTAGCCCTGCCCTGGTGGAGCTGGAGGGCCGCAGGGCCG
5281 CCCGGTGGGGTCAGGAGGTTGTGAAGAGGATCCTGATACAGGCTGGGCCTCCCTGCAGGCGTGAGCCCCGGAGCACGGGG
5361 TGAGCAGCTCCACCCAGAGGGGCTTGCAGGACCAAGCTGGGACAGCAACCACCAGGCCCTGGGGCAGATCAGTGAGCGTC
5441 CAGGAGATGCAGATGCAGAAGACAGCCAAATTCATTCACCTCTGCGTGGGCCTGTGAGGGCCCACAGAGATGCATTTTCA
5521 TTCACGACCAGGATTTCCTCGGCCGGAGCAGCCGCTTTTCCCAGCCGAAGCTCACTGTGTTTACTACATAGGATGTGAGT
5601 GTATAGAAAGACTCTCTCTAACGTTAGCTACGCGTGCAGAAATGTGGGGCGCTTACAAGTGTGGGCAGCCGCAGCCTGTT
5681 CCTCACCCCTGTCCTAACGGGACATACTCCACGCATGCACATTTAGGATCACCGTGTCTTCTCGTTGGACTGATCTGTCA
5761 TTAGGACCCTGGACCCAAGTAATTGTCTTTGCTCTGAAGTTTTGACAGTAACAAAGGCATTCCAGCTCTTTCTTTTTCAC
5841 TCCTGTCGGTGTAACGTGCCGTTTTTCATCCTTTGACTTTTAGCCCGCCTGTGCCCTGTCTGAAGGGAGTTGTCTGTGGA
5921 CAGCACGGAGTGGTGGGTGTTTGTAATCCACTCTGCCAGCCTCAGTCTTCTAACTGTTGCGTATGGACCAATTACATCTG
6001 CCCTTTCTCTTC
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' cccaGGGAGAGGUUU--ACACAGa 5'
              |:|||||||||  |||||| 
Target 5' ggcaCTCTCTCCAAAGCTGTGTCc 3'
 3687 - 3710 146.00 -23.80
2 
miRNA  3' cccaggGAGAGGUUUACACAga 5'
                |||  :||||||||  
Target 5' cagataCTCGGTAAATGTGTat 3'
 4595 - 4616 140.00 -13.70
3 
miRNA  3' ccCAGGGAGAGGUUUACACAga 5'
            | || | |||||:|||||  
Target 5' caGGCCATATCCAAGTGTGTga 3'
 5183 - 5204 140.00 -19.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30113902 6 COSMIC
COSN30116955 6 COSMIC
COSN21982524 15 COSMIC
COSN30499412 24 COSMIC
COSN31501833 27 COSMIC
COSN30450235 31 COSMIC
COSN30192941 50 COSMIC
COSN30152153 65 COSMIC
COSN28843128 70 COSMIC
COSN31494801 86 COSMIC
COSN31518084 163 COSMIC
COSN17075698 193 COSMIC
COSN31575834 245 COSMIC
COSN31603316 246 COSMIC
COSN21317294 264 COSMIC
COSN31569845 270 COSMIC
COSN17902350 325 COSMIC
COSN15661718 366 COSMIC
COSN19657777 367 COSMIC
COSN29019618 368 COSMIC
COSN16284154 472 COSMIC
COSN28399723 692 COSMIC
COSN26565573 727 COSMIC
COSN24680304 752 COSMIC
COSN28650551 844 COSMIC
COSN30542486 888 COSMIC
COSN24719556 972 COSMIC
COSN31609003 1025 COSMIC
COSN21934337 1075 COSMIC
COSN29432549 1091 COSMIC
COSN31563408 1155 COSMIC
COSN31592821 1243 COSMIC
COSN21293759 1303 COSMIC
COSN26563390 1318 COSMIC
COSN31608406 1485 COSMIC
COSN19377664 1535 COSMIC
COSN31610801 1545 COSMIC
COSN1504249 1638 COSMIC
COSN31547630 1687 COSMIC
COSN30540438 1754 COSMIC
COSN5886875 2085 COSMIC
COSN27465519 2126 COSMIC
COSN30005228 2141 COSMIC
COSN21698415 2177 COSMIC
COSN31959510 2203 COSMIC
COSN10074042 2234 COSMIC
COSN4695410 2593 COSMIC
COSN29484581 2663 COSMIC
COSN27315346 2737 COSMIC
COSN25478435 2754 COSMIC
COSN25484887 2766 COSMIC
COSN31545368 3069 COSMIC
COSN8640580 3151 COSMIC
COSN26480563 3271 COSMIC
rs9124 844 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs202103534 4 dbSNP
rs372671338 5 dbSNP
rs1408188382 6 dbSNP
rs766553624 7 dbSNP
rs760903927 8 dbSNP
rs369034490 9 dbSNP
rs1488595101 10 dbSNP
rs1187300171 15 dbSNP
rs767645088 18 dbSNP
rs1192789626 19 dbSNP
rs761712085 22 dbSNP
rs762762869 23 dbSNP
rs375294911 24 dbSNP
rs375228225 30 dbSNP
rs200155088 31 dbSNP
rs758405099 32 dbSNP
rs956028179 33 dbSNP
rs1419645675 34 dbSNP
rs1296825553 38 dbSNP
rs986228945 44 dbSNP
rs746529293 45 dbSNP
rs1222192912 46 dbSNP
rs369739919 48 dbSNP
rs144868339 49 dbSNP
rs755071641 49 dbSNP
rs1377951032 54 dbSNP
rs1009375417 56 dbSNP
rs1243273008 58 dbSNP
rs570638590 59 dbSNP
rs879742470 63 dbSNP
rs1201052302 70 dbSNP
rs1003628506 71 dbSNP
rs199858821 76 dbSNP
rs1479461469 77 dbSNP
rs1237156871 78 dbSNP
rs1231801476 81 dbSNP
rs1381016230 82 dbSNP
rs559713818 82 dbSNP
rs1157450914 83 dbSNP
rs1404965414 86 dbSNP
rs1415444868 96 dbSNP
rs533860961 99 dbSNP
rs1357736555 104 dbSNP
rs1450032380 112 dbSNP
rs752758889 113 dbSNP
rs368748710 120 dbSNP
rs1310914762 124 dbSNP
rs1007330176 125 dbSNP
rs188031987 126 dbSNP
rs1222846287 128 dbSNP
rs1277756069 134 dbSNP
rs1323936465 141 dbSNP
rs1284978377 144 dbSNP
rs1346994408 145 dbSNP
rs1219693587 148 dbSNP
rs1045258289 158 dbSNP
rs1226785333 161 dbSNP
rs1459765117 164 dbSNP
rs1005283789 170 dbSNP
rs1200762441 171 dbSNP
rs56215024 172 dbSNP
rs891139879 172 dbSNP
rs768707171 173 dbSNP
rs145677703 174 dbSNP
rs1478656149 176 dbSNP
rs1172446016 181 dbSNP
rs1423516957 183 dbSNP
rs563584409 192 dbSNP
rs765854340 193 dbSNP
rs2892160 195 dbSNP
rs550258389 204 dbSNP
rs1467511197 214 dbSNP
rs1049236092 216 dbSNP
rs930077727 235 dbSNP
rs1481111870 236 dbSNP
rs1400548696 239 dbSNP
rs868085350 240 dbSNP
rs897309345 241 dbSNP
rs919517189 250 dbSNP
rs1332267693 256 dbSNP
rs565059369 256 dbSNP
rs74115585 257 dbSNP
rs1321241471 258 dbSNP
rs1336603648 262 dbSNP
rs1202646981 271 dbSNP
rs944742050 284 dbSNP
rs910533895 287 dbSNP
rs1194252108 292 dbSNP
rs980363947 293 dbSNP
rs1452184886 297 dbSNP
rs563522995 305 dbSNP
rs986647166 306 dbSNP
rs760078407 310 dbSNP
rs1470592129 311 dbSNP
rs915307189 318 dbSNP
rs1479036665 323 dbSNP
rs1171797276 324 dbSNP
rs17159943 325 dbSNP
rs766630236 338 dbSNP
rs988932274 345 dbSNP
rs1392263553 350 dbSNP
rs1157478799 353 dbSNP
rs1416935317 356 dbSNP
rs955848289 357 dbSNP
rs1343538647 361 dbSNP
rs1401725795 363 dbSNP
rs1392392591 367 dbSNP
rs1225525670 368 dbSNP
rs1339536064 368 dbSNP
rs956494097 368 dbSNP
rs1323907994 369 dbSNP
rs1470850127 383 dbSNP
rs371838932 384 dbSNP
rs1164402577 385 dbSNP
rs1209297227 385 dbSNP
rs1274136923 385 dbSNP
rs58718835 385 dbSNP
rs74828159 385 dbSNP
rs879107294 385 dbSNP
rs1240756620 386 dbSNP
rs1369824484 387 dbSNP
rs1202877400 391 dbSNP
rs1458011725 391 dbSNP
rs1461761501 398 dbSNP
rs78608705 402 dbSNP
rs1034969974 403 dbSNP
rs978588601 405 dbSNP
rs1003459590 406 dbSNP
rs1341264320 412 dbSNP
rs572811759 414 dbSNP
rs1023288189 415 dbSNP
rs761584284 418 dbSNP
rs1225716215 419 dbSNP
rs1376982677 421 dbSNP
rs562383747 424 dbSNP
rs76896344 425 dbSNP
rs1485130293 427 dbSNP
rs55921400 428 dbSNP
rs1453974802 430 dbSNP
rs575994548 433 dbSNP
rs1424061295 436 dbSNP
rs1182539622 459 dbSNP
rs1382859002 462 dbSNP
rs1008832582 463 dbSNP
rs1235683105 464 dbSNP
rs1318916803 470 dbSNP
rs147517439 471 dbSNP
rs7703 472 dbSNP
rs1451412073 478 dbSNP
rs993658568 481 dbSNP
rs144806278 482 dbSNP
rs55861321 489 dbSNP
rs573391637 490 dbSNP
rs368006313 491 dbSNP
rs1315622974 492 dbSNP
rs779971222 504 dbSNP
rs1256967500 509 dbSNP
rs1445138909 518 dbSNP
rs946662599 523 dbSNP
rs906049415 526 dbSNP
rs1202715546 530 dbSNP
rs567984723 537 dbSNP
rs190026923 538 dbSNP
rs1406563586 544 dbSNP
rs1485399726 546 dbSNP
rs535441144 553 dbSNP
rs185518642 561 dbSNP
rs375396945 566 dbSNP
rs570072537 568 dbSNP
rs1290958361 573 dbSNP
rs916891893 574 dbSNP
rs766622512 575 dbSNP
rs927766034 575 dbSNP
rs546364994 576 dbSNP
rs978492152 577 dbSNP
rs969349713 581 dbSNP
rs964488316 587 dbSNP
rs769951770 593 dbSNP
rs1017392786 595 dbSNP
rs983811653 598 dbSNP
rs150639670 599 dbSNP
rs559734981 611 dbSNP
rs571042910 612 dbSNP
rs1222046180 618 dbSNP
rs547977444 619 dbSNP
rs527912314 621 dbSNP
rs1363004741 624 dbSNP
rs1319602227 627 dbSNP
rs1291009811 633 dbSNP
rs1198836451 634 dbSNP
rs370683351 641 dbSNP
rs17293531 659 dbSNP
rs774929589 673 dbSNP
rs1192916499 683 dbSNP
rs1363378456 689 dbSNP
rs117349341 691 dbSNP
rs1424693975 692 dbSNP
rs1005641952 693 dbSNP
rs1425454258 699 dbSNP
rs1466356749 709 dbSNP
rs1352904899 713 dbSNP
rs531202688 715 dbSNP
rs1459499139 721 dbSNP
rs1294681706 723 dbSNP
rs557673381 731 dbSNP
rs1280519782 739 dbSNP
rs1341460292 748 dbSNP
rs889379904 749 dbSNP
rs1051084685 751 dbSNP
rs946736364 754 dbSNP
rs893808764 759 dbSNP
rs1223095461 760 dbSNP
rs1266002128 769 dbSNP
rs1490174584 773 dbSNP
rs896093513 777 dbSNP
rs1265077733 787 dbSNP
rs181401650 798 dbSNP
rs1186207058 801 dbSNP
rs934296890 816 dbSNP
rs778170306 817 dbSNP
rs544316770 822 dbSNP
rs576836085 822 dbSNP
rs935390194 826 dbSNP
rs928011168 827 dbSNP
rs1300512295 831 dbSNP
rs11253452 833 dbSNP
rs577841444 840 dbSNP
rs1359387413 843 dbSNP
rs9124 844 dbSNP
rs1358032224 846 dbSNP
rs910384625 852 dbSNP
rs1288059962 855 dbSNP
rs1447415702 859 dbSNP
rs574301387 862 dbSNP
rs1214770967 864 dbSNP
rs1227259713 871 dbSNP
rs191432904 872 dbSNP
rs983998669 884 dbSNP
rs1182610717 887 dbSNP
rs1384696308 888 dbSNP
rs952403112 890 dbSNP
rs1161031309 891 dbSNP
rs954776734 894 dbSNP
rs1316719113 901 dbSNP
rs1361210563 907 dbSNP
rs1025250388 909 dbSNP
rs972341964 910 dbSNP
rs972409734 912 dbSNP
rs1243110064 916 dbSNP
rs765765251 924 dbSNP
rs538186208 939 dbSNP
rs760253460 940 dbSNP
rs141866145 946 dbSNP
rs1296004883 947 dbSNP
rs1016955875 949 dbSNP
rs2386869 953 dbSNP
rs1204619344 955 dbSNP
rs187040533 958 dbSNP
rs1242741440 967 dbSNP
rs747324029 971 dbSNP
rs1009077425 972 dbSNP
rs749986012 978 dbSNP
rs1415558945 981 dbSNP
rs767203088 993 dbSNP
rs1011145063 994 dbSNP
rs1470093247 997 dbSNP
rs1023534966 1007 dbSNP
rs893841445 1024 dbSNP
rs1052449728 1025 dbSNP
rs999486771 1044 dbSNP
rs906625376 1046 dbSNP
rs1449966192 1072 dbSNP
rs1046908957 1077 dbSNP
rs1332820604 1080 dbSNP
rs947952322 1083 dbSNP
rs1335777457 1100 dbSNP
rs1490904559 1102 dbSNP
rs1277703825 1115 dbSNP
rs1248487307 1137 dbSNP
rs1223870701 1138 dbSNP
rs1262794602 1144 dbSNP
rs916379477 1156 dbSNP
rs1321708519 1164 dbSNP
rs1048326170 1174 dbSNP
rs895985297 1188 dbSNP
rs931240820 1190 dbSNP
rs1251350347 1195 dbSNP
rs1053348766 1197 dbSNP
rs1481235692 1205 dbSNP
rs1248942551 1207 dbSNP
rs1253549792 1211 dbSNP
rs1222260273 1237 dbSNP
rs1323193463 1241 dbSNP
rs1467919544 1252 dbSNP
rs999062889 1252 dbSNP
rs904161719 1257 dbSNP
rs918477952 1259 dbSNP
rs1326826369 1261 dbSNP
rs1332723576 1267 dbSNP
rs1223732358 1272 dbSNP
rs558689465 1274 dbSNP
rs1332528533 1286 dbSNP
rs965383983 1287 dbSNP
rs1042735832 1290 dbSNP
rs943105880 1294 dbSNP
rs1220700409 1309 dbSNP
rs1252105273 1311 dbSNP
rs1419782598 1331 dbSNP
rs777863265 1340 dbSNP
rs1390364045 1342 dbSNP
rs1194121158 1350 dbSNP
rs1292067234 1351 dbSNP
rs761621860 1352 dbSNP
rs985613765 1356 dbSNP
rs910332620 1358 dbSNP
rs1479007041 1359 dbSNP
rs1194962498 1360 dbSNP
rs539466180 1373 dbSNP
rs774270751 1375 dbSNP
rs570930728 1379 dbSNP
rs1366838557 1382 dbSNP
rs764027279 1383 dbSNP
rs1481525744 1393 dbSNP
rs1362332737 1398 dbSNP
rs953595095 1401 dbSNP
rs1181391107 1402 dbSNP
rs971941114 1403 dbSNP
rs547915835 1405 dbSNP
rs1202270559 1406 dbSNP
rs1286044365 1407 dbSNP
rs1011051593 1408 dbSNP
rs1264138086 1409 dbSNP
rs527848786 1411 dbSNP
rs984145084 1412 dbSNP
rs1206052458 1415 dbSNP
rs958295637 1416 dbSNP
rs1031223327 1417 dbSNP
rs1446085334 1427 dbSNP
rs1190502634 1432 dbSNP
rs1277356764 1433 dbSNP
rs1063498 1434 dbSNP
rs1237915831 1437 dbSNP
rs1162915479 1442 dbSNP
rs999560343 1446 dbSNP
rs1455248712 1453 dbSNP
rs1310826974 1469 dbSNP
rs906524506 1469 dbSNP
rs1046496866 1474 dbSNP
rs568713885 1477 dbSNP
rs1450335493 1485 dbSNP
rs1380752366 1496 dbSNP
rs1023020042 1500 dbSNP
rs1336399929 1509 dbSNP
rs1012730567 1513 dbSNP
rs1245316753 1514 dbSNP
rs1313598779 1515 dbSNP
rs1356501259 1518 dbSNP
rs1240324004 1531 dbSNP
rs895200907 1536 dbSNP
rs1337127376 1542 dbSNP
rs1348900410 1548 dbSNP
rs1203077609 1552 dbSNP
rs1244583507 1554 dbSNP
rs1048233335 1559 dbSNP
rs1182479826 1560 dbSNP
rs1240676611 1568 dbSNP
rs1415916255 1572 dbSNP
rs1420822866 1575 dbSNP
rs1382553271 1576 dbSNP
rs1014770142 1577 dbSNP
rs148090139 1579 dbSNP
rs181825779 1580 dbSNP
rs1178909640 1582 dbSNP
rs769706806 1589 dbSNP
rs999053028 1597 dbSNP
rs1175716296 1598 dbSNP
rs1452143351 1617 dbSNP
rs745968296 1618 dbSNP
rs1375553929 1628 dbSNP
rs1392486528 1633 dbSNP
rs1306911700 1634 dbSNP
rs386739778 1637 dbSNP
rs1444532478 1643 dbSNP
rs1315565872 1646 dbSNP
rs1021233879 1660 dbSNP
rs1007154227 1666 dbSNP
rs1323836333 1672 dbSNP
rs776645064 1678 dbSNP
rs771130077 1679 dbSNP
rs1445597554 1688 dbSNP
rs539126583 1690 dbSNP
rs1051485685 1694 dbSNP
rs1249700619 1695 dbSNP
rs1417118395 1705 dbSNP
rs11816921 1715 dbSNP
rs756475199 1718 dbSNP
rs1469497501 1727 dbSNP
rs1036237420 1739 dbSNP
rs1287530981 1750 dbSNP
rs778082233 1751 dbSNP
rs1298155572 1753 dbSNP
rs1358139781 1755 dbSNP
rs1371771169 1771 dbSNP
rs1407241993 1775 dbSNP
rs1284340475 1785 dbSNP
rs953943701 1792 dbSNP
rs1222593271 1797 dbSNP
rs545754876 1802 dbSNP
rs980696341 1804 dbSNP
rs1204564377 1812 dbSNP
rs531983458 1821 dbSNP
rs1450137420 1825 dbSNP
rs1479632437 1830 dbSNP
rs1224559992 1831 dbSNP
rs1269341191 1836 dbSNP
rs1479986670 1838 dbSNP
rs375507274 1840 dbSNP
rs1421889909 1845 dbSNP
rs1317451579 1861 dbSNP
rs915898578 1866 dbSNP
rs1352778769 1868 dbSNP
rs559774507 1875 dbSNP
rs1382987418 1876 dbSNP
rs1403465610 1881 dbSNP
rs538975451 1895 dbSNP
rs1272756403 1896 dbSNP
rs1363671698 1898 dbSNP
rs1031296571 1904 dbSNP
rs1294254604 1911 dbSNP
rs752848685 1918 dbSNP
rs11539831 1919 dbSNP
rs41305671 1920 dbSNP
rs1490139505 1927 dbSNP
rs1007770976 1931 dbSNP
rs1012223702 1934 dbSNP
rs895221882 1936 dbSNP
rs888753778 1940 dbSNP
rs1243594065 1944 dbSNP
rs1030445971 1946 dbSNP
rs1486324189 1946 dbSNP
rs4229 1948 dbSNP
rs1446506185 1951 dbSNP
rs41306306 1960 dbSNP
rs1036183396 1966 dbSNP
rs1423241891 1970 dbSNP
rs1320713671 1974 dbSNP
rs1346102953 1976 dbSNP
rs138109726 1977 dbSNP
rs1036935085 1980 dbSNP
rs1362478207 1981 dbSNP
rs558601324 1998 dbSNP
rs539775453 1999 dbSNP
rs11539832 2006 dbSNP
rs1315693262 2008 dbSNP
rs570871082 2021 dbSNP
rs1044961764 2040 dbSNP
rs1447181322 2050 dbSNP
rs947971652 2051 dbSNP
rs1317287899 2062 dbSNP
rs1215406600 2081 dbSNP
rs1246398029 2087 dbSNP
rs1264824202 2090 dbSNP
rs1184318811 2095 dbSNP
rs1242555083 2096 dbSNP
rs1443345888 2096 dbSNP
rs1219840235 2100 dbSNP
rs915904715 2104 dbSNP
rs1400480520 2105 dbSNP
rs993276400 2105 dbSNP
rs1358028212 2106 dbSNP
rs1291891524 2107 dbSNP
rs1229947921 2108 dbSNP
rs1337445315 2111 dbSNP
rs564168819 2113 dbSNP
rs1269348609 2120 dbSNP
rs796134067 2121 dbSNP
rs1227948908 2122 dbSNP
rs1271989666 2125 dbSNP
rs938768017 2126 dbSNP
rs1301482516 2140 dbSNP
rs1209982608 2142 dbSNP
rs1336845708 2142 dbSNP
rs1381318262 2142 dbSNP
rs201849569 2142 dbSNP
rs34933454 2142 dbSNP
rs537720580 2142 dbSNP
rs1404573224 2144 dbSNP
rs1262598962 2147 dbSNP
rs1366206238 2149 dbSNP
rs554301483 2154 dbSNP
rs1325674442 2160 dbSNP
rs891017109 2173 dbSNP
rs1175880751 2175 dbSNP
rs1419470945 2176 dbSNP
rs1470754312 2178 dbSNP
rs977496554 2179 dbSNP
rs145492562 2183 dbSNP
rs1049880298 2189 dbSNP
rs932297515 2191 dbSNP
rs1412240247 2192 dbSNP
rs1478985876 2199 dbSNP
rs1355070194 2200 dbSNP
rs1021756432 2203 dbSNP
rs1286236367 2207 dbSNP
rs568650702 2209 dbSNP
rs1490101383 2211 dbSNP
rs1246778001 2215 dbSNP
rs989895426 2218 dbSNP
rs548725788 2219 dbSNP
rs1197599357 2221 dbSNP
rs924089926 2224 dbSNP
rs1435987836 2226 dbSNP
rs978253531 2231 dbSNP
rs1029980739 2232 dbSNP
rs971403963 2233 dbSNP
rs961750258 2235 dbSNP
rs1014657893 2236 dbSNP
rs538074932 2237 dbSNP
rs1281155623 2238 dbSNP
rs1005977308 2241 dbSNP
rs1025183996 2250 dbSNP
rs991237022 2251 dbSNP
rs959360211 2252 dbSNP
rs1044950574 2254 dbSNP
rs1302822184 2258 dbSNP
rs1329598846 2259 dbSNP
rs1223116175 2272 dbSNP
rs1270860207 2281 dbSNP
rs569485569 2284 dbSNP
rs756945429 2285 dbSNP
rs897022265 2288 dbSNP
rs148874427 2289 dbSNP
rs531971224 2296 dbSNP
rs1265646479 2298 dbSNP
rs1330066006 2303 dbSNP
rs189254186 2311 dbSNP
rs1404351433 2312 dbSNP
rs891041180 2314 dbSNP
rs924619138 2321 dbSNP
rs138556614 2324 dbSNP
rs1386983527 2328 dbSNP
rs1425492803 2328 dbSNP
rs1425179938 2329 dbSNP
rs1050358 2330 dbSNP
rs1063500 2331 dbSNP
rs932347866 2334 dbSNP
rs947509290 2347 dbSNP
rs1388238432 2351 dbSNP
rs892788133 2352 dbSNP
rs1192593091 2355 dbSNP
rs1468121021 2364 dbSNP
rs986728550 2365 dbSNP
rs1432949240 2368 dbSNP
rs370015613 2368 dbSNP
rs1054235803 2378 dbSNP
rs763935481 2381 dbSNP
rs529773577 2398 dbSNP
rs1353277842 2400 dbSNP
rs953643181 2401 dbSNP
rs560835872 2402 dbSNP
rs544368251 2404 dbSNP
rs961666861 2405 dbSNP
rs1445180743 2411 dbSNP
rs1014604220 2415 dbSNP
rs1366559662 2416 dbSNP
rs1455131909 2428 dbSNP
rs1005964309 2429 dbSNP
rs1388216814 2430 dbSNP
rs1222289753 2431 dbSNP
rs766829231 2433 dbSNP
rs1338792826 2434 dbSNP
rs575354061 2437 dbSNP
rs1452628993 2438 dbSNP
rs1311196298 2440 dbSNP
rs530815261 2445 dbSNP
rs1240172079 2446 dbSNP
rs545017252 2447 dbSNP
rs1449646660 2452 dbSNP
rs79045717 2454 dbSNP
rs918199266 2455 dbSNP
rs1328075066 2457 dbSNP
rs1012466817 2459 dbSNP
rs1206376836 2459 dbSNP
rs896340235 2460 dbSNP
rs1181257666 2463 dbSNP
rs759451125 2465 dbSNP
rs776750269 2466 dbSNP
rs1026929634 2471 dbSNP
rs1471733752 2475 dbSNP
rs771042075 2480 dbSNP
rs78496140 2481 dbSNP
rs1406589893 2483 dbSNP
rs1301650521 2492 dbSNP
rs1399302547 2495 dbSNP
rs1178781923 2500 dbSNP
rs750737938 2503 dbSNP
rs1288132593 2514 dbSNP
rs1348948043 2519 dbSNP
rs1226266436 2524 dbSNP
rs1284779090 2530 dbSNP
rs10795298 2541 dbSNP
rs1241250028 2547 dbSNP
rs1208855668 2548 dbSNP
rs1050544531 2553 dbSNP
rs1481581567 2560 dbSNP
rs932117778 2561 dbSNP
rs1250884729 2565 dbSNP
rs1481940963 2571 dbSNP
rs1201930667 2581 dbSNP
rs1008488019 2583 dbSNP
rs923465998 2589 dbSNP
rs1454198602 2600 dbSNP
rs1174076901 2601 dbSNP
rs955230599 2602 dbSNP
rs976705971 2604 dbSNP
rs1462949162 2605 dbSNP
rs1347045780 2606 dbSNP
rs773444443 2607 dbSNP
rs1483418514 2609 dbSNP
rs1307958914 2610 dbSNP
rs1369158489 2618 dbSNP
rs532272283 2618 dbSNP
rs796842787 2630 dbSNP
rs1239004755 2633 dbSNP
rs1028680793 2635 dbSNP
rs1213896896 2643 dbSNP
rs1316626439 2645 dbSNP
rs1286789971 2650 dbSNP
rs996751372 2656 dbSNP
rs373138421 2664 dbSNP
rs1228135879 2666 dbSNP
rs369673200 2682 dbSNP
rs998482690 2683 dbSNP
rs902941661 2684 dbSNP
rs1045479920 2713 dbSNP
rs1357402786 2715 dbSNP
rs1488288500 2716 dbSNP
rs544265975 2720 dbSNP
rs145650239 2725 dbSNP
rs1264032610 2730 dbSNP
rs538393259 2736 dbSNP
rs1453989641 2737 dbSNP
rs918074219 2738 dbSNP
rs1291414765 2750 dbSNP
rs1349589441 2750 dbSNP
rs1388892812 2750 dbSNP
rs528623709 2750 dbSNP
rs1381721407 2751 dbSNP
rs960790997 2757 dbSNP
rs1363511589 2759 dbSNP
rs1435155093 2760 dbSNP
rs1296178143 2761 dbSNP
rs1340004568 2767 dbSNP
rs1248011421 2769 dbSNP
rs1290335338 2770 dbSNP
rs1320885369 2784 dbSNP
rs1034897143 2787 dbSNP
rs184876726 2798 dbSNP
rs1486293137 2804 dbSNP
rs902463678 2810 dbSNP
rs1188029099 2812 dbSNP
rs938281380 2821 dbSNP
rs559777588 2826 dbSNP
rs1158699644 2834 dbSNP
rs1020229423 2839 dbSNP
rs1413593056 2842 dbSNP
rs1420930476 2851 dbSNP
rs1011504894 2852 dbSNP
rs1162790656 2858 dbSNP
rs113034364 2867 dbSNP
rs1050900928 2882 dbSNP
rs974049737 2887 dbSNP
rs538974658 2888 dbSNP
rs1454578634 2889 dbSNP
rs932092677 2897 dbSNP
rs1378235495 2900 dbSNP
rs961327570 2903 dbSNP
rs1184604223 2909 dbSNP
rs1286024291 2911 dbSNP
rs1485652665 2912 dbSNP
rs1330098908 2915 dbSNP
rs908658847 2920 dbSNP
rs1266383512 2922 dbSNP
rs902001511 2923 dbSNP
rs566116179 2925 dbSNP
rs1472074670 2934 dbSNP
rs1225660792 2938 dbSNP
rs955411668 2939 dbSNP
rs1489860519 2942 dbSNP
rs575802020 2945 dbSNP
rs1409106933 2947 dbSNP
rs1040584341 2957 dbSNP
rs1246147337 2958 dbSNP
rs1157955617 2959 dbSNP
rs1028168405 2961 dbSNP
rs1385879531 2969 dbSNP
rs546154354 2972 dbSNP
rs1334797105 2974 dbSNP
rs996658395 2981 dbSNP
rs908152197 2982 dbSNP
rs957276073 2986 dbSNP
rs529663321 2992 dbSNP
rs998554768 2993 dbSNP
rs930258200 2994 dbSNP
rs1286654619 2995 dbSNP
rs1049307036 2998 dbSNP
rs1325801455 3002 dbSNP
rs902847750 3003 dbSNP
rs1045914436 3008 dbSNP
rs1441209794 3009 dbSNP
rs1207163537 3015 dbSNP
rs763673717 3016 dbSNP
rs894187115 3026 dbSNP
rs1409274644 3032 dbSNP
rs1481184607 3040 dbSNP
rs1363158405 3045 dbSNP
rs375149979 3060 dbSNP
rs1423775111 3061 dbSNP
rs1035247810 3064 dbSNP
rs372965838 3070 dbSNP
rs140759125 3073 dbSNP
rs550414561 3074 dbSNP
rs1305907544 3076 dbSNP
rs879183093 3077 dbSNP
rs748550193 3083 dbSNP
rs940046626 3088 dbSNP
rs1010780436 3091 dbSNP
rs530724975 3094 dbSNP
rs908524896 3102 dbSNP
rs987174798 3110 dbSNP
rs1427662172 3111 dbSNP
rs955499438 3116 dbSNP
rs1196039724 3117 dbSNP
rs1203492761 3119 dbSNP
rs1271421475 3121 dbSNP
rs996659156 3122 dbSNP
rs1268263246 3129 dbSNP
rs921308665 3129 dbSNP
rs1170452351 3130 dbSNP
rs975251100 3132 dbSNP
rs957183780 3136 dbSNP
rs1040549655 3137 dbSNP
rs1032969207 3143 dbSNP
rs977318397 3144 dbSNP
rs886611344 3145 dbSNP
rs967478027 3146 dbSNP
rs1365132745 3152 dbSNP
rs1226746463 3154 dbSNP
rs1318968995 3159 dbSNP
rs1280559183 3162 dbSNP
rs1049308510 3164 dbSNP
rs1220087061 3169 dbSNP
rs564982471 3171 dbSNP
rs180688592 3172 dbSNP
rs894230582 3176 dbSNP
rs977830400 3177 dbSNP
rs1186594250 3179 dbSNP
rs966475730 3182 dbSNP
rs915081707 3183 dbSNP
rs1386799307 3184 dbSNP
rs1034028092 3189 dbSNP
rs1002362582 3190 dbSNP
rs1392299281 3197 dbSNP
rs779211709 3205 dbSNP
rs573138384 3206 dbSNP
rs542888122 3207 dbSNP
rs752793681 3208 dbSNP
rs74115581 3212 dbSNP
rs762555158 3216 dbSNP
rs887332055 3219 dbSNP
rs574748751 3223 dbSNP
rs1019002171 3229 dbSNP
rs775023346 3230 dbSNP
rs555037175 3238 dbSNP
rs975491519 3239 dbSNP
rs1434937573 3245 dbSNP
rs1160162962 3246 dbSNP
rs1388061049 3247 dbSNP
rs184614068 3248 dbSNP
rs1403564214 3250 dbSNP
rs1395896275 3260 dbSNP
rs780814888 3262 dbSNP
rs1332617153 3263 dbSNP
rs1177125661 3269 dbSNP
rs1055800698 3279 dbSNP
rs939008489 3282 dbSNP
rs1458660368 3301 dbSNP
rs9377 3304 dbSNP
rs925764215 3305 dbSNP
rs35401034 3306 dbSNP
rs575771398 3306 dbSNP
rs927634538 3319 dbSNP
rs977224496 3321 dbSNP
rs1226074716 3325 dbSNP
rs1257196292 3328 dbSNP
rs1483546231 3328 dbSNP
rs1199798430 3330 dbSNP
rs1253883891 3332 dbSNP
rs759527624 3334 dbSNP
rs1183208634 3344 dbSNP
rs563996576 3348 dbSNP
rs945160305 3348 dbSNP
rs1178339532 3349 dbSNP
rs1378207041 3349 dbSNP
rs192956857 3352 dbSNP
rs1466038876 3364 dbSNP
rs1171323941 3369 dbSNP
rs1364955014 3371 dbSNP
rs915071573 3374 dbSNP
rs1202229800 3375 dbSNP
rs1307770003 3378 dbSNP
rs1349522790 3379 dbSNP
rs1389267052 3384 dbSNP
rs188098576 3394 dbSNP
rs1232500921 3395 dbSNP
rs749663570 3397 dbSNP
rs967339718 3397 dbSNP
rs1205635119 3398 dbSNP
rs1024606040 3404 dbSNP
rs1482198734 3405 dbSNP
rs921161815 3405 dbSNP
rs992517326 3405 dbSNP
rs966038898 3410 dbSNP
rs1174624361 3415 dbSNP
rs958609719 3417 dbSNP
rs1392608426 3424 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 GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl 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' cccaGGGAGAGGUUUACACaga 5'
              :|| : |||| ||||   
Target 5' ----UCCAUGCCAACUGUGcug 3'
 		1 - 18
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 GSM1462573
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl BaL
Location of target site ENST00000316157.3 | 3UTR | UCCAUGCCAACUGUGCUGU
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
Click to see details
77 hsa-miR-642b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT082888 ZNF543 zinc finger protein 543 2 2
MIRT108294 BHLHB9 basic helix-loop-helix family member b9 2 2
MIRT348737 ZNF350 zinc finger protein 350 2 2
MIRT381384 EXOG exo/endonuclease G 2 2
MIRT452245 TRAM1 translocation associated membrane protein 1 2 2
MIRT459262 ADRBK1 G protein-coupled receptor kinase 2 2 2
MIRT468117 SH3PXD2A SH3 and PX domains 2A 2 2
MIRT468402 SETD3 SET domain containing 3 2 2
MIRT469079 RNF168 ring finger protein 168 2 2
MIRT471690 OXR1 oxidation resistance 1 2 2
MIRT477353 EOGT EGF domain specific O-linked N-acetylglucosamine transferase 2 4
MIRT479600 CDC25B cell division cycle 25B 2 2
MIRT482377 AFF4 AF4/FMR2 family member 4 2 4
MIRT484029 LARP4B La ribonucleoprotein domain family member 4B 2 2
MIRT490988 USP22 ubiquitin specific peptidase 22 2 2
MIRT493250 MEF2D myocyte enhancer factor 2D 2 2
MIRT493850 FOXN3 forkhead box N3 2 4
MIRT496086 C17orf85 nuclear cap binding subunit 3 2 2
MIRT500630 TXNIP thioredoxin interacting protein 2 2
MIRT501048 SMEK1 protein phosphatase 4 regulatory subunit 3A 2 2
MIRT525186 ZNF257 zinc finger protein 257 2 4
MIRT534875 QSER1 glutamine and serine rich 1 2 2
MIRT539336 AGPAT5 1-acylglycerol-3-phosphate O-acyltransferase 5 2 2
MIRT553814 SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein 2 2
MIRT555959 NRAS NRAS proto-oncogene, GTPase 2 2
MIRT556289 MAP3K5 mitogen-activated protein kinase kinase kinase 5 2 2
MIRT561212 ZSWIM1 zinc finger SWIM-type containing 1 2 2
MIRT567328 HMGB1 high mobility group box 1 2 2
MIRT572385 LRRC6 leucine rich repeat containing 6 2 2
MIRT575529 Map4 microtubule-associated protein 4 2 2
MIRT575684 Map1b microtubule-associated protein 1B 2 2
MIRT576828 Tgfbr3 transforming growth factor, beta receptor III 2 2
MIRT576953 Pigs phosphatidylinositol glycan anchor biosynthesis, class S 2 3
MIRT608316 SYK spleen associated tyrosine kinase 2 4
MIRT609794 PINX1 PIN2/TERF1 interacting telomerase inhibitor 1 2 2
MIRT609991 PIGS phosphatidylinositol glycan anchor biosynthesis class S 2 3
MIRT611381 PNMAL1 paraneoplastic Ma antigen family member 8A 2 4
MIRT613566 YY2 YY2 transcription factor 2 2
MIRT614612 MVK mevalonate kinase 2 2
MIRT615497 MPP2 membrane palmitoylated protein 2 2 2
MIRT616941 OTUD7A OTU deubiquitinase 7A 2 2
MIRT617576 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT618214 SPTLC3 serine palmitoyltransferase long chain base subunit 3 2 4
MIRT619885 ABHD17B abhydrolase domain containing 17B 2 2
MIRT620401 MYO1H myosin IH 2 2
MIRT620517 SNRPD1 small nuclear ribonucleoprotein D1 polypeptide 2 2
MIRT622166 SMYD1 SET and MYND domain containing 1 2 2
MIRT623195 MTX3 metaxin 3 2 2
MIRT623440 KIAA0408 KIAA0408 2 4
MIRT624837 ACAP2 ArfGAP with coiled-coil, ankyrin repeat and PH domains 2 2 2
MIRT625706 SHROOM1 shroom family member 1 2 2
MIRT628159 HIP1 huntingtin interacting protein 1 2 2
MIRT629496 SGIP1 SH3 domain GRB2 like endophilin interacting protein 1 2 2
MIRT630240 SOGA3 SOGA family member 3 2 4
MIRT630521 BAZ2A bromodomain adjacent to zinc finger domain 2A 2 4
MIRT635676 COX18 COX18, cytochrome c oxidase assembly factor 2 4
MIRT637820 CACNA1B calcium voltage-gated channel subunit alpha1 B 2 2
MIRT637943 SIGLEC9 sialic acid binding Ig like lectin 9 2 2
MIRT640490 EXOC5 exocyst complex component 5 2 2
MIRT642722 ATXN3 ataxin 3 2 2
MIRT649153 LRTM1 leucine rich repeats and transmembrane domains 1 2 2
MIRT649610 ITPKC inositol-trisphosphate 3-kinase C 2 2
MIRT661016 ABCA12 ATP binding cassette subfamily A member 12 2 2
MIRT661055 RPL18A ribosomal protein L18a 2 2
MIRT684041 FOLR1 folate receptor 1 2 2
MIRT691014 CRTC3 CREB regulated transcription coactivator 3 2 2
MIRT698908 SPPL2A signal peptide peptidase like 2A 2 2
MIRT700981 PDE4D phosphodiesterase 4D 2 2
MIRT701722 MTMR12 myotubularin related protein 12 2 2
MIRT702724 INSIG1 insulin induced gene 1 2 2
MIRT705057 C5orf15 chromosome 5 open reading frame 15 2 2
MIRT705216 BRWD1 bromodomain and WD repeat domain containing 1 2 2
MIRT706088 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT709458 KRTAP19-1 keratin associated protein 19-1 2 2
MIRT711396 RANBP2 RAN binding protein 2 2 2
MIRT720573 SDHAF2 succinate dehydrogenase complex assembly factor 2 2 2
MIRT725366 MTF2 metal response element binding transcription factor 2 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-642b-3p Platinum-based doublet chemotherapy sensitive High Lung Adenocarcinoma tissue
hsa-miR-642b-3p Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-642b-3p Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-miR-642b-3p Sunitinib 5329102 NSC750690 approved resistant Low Renal Cell Cancer cell line (ACHN, RCC23)
hsa-miR-642b-3p Paclitaxel 36314 NSC125973 approved sensitive High Ovarian Cancer cell line (HEYA8)
hsa-miR-642b-3p Fluorouracil 3385 NSC19893 approved resistant High Colorectal Cancer cell line (HT-29)
hsa-miR-642b-3p Platinum 23939 sensitive High High-Grade Serous Ovarian Cancer tissue
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-642b-3p Platinum-based doublet chemotherapy sensitive tissue (lung adenocarcinoma)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-642b-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM16)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (OVSAHO)

Error report submission