miRTarBase - #MIRT506487 -
pre-miRNA Information
pre-miRNA hsa-mir-15a   
Genomic Coordinates chr13: 50049119 - 50049201
Synonyms MIRN15A, hsa-mir-15a, miRNA15A, MIR15A
Description Homo sapiens miR-15a stem-loop
Comment Reference .
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-15a-5p
Sequence 14| UAGCAGCACAUAAUGGUUUGUG |35
Evidence Experimental
Experiments Cloned
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1355089203 8 dbSNP
rs753467375 11 dbSNP
rs923737993 12 dbSNP
rs766120172 20 dbSNP
rs1359939022 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles

Circulating MicroRNA Expression Profiling
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol MYO5A   
Synonyms GS1, MYH12, MYO5, MYR12
Description myosin VA
Transcript NM_000259   
Other Transcripts NM_001142495   
Expression
Putative miRNA Targets on MYO5A
3'UTR of MYO5A
(miRNA target sites are highlighted)
>MYO5A|NM_000259|3'UTR
   1 AAGTGATGTCCAGGCAAAAATTGACAATACATTTCTTGCCCGAAATAAGAACCCATTATTTCCAGTGAGTTACTGAAAAT
  81 ACATTTTTAAAGAGAAAGTACTGATTATCTCCCAAATGAGAAGTCATTAACTGGAAATCTCCCTAGAATACTTTCATCAC
 161 TTTGGAAACAAAGATAGGCTCTTTCGTGCTGTGTTATCTTTATAGCAACACTCATCCTTAACCAACTAGGTACCGTGAGT
 241 TTACATACAGGAGAATGATGGAAGGAAGGGAGGAAGGAAAGGAGGAGAAAAATGTGTCTTCAGCTGGCAGCATTTATTTT
 321 AAATCCTTAGCACTGAGTTTGAATGGTATAAAAAGTATAACTTCCATAGATGAGCTGTTGTTAGGAAGGCACCAAAGAAC
 401 CTCCTCTGCACTAAACAGGAGAATGGAAAGAAAAGTCTCCATTGAGTACATATCATGTCAGTTTAGTAATCAATTATGTT
 481 GATATTGTTAAACTGGTTCAAAGAAATAAACTGGCAATATGTAAAGTAATTCCTCATTTGTGTCACTATGATATAGAGAT
 561 ATTAAAGGAATGTTGGTTTGCTAAATAGTATAGATGTCCATTTGTACTATAGTTTACTGAGCATTTTAAATTGCTGCTAC
 641 ATACTGTCTTCTTAAAATGTAAGTGATATTAGGCACTACAATAAGTTTCTCTTGTCAATTCTGTTTACAATTCAATCAGA
 721 TCACAGTTTTAACTGGATTATATGCAAATACCTACAGATTCACCTGCACAAGTAGCAGACACTGGAAAGTCATGTAGTAA
 801 TATGACAAAATGCTTGACATTTAGGGGTAGGATTAGACAAAGTGGCTATTGTTGATGTCATTATTTATTCAGGATGTATT
 881 ACATTGATGTGCTCATTAATTTTCCCTGGGTGGATATTGCGTCAGGGTACAGTGTTCTGTGAAGTGACTTATTTTTAACT
 961 ACCAGATCTGATTCCTTCAGTGCATATTTTCAACCTTGACAGGTTTTCTCTCTTCTTAATTTATTAAGAATTAATCTCGG
1041 CTGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAAGCCAAGGTGGGCGGATCACTTCAGGTTAGGAGTTGGA
1121 GACCAGCCTGGCCAACATGGCGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCACTTGCCTGTA
1201 ATCCCAGCTACTCGGGAGGCTGAGGCACGAGAATCGATTAAACCTGGGAGGCGGAGATTGCAATGAGATCGAACCACTGC
1281 ACTCCAGCCTGGGTGACAGAGAGAGACACTGCCTTGGAAAAAAAAAGAATCTCACTCACTATCTAGAGAGGATTGTCAGA
1361 ATATTCACGATTCAGGTCTTGAAACTTTGATTATGCAAAAGAAGGTATATAATAAATATTTCATTATGATTCAGTTTTTA
1441 AGGCTTTGCAGCTTCTATAAGTGTTCTCAGATGCCACTAGATAATTTTAAAAGCATCATATTAGAAATACTTTAAGAAGA
1521 CTTATATAAGAAATAGAAGATTGTTGAATTTTACAGAGGATTTGGTTCATTAAGACCCAGATTCTGTAAGTTTTCATTCT
1601 GAAATTCTAGTTAAACATATTCACCATTTTTCTTAGGAATCTTATACAATAAATCCTTCAGGTTGCACAAAAGCAAATTA
1681 TTAGTTTTCATTAGAAACTCTGGTTCTGAATTACAATCATAGGTTATATAAATTTAACTGTTAGATGGTCTATAAATCTT
1761 ATTAAAATATGTGCAATATTTATGGAAGTCAAACAGCTTCATATCAGTGATAAAGATTGTTATTAAAAGATAAATACTGT
1841 CTGTTAATTTACATGGGCCTCAAGTTCCTCGTTTATAAAATAAGAGAGTTGGACACTGATTCTTAACATCTCCTCCACAT
1921 TTAAAATTCTCTCTTCTCAGCCCTTAGATTCTAGAGAGAAAAAGCTGCAGTTACTCAGTAAGTCCATTCTCTGATGGAAA
2001 GACCAGTGTGTAGTGCCTGTCAATTCCTTAGGATTAATCAAATGTAAAATCACAAGTTTGTGTAGCTGTAACCTTTCTTA
2081 AATGTACATGATTTATGTACATGCTTTTAGAAGGTCCTACTATATTTGTATTATAATTAGTTTAAGTAATTTTTATTACA
2161 TCATGTATTGCTTTATTCAGTTTGAATACATTTATTTATTTATTTGCAGTATCAACCAGAAACACTACCAATTGCATCAA
2241 ATTCTCCCAGTTTTTCCTGGTTGTCAATGCGGTTTTCAATGCACAATTAAGTCATAGCCATTTGGTTCGTACCAAATGTG
2321 TCAGAATCTAACAGCATCCGATAGGCTGTAAGTTGGGGAGTTGCTAAGAAAATGCAACGTGGTACAGGCTGTCCGCCTCA
2401 GCCCTGGAAATCTCCCAGACCTCCCCCAGCTTCATCCTGTGTAGCACGACTCAACGTGCACCCTGAATCTTCTCAGGTCT
2481 TCCAGGTCATGCTGTAGCTGTCACTGCCATGCAGCCCTTTTTTTTACTCCGGACAGCTCATGTACTGAAGCGTCATGAAA
2561 GAAAGGCTGTGGTCTGAGCCCTTCTCTCCCATCTCCTGTCTTTGTCCTGTCAAGTGCTGGAGCCAGAGCTCCTACAGCTG
2641 CCCTTGGTGGTTTCTCCTGTTCAGCGATGGTGGCACAAAGGTTCTGCTATTCCAGGGCTCCAGCTTCCTCCCAGGTCTAC
2721 CCAGAGCTCCAGATGGGGGTCTGAATTAACCTCTCTTGGTGGCCTGGAGATTTTTAGTCATTGACAAGAATACCTTGTAA
2801 CCAGGGAACCCCAAGGCCCAGTAAATGATTCTGTATACCATTTTCTTGAAGGTACAAGAAGATTCTGCCGACTATGGGGA
2881 TCTTTGGGCCAGTTTGAGGATTGCTTTCCCTCTGAGGTTCTTTCTCTCTGTCAGCCACACTTTCTCACCCAACTTCAGAC
2961 ACACCCTGCCAGCCTTTCCCCTACTCATTCACTCTTCCCCTTCCCTCAACTTAATCGTCTATCCCGTTGCCTGCTGTTTG
3041 ACTGTGCACTGAAGGCAGGTGGATGGAGTCAGTCCTCAGTTGCCCCTGCTGGCCTTCCTGGTGCTTACCATCAGCCCAAT
3121 CTTTGCACAGTCCTTGTTGTTCTTACTTCTCTGCATGCATTCCTTCAGAAGATCAGTCATCAACTTTTTCTTAATTCCTC
3201 TGTGACACACAATGGGAATTCAAAGGAAGAGATCTTAAAAGTCACAACAGTTCTTTATCTTAATAATCCCCTCCCCATTC
3281 ACCTTACTACATGCAGACTCACCTCACACCCTTACAACTTGAAGCTGAAAATTTAAAAGTAATTTCCCTTTTTGCAGCTT
3361 TTCCTCAGGTTAAGGCTTTGATCTGCCTGAGAGTAACTCTAAAAGGAGGGAAGATAAATATGGGATAAAATCCACAAAGT
3441 GTAGCTTCTAATTCCTTTGGAAGTTTAAAAAATTTCCACATATCTGATGCTTCTTTTGTCAGGTGCAGAAGCACAAAAAC
3521 ATATTCCGAAGCCAACTGATAGGGAATTTGGGGATTATTGTCAGTTTGGAGAATTTGCTGTGTTATTTCTTCATTTCCAT
3601 GGATAGCTCATAGTTGGCTCTTTCTGGGTGAGTAATTATGTGTAATATAGATCAAATCTTTTACTAAGGTTACAGCTACA
3681 TGTTAGGGGAGGCTATGAAAATACTATATTATTATAATTTCAGTGCAGTGATTGTTGTGAGAAATAACTTTCATGGTAAC
3761 CCTAGGAAAATGGGCACCTGCCACCATCCTGAGAAGTCCTCACACAATGCCCTTTCTCTCTTACACACACACACACACAC
3841 ATACACACACACACACCCCCGTCACTAATTCATAGAGTTCCTTAGCAGGCATAGTCAAGGATCCTCTGGGTAATGTCAGC
3921 TGCTTAGTGATAAAACAGAGCCAAAACTAGTGCATCCTGTTGAAAGTAATGCAGAAACAGTACCTGGGTCCAGATATGCT
4001 TTCCTGCGGCGCTTTCCTCTGTTACCTCGTTTCATCCTCACAGCAGCATGGACGGTAGGTGGGGTCGCTTCTACAATCAT
4081 TTCTGATGATAGCTTGGGAATAGAGATAGGGGCAGTGACTTGCCTGATGTCGCACAGCCCTCTGGCTGTCCTGCTTTCCC
4161 ATATGGAGCAGTGGTGGTGTGGGCACCTGTGATGCAGGAGACTTTAAAAATGTCGTGAGGTCACGTGCTGCCCCTCCTGG
4241 TACGTGTGGAATGCCCCTGGCCAGCAAGGGGTGCTTTTTTATCAGAGTTGGCAGCTGGCATGTGGGAACCGAGCAAGTGC
4321 TGCGTACCAAGTTACTTGTTTTAAGGAGACCAAGTGCTCAGCGCCAGGTGGTTTTCTTTTTTGTCATAGTTACTTGCTAT
4401 AACTCAGCTTGACTTCTGTCATGAATCAGTGCTCTCTGGGAGGATGCAATACTCTGTTTGGGCATTAATTGGTAGCAGGT
4481 TGTCTCAACCAAAAAGACAGGAAACAGCAAAAGCCTCTCTGAAATTAAGAGGAAAGTTACTCTCCCCACACCCATCAGAG
4561 TCTTTATTGGAGCCACCAGGTGAGCTGTGCAGCCTGGACAGGCCTGCAGCTATAGGCCACCTTCCCAGTTTAGGTCCTCA
4641 GCACAGGGGAGCCCAAGTCACTGGGTGCCTTCCGAGGGCTGTCACTGGGCAGGCCATATACAAGTCAGTGTGTGCGTGGG
4721 CACTGCAGTGTGTGCATGCCGTAGGTGTTGATGGGTGCTAGGAGGGGTGTCGTGTGCATGCGCGTTGAAGAGGATCTGTA
4801 TTGCCGTGACCTCTGTTCATGGATGAGTGCATTGTAATTTGTTCTCAGGCTGTGCTGTGAGGGCCGCCTTAACCCTTGCT
4881 CCCTTCCCTTCTAGAGCTGCCTTAAGTTCTCCAGAACTTTTCTTCTGTAAAGGATATCTTGCCTGGAAGGGATATCTTGC
4961 CCTGTTTCTCAAGGTTTTGTGAGAGTTTTGACTGGATGTGGCCCTGCATGACCCTCCTTCTCCTGTACTTCCTCTTTCCT
5041 TTCCAAATGGGAATTAGAACTGTGGGGCAGCAACAGTCTCAGAGCCAGTGAGAGGCCAGCTTAGAGAATGCTTCTGAGTT
5121 AGTGGGACTCTGTGTCACAAGTAAGCAAATGAATATATGAAAGAAATTATGGAGATAAGTTAGATTCTTGGTAATACTTA
5201 AATGTCTTGCTTTCTACTAACCTTTTGTTACTAAAGGTAAAGGGTATAACTCAAACTTTTTGTGGACATTCTTTTCAAAA
5281 TTTTTTAAGAACCCTGTACTATAAAAGGTTGAGTAAAAACAGGAAAGCGTGCTATAAGTTCAAATCTGTTGTATTACCCT
5361 AAATTAGATAAACCAACCTGAATTATAGTAGATTTCTCAATAGATGAGGAACTGAAAAATACTATGTAAAATATCTTCCA
5441 AAATGCTTTTTATACTTTTTTTATTTGTAATTTGGTCTATCTAAAATGTTCGTTAGCTTAACTTAATGGGCGTTATTGGA
5521 TTCATATGACTAACGTTTCCTCAGTATTGTAATGCTTGAAATATTTGAAAGAAAAAATGTTGTTTTTTAGTTGAAACTGG
5601 TATATATAATTCAGTGCTTGGCAGGTTAGTATATTTTTATGCATTTTTCAGAGTCAGCAGTTTCAAATCTTATTGTTATC
5681 ATGTTATAAAATTTTAGCCCACATTTCAGGCTCCGTAAATCATTTGAGCCATTATTTTTTCCCAACAAATGGTGAATTTT
5761 TTCTTTAAATGTGGATATATATGTTGTAATTTATGATTCCTGGTTATGTATTTTTGTGGGATCCTGCAGTAAAATTGACT
5841 TTTTTGTGTCTTTGGGAGATTTAAATTGCGCTAACAGTGTTGCGCAAAAATGAGTTCATGCCATTTAACATATTGTATTT
5921 TAATTATTAACTGTATTAATTTACTATGAAATGGACATCCTTTTAACTAAAATGGAATTGAACATTGCAGTTTTCAAATA
6001 TTTTTCCTTGTTGGGTCTGGAAAAGGAATTCTACTTTGATCTGCATAGAAAATTTTGATACAATTTTTTGAAAGTTCTTA
6081 GGTGAAACATTTACCCATTAAAAAGGAAGCAGAAATACTGAGACATGAAAGGCATTATCAACTAACTCTAGACTCTAGAA
6161 CCCATTCTAGCATATCTCACGTGCAATTTTTAAAAATAAGTTAATAATTCATCTCATATCAACAAAAGCCTTTGAAACAT
6241 GGGTTTTCACTAGATATCACCTAGTGCTAAGATAAAAACCAAAACAATATCAGAATTACATTTATGCTCTAAATTTGTAG
6321 TTGTCCATTGTTGTGCTTAGTAAATGTGTGTCATTAATGCTGTATTCTCCTAGCTATTATGGAAACTTGTTTAAATAAAG
6401 ATATGGATATAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions (Predicted by miRanda)
IDDuplex structurePositionScoreMFE
1
miRNA  3' guGUUUGGUAA----UACACGACGAu 5'
            | :| ||||    || ||||||| 
Target 5' taCTGAGCATTTTAAAT-TGCTGCTa 3'
615 - 639 153.00 -13.20
2
miRNA  3' guguuuGGUAAUACACGACGAu 5'
                ||:||:  |||||:| 
Target 5' tctatcCCGTTGCCTGCTGTTt 3'
3018 - 3039 140.00 -13.70
3
miRNA  3' gugUUUGG-UAAUACACGACGau 5'
             :|||| |  | |||||||  
Target 5' tggGAACCGAGCAAGTGCTGCgt 3'
4303 - 4325 139.00 -14.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
435920 3 ClinVar
COSN24305195 29 COSMIC
COSN1678945 31 COSMIC
COSN13627703 35 COSMIC
COSN30470331 35 COSMIC
COSN30507138 41 COSMIC
COSN31586756 52 COSMIC
COSN31608185 60 COSMIC
COSN30168535 62 COSMIC
COSN30170054 72 COSMIC
COSN31582447 78 COSMIC
COSN30111639 94 COSMIC
COSN8590121 113 COSMIC
COSN31573748 120 COSMIC
COSN31513918 125 COSMIC
COSN31522451 129 COSMIC
COSN30115149 150 COSMIC
COSN31541018 274 COSMIC
COSN31520290 281 COSMIC
COSN31486314 285 COSMIC
COSN28689331 292 COSMIC
COSN31595641 304 COSMIC
COSN31514051 461 COSMIC
COSN31523734 592 COSMIC
COSN31567774 689 COSMIC
COSN17181978 716 COSMIC
COSN17183314 758 COSMIC
COSN22334010 1216 COSMIC
COSN22915769 1455 COSMIC
COSN23552592 1656 COSMIC
COSN18723893 1751 COSMIC
COSN18723326 1753 COSMIC
COSN20112082 1753 COSMIC
COSN6275396 1871 COSMIC
COSN31548055 1929 COSMIC
COSN7047899 1963 COSMIC
COSN16401134 2161 COSMIC
COSN17076195 2352 COSMIC
COSN21917147 2600 COSMIC
COSN1177825 3103 COSMIC
COSN21918074 3362 COSMIC
COSN21911749 3366 COSMIC
COSN25894269 3598 COSMIC
COSN21916253 3624 COSMIC
COSN20112081 3822 COSMIC
COSN15885459 3842 COSMIC
COSN9090640 3848 COSMIC
COSN14545710 4010 COSMIC
COSN25164813 4318 COSMIC
COSN27306069 4383 COSMIC
COSN20853518 4440 COSMIC
COSN6275395 4716 COSMIC
COSN31540334 4740 COSMIC
COSN7047898 4772 COSMIC
COSN4762267 4795 COSMIC
COSN28673642 4860 COSMIC
COSN18936657 5051 COSMIC
COSN20092976 5141 COSMIC
COSN24457158 5328 COSMIC
COSN17566622 5820 COSMIC
COSN16394240 6145 COSMIC
COSN20112080 6352 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs3751617 3 dbSNP
rs1289107015 10 dbSNP
rs764774962 12 dbSNP
rs377088031 14 dbSNP
rs776410785 17 dbSNP
rs763771446 22 dbSNP
rs945497195 28 dbSNP
rs1418143447 29 dbSNP
rs761152002 30 dbSNP
rs775872908 31 dbSNP
rs4987194 32 dbSNP
rs572027205 34 dbSNP
rs746351024 38 dbSNP
rs774359127 40 dbSNP
rs770980979 41 dbSNP
rs369555698 42 dbSNP
rs777979666 45 dbSNP
rs756292949 47 dbSNP
rs774971167 47 dbSNP
rs1313620402 48 dbSNP
rs1354005571 49 dbSNP
rs1176342971 53 dbSNP
rs1440701836 53 dbSNP
rs1479720234 61 dbSNP
rs1300393079 65 dbSNP
rs751844617 75 dbSNP
rs1233964892 79 dbSNP
rs980020463 89 dbSNP
rs1024230252 97 dbSNP
rs1012972375 104 dbSNP
rs1278798390 106 dbSNP
rs1436695461 113 dbSNP
rs188713510 115 dbSNP
rs79271833 118 dbSNP
rs1458071723 125 dbSNP
rs972555332 129 dbSNP
rs1251388823 144 dbSNP
rs756839919 152 dbSNP
rs577954061 155 dbSNP
rs1173343786 170 dbSNP
rs1418955667 177 dbSNP
rs1408225935 181 dbSNP
rs887604296 184 dbSNP
rs1173198288 185 dbSNP
rs1351145147 186 dbSNP
rs1440642777 193 dbSNP
rs549509527 197 dbSNP
rs1262196929 201 dbSNP
rs1047664959 202 dbSNP
rs1373645922 205 dbSNP
rs993402861 208 dbSNP
rs1221641762 211 dbSNP
rs901523072 216 dbSNP
rs1325530081 225 dbSNP
rs1338206722 227 dbSNP
rs1040039255 234 dbSNP
rs556656320 235 dbSNP
rs3751618 237 dbSNP
rs1054606622 242 dbSNP
rs567873361 243 dbSNP
rs753523102 245 dbSNP
rs984224946 256 dbSNP
rs924759287 259 dbSNP
rs35588553 266 dbSNP
rs953711354 270 dbSNP
rs1474467798 271 dbSNP
rs1188293474 276 dbSNP
rs1461441450 277 dbSNP
rs549333148 288 dbSNP
rs534356073 293 dbSNP
rs79940020 294 dbSNP
rs1406275132 296 dbSNP
rs1323843676 297 dbSNP
rs552056077 298 dbSNP
rs532187806 310 dbSNP
rs1021117571 311 dbSNP
rs991415504 327 dbSNP
rs1009671939 333 dbSNP
rs1340561810 354 dbSNP
rs572450670 359 dbSNP
rs1271140965 367 dbSNP
rs76150736 370 dbSNP
rs1210140367 375 dbSNP
rs1283838862 389 dbSNP
rs1445551779 401 dbSNP
rs1432041790 403 dbSNP
rs1053846688 406 dbSNP
rs1017057234 410 dbSNP
rs1177324724 411 dbSNP
rs938028658 416 dbSNP
rs1006030350 423 dbSNP
rs905153523 437 dbSNP
rs752836416 440 dbSNP
rs140094428 442 dbSNP
rs531329360 449 dbSNP
rs767485397 450 dbSNP
rs1473333412 451 dbSNP
rs561006453 453 dbSNP
rs1383245831 455 dbSNP
rs1371348611 464 dbSNP
rs567145822 470 dbSNP
rs1360631919 472 dbSNP
rs993432529 473 dbSNP
rs1447754475 493 dbSNP
rs1242322424 507 dbSNP
rs1201511139 512 dbSNP
rs901721287 514 dbSNP
rs1245406991 522 dbSNP
rs542424550 525 dbSNP
rs1348241305 526 dbSNP
rs972586586 528 dbSNP
rs1286954703 532 dbSNP
rs759449277 535 dbSNP
rs1007262621 539 dbSNP
rs751599207 546 dbSNP
rs571865062 548 dbSNP
rs1263669052 550 dbSNP
rs1213865495 552 dbSNP
rs888778692 554 dbSNP
rs1362470526 577 dbSNP
rs560060564 581 dbSNP
rs983845893 585 dbSNP
rs1380460622 588 dbSNP
rs953849578 590 dbSNP
rs1271392223 591 dbSNP
rs1028021273 594 dbSNP
rs976820536 596 dbSNP
rs1054239498 598 dbSNP
rs1021148874 600 dbSNP
rs1310269615 603 dbSNP
rs865907185 609 dbSNP
rs544891991 610 dbSNP
rs1257904847 624 dbSNP
rs1345778477 639 dbSNP
rs924820840 639 dbSNP
rs1248984022 640 dbSNP
rs553498769 642 dbSNP
rs1450903831 648 dbSNP
rs1041827171 662 dbSNP
rs184471829 669 dbSNP
rs1252744376 672 dbSNP
rs556260146 676 dbSNP
rs1453489327 694 dbSNP
rs950310414 696 dbSNP
rs1378909601 703 dbSNP
rs117505322 710 dbSNP
rs1409016865 714 dbSNP
rs917533373 717 dbSNP
rs1466061851 718 dbSNP
rs1167295776 720 dbSNP
rs1394165222 726 dbSNP
rs1448740641 738 dbSNP
rs1331860485 739 dbSNP
rs35681053 740 dbSNP
rs958756189 742 dbSNP
rs1303612068 750 dbSNP
rs1409824481 760 dbSNP
rs192343614 764 dbSNP
rs1394453565 769 dbSNP
rs879641840 772 dbSNP
rs534394579 773 dbSNP
rs984236718 775 dbSNP
rs1199815486 783 dbSNP
rs1272988438 788 dbSNP
rs1467400807 790 dbSNP
rs531962998 792 dbSNP
rs1036924495 803 dbSNP
rs1268974531 808 dbSNP
rs951523345 812 dbSNP
rs60871316 818 dbSNP
rs1191778603 819 dbSNP
rs1370834114 820 dbSNP
rs1467184598 821 dbSNP
rs773435852 824 dbSNP
rs909680365 846 dbSNP
rs1393482401 851 dbSNP
rs1459637739 871 dbSNP
rs1295506347 876 dbSNP
rs1048694125 883 dbSNP
rs971859396 885 dbSNP
rs552138170 889 dbSNP
rs868659618 892 dbSNP
rs1018914293 901 dbSNP
rs760186827 911 dbSNP
rs1342415320 914 dbSNP
rs763225155 920 dbSNP
rs1007872790 921 dbSNP
rs1293163730 925 dbSNP
rs888799448 926 dbSNP
rs1224153773 935 dbSNP
rs920994323 938 dbSNP
rs976415287 939 dbSNP
rs77883523 951 dbSNP
rs1260466606 952 dbSNP
rs914174178 960 dbSNP
rs1194339408 961 dbSNP
rs999948736 979 dbSNP
rs188904089 980 dbSNP
rs1166723190 984 dbSNP
rs1350248998 991 dbSNP
rs1195841103 995 dbSNP
rs1287310011 1008 dbSNP
rs1358366749 1018 dbSNP
rs1400648686 1038 dbSNP
rs568192310 1039 dbSNP
rs112452193 1047 dbSNP
rs1247642413 1048 dbSNP
rs1313974396 1049 dbSNP
rs1316668781 1056 dbSNP
rs895969652 1058 dbSNP
rs1002763794 1061 dbSNP
rs1488985414 1063 dbSNP
rs969537190 1066 dbSNP
rs1256172927 1067 dbSNP
rs1025470565 1086 dbSNP
rs531298992 1089 dbSNP
rs375986156 1095 dbSNP
rs1414318693 1096 dbSNP
rs1418236445 1097 dbSNP
rs1157117343 1100 dbSNP
rs1382331738 1105 dbSNP
rs1420397912 1108 dbSNP
rs142981340 1116 dbSNP
rs1430475883 1118 dbSNP
rs1303916707 1120 dbSNP
rs537849315 1121 dbSNP
rs1389961421 1122 dbSNP
rs1336535442 1127 dbSNP
rs1306643102 1136 dbSNP
rs984489997 1141 dbSNP
rs930084485 1142 dbSNP
rs773588214 1146 dbSNP
rs1279042601 1148 dbSNP
rs1212179252 1150 dbSNP
rs888344438 1150 dbSNP
rs1048264588 1156 dbSNP
rs918711404 1175 dbSNP
rs1480190631 1177 dbSNP
rs1176485040 1178 dbSNP
rs932470473 1179 dbSNP
rs559898488 1181 dbSNP
rs568821628 1182 dbSNP
rs1416198968 1184 dbSNP
rs368154854 1194 dbSNP
rs552518770 1195 dbSNP
rs1354401660 1200 dbSNP
rs1460903370 1208 dbSNP
rs1040731530 1210 dbSNP
rs139335691 1213 dbSNP
rs150908009 1214 dbSNP
rs1364916139 1221 dbSNP
rs574071153 1225 dbSNP
rs913541485 1228 dbSNP
rs1288877415 1229 dbSNP
rs562767390 1231 dbSNP
rs1224286179 1236 dbSNP
rs1359643753 1237 dbSNP
rs185603874 1246 dbSNP
rs141598172 1252 dbSNP
rs1223543685 1264 dbSNP
rs1032684566 1266 dbSNP
rs28650960 1270 dbSNP
rs1479054230 1271 dbSNP
rs902853939 1275 dbSNP
rs925522815 1276 dbSNP
rs747478222 1280 dbSNP
rs980994886 1282 dbSNP
rs969925394 1285 dbSNP
rs1173429288 1288 dbSNP
rs1025058346 1289 dbSNP
rs1461213482 1292 dbSNP
rs1322478694 1293 dbSNP
rs760978372 1302 dbSNP
rs1410911377 1305 dbSNP
rs1345005579 1309 dbSNP
rs1020015169 1312 dbSNP
rs1013650374 1315 dbSNP
rs1301319234 1317 dbSNP
rs962110611 1318 dbSNP
rs1014958249 1327 dbSNP
rs199930770 1327 dbSNP
rs1158192705 1328 dbSNP
rs1287450315 1330 dbSNP
rs1006224440 1331 dbSNP
rs888404678 1334 dbSNP
rs1398724222 1339 dbSNP
rs1027283806 1341 dbSNP
rs1476853840 1343 dbSNP
rs1196504713 1344 dbSNP
rs778356464 1345 dbSNP
rs28475475 1348 dbSNP
rs62015995 1360 dbSNP
rs1266173488 1361 dbSNP
rs937611009 1365 dbSNP
rs558406769 1368 dbSNP
rs1323787289 1379 dbSNP
rs1200927057 1383 dbSNP
rs1359376422 1384 dbSNP
rs1299970840 1385 dbSNP
rs1488624314 1389 dbSNP
rs1241150224 1393 dbSNP
rs372542684 1394 dbSNP
rs542795524 1395 dbSNP
rs1358169804 1406 dbSNP
rs148375985 1407 dbSNP
rs1283779149 1431 dbSNP
rs918575408 1432 dbSNP
rs1041181082 1437 dbSNP
rs557586990 1443 dbSNP
rs1263984068 1449 dbSNP
rs1306311459 1457 dbSNP
rs1323425607 1471 dbSNP
rs572295494 1474 dbSNP
rs1239634338 1478 dbSNP
rs1473304852 1480 dbSNP
rs537493532 1489 dbSNP
rs936324954 1514 dbSNP
rs1417463481 1524 dbSNP
rs192032595 1525 dbSNP
rs1368647967 1526 dbSNP
rs1395430952 1528 dbSNP
rs981389099 1542 dbSNP
rs1342075152 1543 dbSNP
rs1448395753 1551 dbSNP
rs529848057 1554 dbSNP
rs1308818165 1558 dbSNP
rs1288523095 1565 dbSNP
rs1351855432 1566 dbSNP
rs1242582509 1568 dbSNP
rs1286881459 1578 dbSNP
rs1347215375 1592 dbSNP
rs948262833 1608 dbSNP
rs1258829333 1631 dbSNP
rs1443362053 1635 dbSNP
rs953228573 1644 dbSNP
rs1236723333 1645 dbSNP
rs925901301 1646 dbSNP
rs1437476145 1647 dbSNP
rs1180095584 1655 dbSNP
rs918120454 1659 dbSNP
rs555754932 1677 dbSNP
rs527361464 1681 dbSNP
rs368605979 1690 dbSNP
rs1469269242 1714 dbSNP
rs1404188698 1722 dbSNP
rs566200161 1728 dbSNP
rs1427072615 1733 dbSNP
rs1330505619 1740 dbSNP
rs1374346067 1748 dbSNP
rs202232418 1753 dbSNP
rs869029160 1753 dbSNP
rs3079001 1754 dbSNP
rs11282676 1757 dbSNP
rs201016729 1757 dbSNP
rs869276029 1757 dbSNP
rs200213366 1758 dbSNP
rs1310203772 1761 dbSNP
rs75498066 1782 dbSNP
rs1231078078 1788 dbSNP
rs1019877621 1789 dbSNP
rs147360109 1792 dbSNP
rs1346408508 1794 dbSNP
rs959743864 1805 dbSNP
rs1184442592 1810 dbSNP
rs1034532819 1815 dbSNP
rs1459329652 1833 dbSNP
rs1002143765 1846 dbSNP
rs984817975 1853 dbSNP
rs952101795 1856 dbSNP
rs888621348 1857 dbSNP
rs142690088 1860 dbSNP
rs994410167 1868 dbSNP
rs187436006 1871 dbSNP
rs529306836 1873 dbSNP
rs562041851 1881 dbSNP
rs1397877941 1905 dbSNP
rs1466957536 1907 dbSNP
rs892248809 1911 dbSNP
rs371901458 1917 dbSNP
rs561476491 1917 dbSNP
rs796539161 1917 dbSNP
rs1213051435 1920 dbSNP
rs1364317612 1929 dbSNP
rs1298110166 1936 dbSNP
rs936350532 1944 dbSNP
rs1320449202 1949 dbSNP
rs1403889402 1950 dbSNP
rs903491327 1951 dbSNP
rs944109865 1953 dbSNP
rs540604649 1955 dbSNP
rs1487991655 1966 dbSNP
rs1207667764 1968 dbSNP
rs1268905292 1984 dbSNP
rs1044725511 1986 dbSNP
rs1192896937 1988 dbSNP
rs1421313134 2008 dbSNP
rs948330992 2010 dbSNP
rs752522798 2011 dbSNP
rs1171203194 2015 dbSNP
rs1338631439 2020 dbSNP
rs918172663 2021 dbSNP
rs1295454679 2023 dbSNP
rs375729699 2023 dbSNP
rs992363216 2026 dbSNP
rs940806030 2038 dbSNP
rs911327335 2043 dbSNP
rs1049833938 2060 dbSNP
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rs1353441935 2064 dbSNP
rs1342998207 2067 dbSNP
rs907961816 2067 dbSNP
rs1312513335 2068 dbSNP
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rs1359544934 2087 dbSNP
rs1215192205 2089 dbSNP
rs1260395557 2101 dbSNP
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rs1189566085 2109 dbSNP
rs963967844 2113 dbSNP
rs925794877 2119 dbSNP
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rs1242443977 4906 dbSNP
rs922429595 4909 dbSNP
rs1266993719 4913 dbSNP
rs1356734061 4915 dbSNP
rs1204793432 4916 dbSNP
rs1246474094 4927 dbSNP
rs555810703 4927 dbSNP
rs1189367637 4935 dbSNP
rs911250495 4939 dbSNP
rs192969251 4941 dbSNP
rs147137522 4942 dbSNP
rs1369432877 4946 dbSNP
rs1453560388 4960 dbSNP
rs1157165522 4961 dbSNP
rs1198454476 4962 dbSNP
rs1436817190 4964 dbSNP
rs1320659756 4972 dbSNP
rs1381315920 4974 dbSNP
rs1394247618 4983 dbSNP
rs74567183 4992 dbSNP
rs1340964601 4994 dbSNP
rs1238112546 5003 dbSNP
rs1266001656 5011 dbSNP
rs976327598 5016 dbSNP
rs967196027 5019 dbSNP
rs956371521 5021 dbSNP
rs373498371 5025 dbSNP
rs1482290377 5038 dbSNP
rs1183651504 5039 dbSNP
rs1257538990 5060 dbSNP
rs1020468768 5065 dbSNP
rs1180548447 5067 dbSNP
rs1414574840 5071 dbSNP
rs1210213635 5076 dbSNP
rs989946784 5077 dbSNP
rs957094216 5082 dbSNP
rs868079241 5084 dbSNP
rs1379891026 5085 dbSNP
rs1266176131 5088 dbSNP
rs1034058221 5092 dbSNP
rs1286239305 5093 dbSNP
rs981872296 5096 dbSNP
rs1329274220 5098 dbSNP
rs1282939566 5106 dbSNP
rs971317323 5110 dbSNP
rs369222987 5125 dbSNP
rs1256654646 5131 dbSNP
rs141706006 5156 dbSNP
rs1203549074 5157 dbSNP
rs907461208 5164 dbSNP
rs1303953486 5168 dbSNP
rs1024522120 5169 dbSNP
rs1012916493 5170 dbSNP
rs899383503 5172 dbSNP
rs1364837033 5183 dbSNP
rs761194359 5187 dbSNP
rs1461450059 5191 dbSNP
rs1306056292 5195 dbSNP
rs1038929687 5203 dbSNP
rs1410252130 5208 dbSNP
rs941478194 5216 dbSNP
rs1365832135 5221 dbSNP
rs1221100221 5226 dbSNP
rs111473241 5227 dbSNP
rs1319169208 5228 dbSNP
rs1302079797 5232 dbSNP
rs755176541 5262 dbSNP
rs1004928930 5265 dbSNP
rs577000426 5271 dbSNP
rs1385825330 5272 dbSNP
rs187550793 5281 dbSNP
rs1245331847 5283 dbSNP
rs1487308015 5286 dbSNP
rs933956613 5292 dbSNP
rs75470180 5293 dbSNP
rs975998022 5294 dbSNP
rs1379580713 5297 dbSNP
rs116448368 5303 dbSNP
rs913090949 5310 dbSNP
rs554396665 5313 dbSNP
rs1430320649 5324 dbSNP
rs990389506 5328 dbSNP
rs201320713 5329 dbSNP
rs1034066668 5334 dbSNP
rs1245915868 5337 dbSNP
rs1361499296 5338 dbSNP
rs557882009 5341 dbSNP
rs768176939 5348 dbSNP
rs1465271451 5364 dbSNP
rs915197360 5368 dbSNP
rs1245809683 5377 dbSNP
rs1473426369 5382 dbSNP
rs1409490491 5385 dbSNP
rs376525575 5386 dbSNP
rs1323837941 5389 dbSNP
rs971029212 5412 dbSNP
rs989338697 5413 dbSNP
rs34227890 5417 dbSNP
rs1024990336 5421 dbSNP
rs536295375 5424 dbSNP
rs1464158721 5433 dbSNP
rs1186192485 5444 dbSNP
rs1249288576 5451 dbSNP
rs1450012632 5454 dbSNP
rs1162546992 5455 dbSNP
rs1411381212 5456 dbSNP
rs1406923556 5459 dbSNP
rs572100135 5459 dbSNP
rs1256238616 5462 dbSNP
rs1322659658 5467 dbSNP
rs1365934029 5469 dbSNP
rs1452587584 5469 dbSNP
rs75806249 5474 dbSNP
rs1181654376 5479 dbSNP
rs1229316933 5480 dbSNP
rs1341925571 5481 dbSNP
rs746669172 5490 dbSNP
rs970465771 5491 dbSNP
rs1024232991 5492 dbSNP
rs1005665837 5493 dbSNP
rs148867045 5498 dbSNP
rs1186194179 5499 dbSNP
rs1333664109 5509 dbSNP
rs1049759769 5510 dbSNP
rs17541344 5511 dbSNP
rs772016981 5512 dbSNP
rs182338642 5521 dbSNP
rs1473732047 5523 dbSNP
rs1182288601 5528 dbSNP
rs901204457 5530 dbSNP
rs1016552248 5534 dbSNP
rs1005107158 5535 dbSNP
rs538393006 5546 dbSNP
rs886455962 5553 dbSNP
rs138772021 5557 dbSNP
rs998015371 5564 dbSNP
rs913134790 5576 dbSNP
rs767379485 5585 dbSNP
rs1429291097 5589 dbSNP
rs1388139334 5591 dbSNP
rs1170214344 5604 dbSNP
rs1054303756 5610 dbSNP
rs900617733 5618 dbSNP
rs1236819014 5619 dbSNP
rs1226216995 5629 dbSNP
rs1289883007 5637 dbSNP
rs1329382296 5639 dbSNP
rs1185252841 5649 dbSNP
rs74015680 5657 dbSNP
rs942559955 5666 dbSNP
rs893627384 5671 dbSNP
rs750912957 5672 dbSNP
rs1275874135 5673 dbSNP
rs1444076324 5678 dbSNP
rs1269268144 5679 dbSNP
rs927048831 5680 dbSNP
rs1053643819 5681 dbSNP
rs979820503 5685 dbSNP
rs529754393 5686 dbSNP
rs1413064714 5687 dbSNP
rs971122561 5693 dbSNP
rs1170908821 5702 dbSNP
rs559374600 5703 dbSNP
rs935226316 5707 dbSNP
rs767914009 5712 dbSNP
rs112719301 5714 dbSNP
rs544014533 5715 dbSNP
rs1231057576 5721 dbSNP
rs77951053 5726 dbSNP
rs1336039268 5734 dbSNP
rs916374246 5746 dbSNP
rs190886054 5752 dbSNP
rs963570921 5756 dbSNP
rs909353622 5757 dbSNP
rs983704058 5758 dbSNP
rs1273889734 5766 dbSNP
rs749315527 5770 dbSNP
rs950909141 5773 dbSNP
rs866046130 5774 dbSNP
rs954185375 5777 dbSNP
rs1248554295 5782 dbSNP
rs1478426930 5783 dbSNP
rs1168001481 5790 dbSNP
rs997564920 5792 dbSNP
rs1432152267 5794 dbSNP
rs998251139 5806 dbSNP
rs186275880 5807 dbSNP
rs1390383338 5811 dbSNP
rs1409484745 5814 dbSNP
rs965053051 5817 dbSNP
rs117458827 5827 dbSNP
rs1441091458 5830 dbSNP
rs1296211077 5840 dbSNP
rs557946718 5845 dbSNP
rs1230436749 5846 dbSNP
rs1251708404 5846 dbSNP
rs1355321260 5866 dbSNP
rs113539333 5869 dbSNP
rs182750430 5870 dbSNP
rs1188066487 5875 dbSNP
rs1161415790 5878 dbSNP
rs572136753 5883 dbSNP
rs999407252 5884 dbSNP
rs902464197 5891 dbSNP
rs1046742856 5892 dbSNP
rs949107279 5894 dbSNP
rs916222177 5897 dbSNP
rs1180823987 5898 dbSNP
rs1368273742 5907 dbSNP
rs1054897080 5910 dbSNP
rs1456756506 5914 dbSNP
rs927138775 5918 dbSNP
rs1044231540 5927 dbSNP
rs941719906 5933 dbSNP
rs949820688 5935 dbSNP
rs1319310072 5947 dbSNP
rs916977366 5950 dbSNP
rs972431769 5957 dbSNP
rs1296274360 5959 dbSNP
rs1205350764 5971 dbSNP
rs1438781667 5989 dbSNP
rs1305992604 5990 dbSNP
rs909386125 5993 dbSNP
rs553903086 6007 dbSNP
rs567283186 6011 dbSNP
rs751884914 6029 dbSNP
rs28743026 6034 dbSNP
rs976882741 6038 dbSNP
rs965501437 6039 dbSNP
rs578039280 6048 dbSNP
rs1256118889 6050 dbSNP
rs1021418886 6060 dbSNP
rs1422570593 6060 dbSNP
rs781486042 6061 dbSNP
rs964754301 6063 dbSNP
rs1294051473 6077 dbSNP
rs1157897337 6088 dbSNP
rs1017536639 6100 dbSNP
rs1385966599 6109 dbSNP
rs1458398446 6116 dbSNP
rs1227847133 6119 dbSNP
rs1288941643 6120 dbSNP
rs1401477477 6124 dbSNP
rs1009589258 6125 dbSNP
rs755311869 6127 dbSNP
rs957418122 6132 dbSNP
rs1031710951 6136 dbSNP
rs1355805624 6137 dbSNP
rs999356257 6140 dbSNP
rs1349138730 6144 dbSNP
rs1286742292 6148 dbSNP
rs556570546 6150 dbSNP
rs1255430508 6162 dbSNP
rs1482565724 6176 dbSNP
rs1407080675 6177 dbSNP
rs1032331713 6180 dbSNP
rs1046341348 6181 dbSNP
rs1013894389 6182 dbSNP
rs1471328781 6184 dbSNP
rs905774880 6185 dbSNP
rs766789685 6192 dbSNP
rs1177445247 6200 dbSNP
rs1044284387 6211 dbSNP
rs1159208880 6231 dbSNP
rs1054760155 6239 dbSNP
rs866555830 6241 dbSNP
rs941667692 6243 dbSNP
rs949889304 6244 dbSNP
rs1464507993 6247 dbSNP
rs895566984 6250 dbSNP
rs1197190844 6254 dbSNP
rs909000356 6265 dbSNP
rs1305948719 6269 dbSNP
rs538485335 6270 dbSNP
rs567847885 6273 dbSNP
rs369820124 6278 dbSNP
rs549731238 6282 dbSNP
rs534471451 6284 dbSNP
rs1300718714 6286 dbSNP
rs1310468388 6287 dbSNP
rs1274365104 6291 dbSNP
rs939713699 6307 dbSNP
rs1327203873 6313 dbSNP
rs1203527958 6325 dbSNP
rs929519477 6335 dbSNP
rs983750277 6348 dbSNP
rs567141928 6350 dbSNP
rs61202723 6353 dbSNP
rs932941650 6353 dbSNP
rs145473921 6358 dbSNP
rs199702379 6359 dbSNP
rs377609949 6359 dbSNP
rs547092453 6359 dbSNP
rs1174937488 6361 dbSNP
rs1367167373 6364 dbSNP
rs923405047 6373 dbSNP
rs1272918287 6376 dbSNP
rs558685327 6380 dbSNP
rs1429011980 6400 dbSNP
rs976379725 6404 dbSNP
rs191660653 6407 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545217. RNA binding protein: AGO2. Condition:miR-7 transfection PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
IDDuplex structurePosition
1
miRNA  3' guguuugGUAA----UACACGACGAu 5'
                 ||||    || ||||||| 
Target 5' -------CAUUUUAAAU-UGCUGCUa 3'
1 - 18
Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1, repA ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Jiyoye
Tools used in this research TargetScan
Original Description (Extracted from the article) ... HITS-CLIP data was present in Supplenentary. RNA binding protein: AGO2. ...

- Riley KJ; Rabinowitz GS; Yario TA; Luna JM; et al., 2012, The EMBO journal.

Article - Riley KJ; Rabinowitz GS; Yario TA; Luna JM; et al.
- The EMBO journal, 2012
Epstein-Barr virus (EBV) controls gene expression to transform human B cells and maintain viral latency. High-throughput sequencing and crosslinking immunoprecipitation (HITS-CLIP) identified mRNA targets of 44 EBV and 310 human microRNAs (miRNAs) in Jijoye (Latency III) EBV-transformed B cells. While 25% of total cellular miRNAs are viral, only three viral mRNAs, all latent transcripts, are targeted. Thus, miRNAs do not control the latent/lytic switch by targeting EBV lytic genes. Unexpectedly, 90% of the 1664 human 3'-untranslated regions targeted by the 12 most abundant EBV miRNAs are also targeted by human miRNAs via distinct binding sites. Half of these are targets of the oncogenic miR-17 approximately 92 miRNA cluster and associated families, including mRNAs that regulate transcription, apoptosis, Wnt signalling, and the cell cycle. Reporter assays confirmed the functionality of several EBV and miR-17 family miRNA-binding sites in EBV latent membrane protein 1 (LMP1), EBV BHRF1, and host CAPRIN2 mRNAs. Our extensive list of EBV and human miRNA targets implicates miRNAs in the control of EBV latency and illuminates viral miRNA function in general.
LinkOut: [PMID: 22473208]
Experimental Support 4 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM1065670. RNA binding protein: AGO2. Condition:4-thiouridine, 3_ML_LG ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
CLIP-seq Support 1 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000399231.3 | 3UTR | CAUUUUAAAUUGCUGCUACAUACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545217
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-7 transfection
Location of target site ENST00000399231.3 | 3UTR | CAUUUUAAAUUGCUGCUAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000399231.3 | 3UTR | CAUUUUAAAUUGCUGCUACAUACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1065670
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / 4-thiouridine, 3_ML_LG
Location of target site ENST00000399231.3 | 3UTR | CAUUUUAAAUUGCUGCUACAUACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
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
GSE34608 Pulmonary tuberculosis and sarcoidosis 0.818 5.3e-6 0.765 4.3e-5 20 Click to see details
GSE42095 Differentiated embryonic stem cells 0.717 5.9e-5 0.605 1.1e-3 23 Click to see details
GSE27834 Pluripotent stem cells -0.487 2.8e-2 -0.509 2.2e-2 16 Click to see details
GSE21032 Prostate cancer 0.191 4.2e-2 0.176 5.6e-2 83 Click to see details
GSE19783 ER- ER- breast cancer -0.195 4.3e-2 -0.172 6.5e-2 79 Click to see details
GSE19783 ER+ ER+ breast cancer 0.385 4.7e-2 0.459 2.1e-2 20 Click to see details
GSE28260 Renal cortex and medulla -0.427 7.3e-2 -0.324 1.4e-1 13 Click to see details
GSE17498 Multiple myeloma -0.219 8.7e-2 -0.258 5.4e-2 40 Click to see details
GSE35602 Colorectal cancer stromal tissue -0.263 1.0e-1 -0.115 2.9e-1 25 Click to see details
GSE38226 Liver fibrosis 0.218 1.7e-1 0.252 1.4e-1 21 Click to see details
GSE38974 Chronic obstructive pulmonary disease 0.153 2.3e-1 0.263 1.0e-1 25 Click to see details
GSE14794 Lymphoblastoid cells 0.066 2.7e-1 0.073 2.5e-1 90 Click to see details
GSE32688 Pancreatic cancer 0.096 3.0e-1 0.207 1.3e-1 32 Click to see details
GSE28544 Breast cancer -0.111 3.0e-1 -0.416 2.2e-2 24 Click to see details
GSE19536 Breast cancer -0.047 3.2e-1 -0.057 2.9e-1 100 Click to see details
GSE21849 B cell lymphoma -0.085 3.3e-1 0.233 1.1e-1 29 Click to see details
GSE17306 Multiple myeloma -0.059 3.4e-1 -0.042 3.9e-1 49 Click to see details
GSE26953 Aortic valvular endothelial cells -0.075 3.6e-1 -0.090 3.4e-1 24 Click to see details
GSE21687 Ependynoma primary tumors 0.016 4.5e-1 0.069 2.9e-1 64 Click to see details
GSE19350 CNS germ cell tumors 0.024 4.7e-1 -0.161 3.1e-1 12 Click to see details
GSE19350 CNS germ cell tumors 0.024 4.7e-1 -0.161 3.1e-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
STAD -0.377 0.02 -0.422 0.01 32 Click to see details
LUSC -0.218 0.09 -0.188 0.13 38 Click to see details
KIRP 0.206 0.13 0.035 0.42 32 Click to see details
CHOL -0.421 0.13 -0.433 0.12 9 Click to see details
THCA -0.112 0.2 -0.188 0.08 59 Click to see details
KICH 0.175 0.2 0.315 0.06 25 Click to see details
KIRC 0.101 0.21 0.095 0.22 68 Click to see details
UCEC -0.175 0.24 -0.254 0.15 19 Click to see details
BLCA -0.166 0.26 -0.141 0.29 18 Click to see details
COAD -0.233 0.29 -0.095 0.41 8 Click to see details
LUAD 0.177 0.29 0.182 0.29 12 Click to see details
HNSC -0.087 0.29 -0.104 0.26 42 Click to see details
BRCA 0.035 0.38 0.075 0.25 84 Click to see details
PCPG -0.283 0.41 -0.500 0.33 3 Click to see details
CESC 0.229 0.43 0.500 0.33 3 Click to see details
PAAD 0.145 0.43 -0.200 0.4 4 Click to see details
ESCA 0.025 0.47 0.245 0.23 11 Click to see details
PRAD -0.006 0.48 -0.017 0.45 50 Click to see details
LIHC -0.002 0.49 -0.054 0.36 49 Click to see details
LIHC -0.002 0.49 -0.054 0.36 49 Click to see details
LIHC -0.002 0.49 -0.054 0.36 49 Click to see details