miRTarBase - #MIRT510981


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pre-miRNA Information
pre-miRNA hsa-mir-1199   
Genomic Coordinates chr19: 14073361 - 14073479
Description Homo sapiens miR-1199 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-1199-5p
Sequence 21| CCUGAGCCCGGGCCGCGCAG |40
Evidence Not_experimental
Experiments
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1438702968 5 dbSNP
rs757334792 6 dbSNP
rs1159152107 9 dbSNP
rs1365081692 10 dbSNP
rs1451155091 12 dbSNP
rs934105122 17 dbSNP
Putative Targets

Gene Information
Gene Symbol PFN2   
Synonyms D3S1319E, PFL
Description profilin 2
Transcript NM_053024   
Other Transcripts NM_002628   
Expression
Putative miRNA Targets on PFN2
3'UTR of PFN2
(miRNA target sites are highlighted)		 
>PFN2|NM_053024|3'UTR
   1 CTGCTAGGCAGACTGTTAAGTATTAGGGGAAAATTGCTCTTAAACTTTCCTAGCTATAAGCTTAAGTCTTAATTCTGGAA
  81 ATTTTATTAGCAATGCAGGGTGATGGGGTATGAACCTGTGTCTCCTTTGTATCCCTCTGTTGGTGGGGAAAGGTGTCTTT
 161 CTTTCTGCCCTCCCCCCCCAAAATAATTCTGTTCACTTTTGTTTTGTTTCCTTGTGTACTCCAGCATTGGTTATAGTCAT
 241 GGGAAAGGAAGGTGTCCACGGAGGCACACTTAACAAGAAAGCATATGAACTCGCTTTATACCTGAGGAGGTCTGATGTGT
 321 AAGCAGCCTCTCCCCATCTACCTAGCAACTGTCTTCATCAACAACCCTAATTATGGTCACAATGCTACCAAACTGTAGAT
 401 GGTAGCTAATTTTTCTTTACCTATTTTCTAATGTCATGATTCCTGTTTGCCCAATGGATCATTTGTATGTTAACCACTGT
 481 ATGTAACCAACCCTTATCTGGCAACATAATTGCAGCACAATAATGATTTGCATGATACCTTGAAATTGGGGGGAGGGGGC
 561 ATGCCAAGTTGGGCATCACTTTGTCTTAGCAATTAATGGGATATTGATTACTAAAATAAGTTAATATTAAGCAAGGTGCC
 641 GGTTGTACAATCTCTGATCAGTGTCTTTTCAGCACTTTGAGCATTTACTTGGCTCATTTAGTCTTCCTTTTGTAGCGCAT
 721 GGTTGGGAGGAAAAAGTGCATGCATCATTCCTTCACTCTTCTCTTTTTCCCGCCCCCCCTCCCTTCGCACATAGGCATTT
 801 GGTTTGCTTCCATCTTTTTTTATGCAGTGCCTGTTTTTTTTTAACCAATTAAAATCCCTTTTGTTGATGAGCTATTGAGA
 881 GCTGCAGTAGTTTGCTTTTAGTATTGTTGTTGCACTTGAGCAGAGACAAACCTTTATTCATAGTGTCTACAGGACATATG
 961 AAGAGTGCAATGGCAAAACAAGAGCAAAAAGCACTTCCTCCCATGACCTTACAGTAACCATACTGATTGAATCCCCAGGG
1041 ACATTCCATCATTGCAATAGCTCAGATTTTTCTTCCTTTTTCTTTGCACACCAGCTCTACTCTTTAGTAAAATTGTAAAA
1121 GGCTGCCATTATGGACATTAGGTATCCCAACATAACCATCTGGAGTGTGTCCAGTTTGTTCTTCATAGGACCAATTTTTA
1201 TTTGCAGCTTGAGTTTTTATATGAAGTTGCATTATTGTGGACTTGGCTGTCTTGTGATGAATTTTTTTCATATGTATTCT
1281 GTGCCATACTATTGTTAAAATGAACTGTTGCTATTGTGAGATGGATTTTAACTGACCTATTAAGGGTTTCTTTCGAATGG
1361 CACTACTTTAGGGACATTCTAGTATTTGCTTCTATTGTTTGGGCCTTGTGGATAATGTACAGATTTAAAAACAAATCTTG
1441 TTGCTGATTTGTCCATTTCTTTCCCTGCACTTTGTTACATCTGGGATACAGTCTAACTCATCTGATTTAATATGCATTTA
1521 AAAAAATGCCATAACTATTAAACACCTTGTTTACAGACAGATGAAATAAATTTATTCCAACCAAAAAAAAAAAAAA
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' gacgcgccgGGCCCGAGUcc 5'
                   |: ||||||  
Target 5' gagcatttaCTTGGCTCAtt 3'
 679 - 698 123.00 -9.90
2 
miRNA  3' gacgcgccgggccCGAGUCc 5'
                       |||||| 
Target 5' catcattgcaataGCTCAGa 3'
 1047 - 1066 120.00 -8.20
3 
miRNA  3' gacgCGCCGG-GC--CCGAGUcc 5'
              |:| || ||  ||| ||  
Target 5' gaagGTGTCCACGGAGGCACAct 3'
 248 - 270 98.00 -11.32
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN5271109 16 COSMIC
COSN30476244 29 COSMIC
COSN30476309 31 COSMIC
COSN30153033 59 COSMIC
COSN31560814 65 COSMIC
COSN30113462 72 COSMIC
COSN31578383 84 COSMIC
COSN18164747 144 COSMIC
COSN30681149 146 COSMIC
COSN30542852 152 COSMIC
COSN30543153 153 COSMIC
COSN26988711 154 COSMIC
COSN30679239 164 COSMIC
COSN30152493 165 COSMIC
COSN2532336 171 COSMIC
COSN26988709 172 COSMIC
COSN31498194 178 COSMIC
COSN26988713 179 COSMIC
COSN28859697 179 COSMIC
COSN20080776 180 COSMIC
COSN30501461 202 COSMIC
COSM8617119 218 COSMIC
COSM9076736 227 COSMIC
COSM9434146 242 COSMIC
COSM3365036 249 COSMIC
COSM6744465 259 COSMIC
COSM1419880 260 COSMIC
COSM8661880 269 COSMIC
COSM6744462 277 COSMIC
COSM5994844 283 COSMIC
COSM296118 292 COSMIC
COSM8640924 304 COSMIC
COSM9343281 320 COSMIC
COSN30498675 345 COSMIC
COSN30498660 352 COSMIC
COSN31567201 373 COSMIC
COSN30518395 405 COSMIC
COSN31582736 415 COSMIC
COSN31530034 428 COSMIC
COSN30106388 434 COSMIC
COSN30181955 438 COSMIC
COSN31604029 457 COSMIC
COSN31575567 542 COSMIC
COSN20975178 738 COSMIC
COSN31480853 763 COSMIC
COSN26563823 771 COSMIC
COSN20099211 772 COSMIC
COSN19664464 780 COSMIC
COSN7825590 781 COSMIC
COSN31588586 802 COSMIC
COSN31521192 819 COSMIC
COSN27913454 935 COSMIC
COSN31962172 1006 COSMIC
COSN31962171 1007 COSMIC
COSN30573127 1041 COSMIC
COSN26549528 1127 COSMIC
COSN30554908 1167 COSMIC
COSN31566564 1179 COSMIC
COSN31540868 1187 COSMIC
COSN24389560 1211 COSMIC
COSN24389559 1212 COSMIC
COSN9759713 1255 COSMIC
COSN20057435 1283 COSMIC
COSN25807404 1334 COSMIC
COSN31540178 1344 COSMIC
COSN20684731 1410 COSMIC
COSN8488478 1533 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1355451485 4 dbSNP
rs768642346 9 dbSNP
rs1311764141 13 dbSNP
rs762741841 19 dbSNP
rs746521150 22 dbSNP
rs954802894 22 dbSNP
rs779580619 23 dbSNP
rs1282673811 25 dbSNP
rs1453820522 28 dbSNP
rs550532075 37 dbSNP
rs749996478 38 dbSNP
rs1169164119 39 dbSNP
rs778631060 42 dbSNP
rs1028913862 45 dbSNP
rs866790076 48 dbSNP
rs1037697419 49 dbSNP
rs530545783 51 dbSNP
rs1191301120 52 dbSNP
rs1365188418 58 dbSNP
rs1470347592 63 dbSNP
rs111584999 69 dbSNP
rs942037089 75 dbSNP
rs1405666252 81 dbSNP
rs996191212 83 dbSNP
rs1165606036 84 dbSNP
rs372412749 93 dbSNP
rs1438815868 108 dbSNP
rs1333529744 110 dbSNP
rs564965828 116 dbSNP
rs1160278263 122 dbSNP
rs187072620 127 dbSNP
rs1032248148 133 dbSNP
rs918107266 135 dbSNP
rs1470186729 142 dbSNP
rs555662519 143 dbSNP
rs990968018 146 dbSNP
rs959640251 151 dbSNP
rs1181221751 153 dbSNP
rs76689050 159 dbSNP
rs1046277176 167 dbSNP
rs1211272851 168 dbSNP
rs1243408474 168 dbSNP
rs747144611 172 dbSNP
rs559612194 173 dbSNP
rs183074065 174 dbSNP
rs201236013 175 dbSNP
rs190814438 176 dbSNP
rs367662940 177 dbSNP
rs776480347 178 dbSNP
rs768550185 179 dbSNP
rs557338547 180 dbSNP
rs762210043 180 dbSNP
rs1415789373 181 dbSNP
rs1157533133 189 dbSNP
rs746998778 199 dbSNP
rs777204658 201 dbSNP
rs768549198 210 dbSNP
rs780064522 213 dbSNP
rs1354101182 218 dbSNP
rs1030147497 223 dbSNP
rs771445415 227 dbSNP
rs199699422 236 dbSNP
rs778415906 240 dbSNP
rs900464198 243 dbSNP
rs1339522987 245 dbSNP
rs1481997002 248 dbSNP
rs757000144 251 dbSNP
rs1270459728 253 dbSNP
rs1485024068 255 dbSNP
rs1037582607 257 dbSNP
rs781721338 259 dbSNP
rs374675748 260 dbSNP
rs186042043 265 dbSNP
rs1474171900 266 dbSNP
rs1048167732 267 dbSNP
rs975263276 270 dbSNP
rs762886569 276 dbSNP
rs750576871 280 dbSNP
rs367892407 281 dbSNP
rs917993555 283 dbSNP
rs762066173 285 dbSNP
rs1203969821 287 dbSNP
rs1166304418 290 dbSNP
rs1055334753 292 dbSNP
rs776388775 293 dbSNP
rs747125459 298 dbSNP
rs575275636 299 dbSNP
rs1374072323 300 dbSNP
rs1376789332 301 dbSNP
rs760496129 302 dbSNP
rs375344821 304 dbSNP
rs1226534588 306 dbSNP
rs1402359955 311 dbSNP
rs772104137 311 dbSNP
rs1296952286 316 dbSNP
rs1326445787 317 dbSNP
rs1267964650 318 dbSNP
rs558586155 323 dbSNP
rs370781944 328 dbSNP
rs770681892 330 dbSNP
rs979717663 333 dbSNP
rs1262190047 334 dbSNP
rs967337384 335 dbSNP
rs538749691 337 dbSNP
rs1486751690 338 dbSNP
rs566695281 340 dbSNP
rs1446428130 343 dbSNP
rs779315551 344 dbSNP
rs368913205 348 dbSNP
rs1340680638 350 dbSNP
rs747416238 353 dbSNP
rs775643537 357 dbSNP
rs115449265 361 dbSNP
rs1294256625 363 dbSNP
rs1415054231 364 dbSNP
rs1454851650 366 dbSNP
rs1054867646 368 dbSNP
rs759014841 371 dbSNP
rs1187599536 379 dbSNP
rs756886869 382 dbSNP
rs954516838 383 dbSNP
rs1030032892 385 dbSNP
rs112142737 387 dbSNP
rs1455689033 390 dbSNP
rs1289891914 395 dbSNP
rs1384864492 397 dbSNP
rs536478714 398 dbSNP
rs774840644 403 dbSNP
rs1317927920 404 dbSNP
rs1372589269 419 dbSNP
rs1283909933 421 dbSNP
rs1240654038 423 dbSNP
rs995686123 426 dbSNP
rs898135833 430 dbSNP
rs995841631 432 dbSNP
rs567923895 437 dbSNP
rs1261156109 438 dbSNP
rs1485491427 439 dbSNP
rs80118260 440 dbSNP
rs200060296 443 dbSNP
rs1468984584 444 dbSNP
rs1193183662 450 dbSNP
rs530481094 454 dbSNP
rs11559021 476 dbSNP
rs886336807 490 dbSNP
rs538997109 498 dbSNP
rs1047779460 501 dbSNP
rs1014095088 520 dbSNP
rs1452220720 524 dbSNP
rs1167775790 525 dbSNP
rs1395968898 528 dbSNP
rs1441020564 532 dbSNP
rs1324722935 537 dbSNP
rs1365035074 539 dbSNP
rs1392822659 540 dbSNP
rs896449010 545 dbSNP
rs933479436 549 dbSNP
rs922118471 553 dbSNP
rs1214274615 568 dbSNP
rs182321311 583 dbSNP
rs753427066 596 dbSNP
rs958377020 597 dbSNP
rs938027534 598 dbSNP
rs551475260 599 dbSNP
rs925273831 602 dbSNP
rs1481726446 603 dbSNP
rs377163098 606 dbSNP
rs1240089276 616 dbSNP
rs1344766640 620 dbSNP
rs528212037 620 dbSNP
rs978499610 625 dbSNP
rs12632341 635 dbSNP
rs565331418 636 dbSNP
rs553690087 637 dbSNP
rs1163555328 638 dbSNP
rs1044391490 640 dbSNP
rs1013537450 641 dbSNP
rs535371397 650 dbSNP
rs945540482 652 dbSNP
rs1298419290 656 dbSNP
rs1372274049 668 dbSNP
rs568272824 675 dbSNP
rs959173592 678 dbSNP
rs1033947458 686 dbSNP
rs1294975404 690 dbSNP
rs914067586 691 dbSNP
rs988542063 695 dbSNP
rs954461004 699 dbSNP
rs1205424476 708 dbSNP
rs1250980566 709 dbSNP
rs1407796639 710 dbSNP
rs559218042 711 dbSNP
rs923060958 715 dbSNP
rs1258718089 716 dbSNP
rs974368620 717 dbSNP
rs1186464905 719 dbSNP
rs1410930692 720 dbSNP
rs898244918 722 dbSNP
rs1036825090 732 dbSNP
rs1003829053 733 dbSNP
rs750323355 747 dbSNP
rs767242344 752 dbSNP
rs1314459548 758 dbSNP
rs1375877246 769 dbSNP
rs1414045807 770 dbSNP
rs542785411 771 dbSNP
rs79891350 772 dbSNP
rs1340274833 774 dbSNP
rs1051948531 777 dbSNP
rs1485563078 778 dbSNP
rs933594701 778 dbSNP
rs1039619387 779 dbSNP
rs200951564 780 dbSNP
rs35287754 780 dbSNP
rs397761777 780 dbSNP
rs1332031638 781 dbSNP
rs1431464756 781 dbSNP
rs563589980 781 dbSNP
rs1288333269 784 dbSNP
rs1490860006 784 dbSNP
rs543361865 786 dbSNP
rs1304461404 787 dbSNP
rs1347529828 787 dbSNP
rs1217833176 793 dbSNP
rs1286857637 801 dbSNP
rs575193952 802 dbSNP
rs1215750054 806 dbSNP
rs1246830937 807 dbSNP
rs1463175572 812 dbSNP
rs964371964 816 dbSNP
rs1195048269 822 dbSNP
rs1253241456 822 dbSNP
rs777483543 825 dbSNP
rs1170580226 829 dbSNP
rs1305945068 834 dbSNP
rs1409941703 835 dbSNP
rs1158322541 843 dbSNP
rs1386473460 843 dbSNP
rs542085091 843 dbSNP
rs1443207802 844 dbSNP
rs1326744031 846 dbSNP
rs1006565637 848 dbSNP
rs199771239 855 dbSNP
rs1281600928 857 dbSNP
rs950546082 860 dbSNP
rs1214917715 871 dbSNP
rs1223666538 871 dbSNP
rs1266794988 873 dbSNP
rs1326370929 874 dbSNP
rs1215012113 879 dbSNP
rs1322618469 882 dbSNP
rs1273332887 884 dbSNP
rs1026568559 886 dbSNP
rs1013459355 887 dbSNP
rs896563730 891 dbSNP
rs558548694 894 dbSNP
rs1196344172 900 dbSNP
rs1406619479 901 dbSNP
rs1470398671 906 dbSNP
rs1181282079 909 dbSNP
rs377154716 913 dbSNP
rs796282676 913 dbSNP
rs1297056372 914 dbSNP
rs1380906986 925 dbSNP
rs1463004867 931 dbSNP
rs1439436799 932 dbSNP
rs1393882773 933 dbSNP
rs1331152203 936 dbSNP
rs1355892522 936 dbSNP
rs1355419232 941 dbSNP
rs1170773864 943 dbSNP
rs1441936549 945 dbSNP
rs1804221 952 dbSNP
rs755535668 959 dbSNP
rs1429110707 965 dbSNP
rs1234493379 966 dbSNP
rs1002185213 969 dbSNP
rs1293326572 971 dbSNP
rs1355068483 975 dbSNP
rs778104490 982 dbSNP
rs1274685017 1003 dbSNP
rs1438115284 1008 dbSNP
rs903871827 1012 dbSNP
rs1268694289 1020 dbSNP
rs190941088 1025 dbSNP
rs1476131491 1029 dbSNP
rs1043952997 1030 dbSNP
rs572983403 1033 dbSNP
rs892761032 1034 dbSNP
rs1461038898 1036 dbSNP
rs992051906 1049 dbSNP
rs1409666913 1052 dbSNP
rs1051695077 1053 dbSNP
rs1033482359 1055 dbSNP
rs974313950 1057 dbSNP
rs752303994 1064 dbSNP
rs767328540 1066 dbSNP
rs553217598 1067 dbSNP
rs1339637089 1071 dbSNP
rs1227271345 1072 dbSNP
rs761614896 1073 dbSNP
rs1015748007 1077 dbSNP
rs974484532 1081 dbSNP
rs1413342117 1097 dbSNP
rs1396590101 1099 dbSNP
rs536847336 1105 dbSNP
rs1460387176 1106 dbSNP
rs1440693740 1108 dbSNP
rs759618008 1110 dbSNP
rs1422710882 1122 dbSNP
rs1195397983 1124 dbSNP
rs1188327941 1127 dbSNP
rs750443397 1131 dbSNP
rs1449056703 1134 dbSNP
rs1255586185 1135 dbSNP
rs1166973594 1136 dbSNP
rs1187101058 1145 dbSNP
rs751391112 1146 dbSNP
rs567775628 1150 dbSNP
rs1275179655 1155 dbSNP
rs752866193 1159 dbSNP
rs890769213 1169 dbSNP
rs1400677929 1171 dbSNP
rs1194628259 1173 dbSNP
rs1317804048 1177 dbSNP
rs1274222122 1182 dbSNP
rs1029298507 1183 dbSNP
rs1235465295 1184 dbSNP
rs1336499849 1185 dbSNP
rs1282139627 1190 dbSNP
rs551211223 1194 dbSNP
rs1433832946 1200 dbSNP
rs1335888761 1201 dbSNP
rs757351147 1203 dbSNP
rs1294959984 1205 dbSNP
rs1444498597 1211 dbSNP
rs1399376604 1216 dbSNP
rs766219659 1218 dbSNP
rs1255250321 1219 dbSNP
rs1385099088 1230 dbSNP
rs1462878050 1232 dbSNP
rs775583201 1236 dbSNP
rs1411339128 1242 dbSNP
rs1026264730 1245 dbSNP
rs1206867156 1247 dbSNP
rs537764717 1252 dbSNP
rs1446787854 1253 dbSNP
rs201160088 1258 dbSNP
rs386666992 1258 dbSNP
rs1186840128 1259 dbSNP
rs1255122569 1265 dbSNP
rs1179691986 1269 dbSNP
rs571229643 1270 dbSNP
rs1254104336 1272 dbSNP
rs1216093545 1276 dbSNP
rs1333228101 1279 dbSNP
rs1289592309 1280 dbSNP
rs1227429673 1285 dbSNP
rs551381783 1291 dbSNP
rs528122071 1292 dbSNP
rs1042477485 1293 dbSNP
rs1372706872 1295 dbSNP
rs1237236046 1296 dbSNP
rs1375510887 1297 dbSNP
rs1326560635 1307 dbSNP
rs1442980084 1309 dbSNP
rs1347943779 1316 dbSNP
rs1247960108 1317 dbSNP
rs1322601733 1317 dbSNP
rs1401526660 1318 dbSNP
rs141538233 1324 dbSNP
rs1002301099 1333 dbSNP
rs1156938892 1334 dbSNP
rs372786538 1335 dbSNP
rs1395755818 1336 dbSNP
rs1196111537 1337 dbSNP
rs1467506713 1338 dbSNP
rs1261243977 1346 dbSNP
rs1246525729 1347 dbSNP
rs1328479575 1353 dbSNP
rs1213640846 1354 dbSNP
rs563340701 1355 dbSNP
rs1275177209 1364 dbSNP
rs917894118 1367 dbSNP
rs992165049 1371 dbSNP
rs1265643999 1382 dbSNP
rs1022718300 1388 dbSNP
rs1183087081 1392 dbSNP
rs1318663649 1396 dbSNP
rs1471931156 1401 dbSNP
rs765562021 1407 dbSNP
rs1009607086 1410 dbSNP
rs1244634065 1411 dbSNP
rs1458061288 1419 dbSNP
rs1380073229 1420 dbSNP
rs892699511 1422 dbSNP
rs1392914294 1431 dbSNP
rs762846840 1432 dbSNP
rs1288812184 1434 dbSNP
rs1804222 1455 dbSNP
rs1349772414 1457 dbSNP
rs543284756 1471 dbSNP
rs533071676 1473 dbSNP
rs1052279 1481 dbSNP
rs1226536119 1485 dbSNP
rs564072075 1489 dbSNP
rs186216980 1491 dbSNP
rs573200914 1520 dbSNP
rs1403436701 1526 dbSNP
rs1263910741 1527 dbSNP
rs146525129 1527 dbSNP
rs1481782131 1531 dbSNP
rs1196735084 1537 dbSNP
rs553419251 1541 dbSNP
rs570118228 1551 dbSNP
rs1251612068 1553 dbSNP
rs900024630 1558 dbSNP
rs974048630 1571 dbSNP
rs113793939 1578 dbSNP
rs962845610 1580 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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

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

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
Disease 5217.0
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 "PAR-CLIP data was present in GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

- 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 HEK293
Disease 5217.0
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 GSM1065667. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine ...

- 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 ENST00000239940.7 | 3UTR | AUUUUUCUUCCUUUUUCUUUGCACACC
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 GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000239940.7 | 3UTR | AUUUUUCUUCCUUUUUCUUUGCACACCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000239940.7 | 3UTR | AUUUUUCUUCCUUUUUCUUUGCACACCAG
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 GSM1065667
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_6
Location of target site ENST00000239940.7 | 3UTR | AUUUUUCUUCCUUUUUCUUUGCACACCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1065669
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_8
Location of target site ENST00000239940.7 | 3UTR | AUUUUUCUUCCUUUUUCUUUGCACACC
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
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
75 hsa-miR-1199-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT130735 GATAD2B GATA zinc finger domain containing 2B 2 4
MIRT134908 CCND2 cyclin D2 2 2
MIRT273033 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT276644 KPNA3 karyopherin subunit alpha 3 2 6
MIRT446532 OAS2 2'-5'-oligoadenylate synthetase 2 2 2
MIRT456270 TDRKH tudor and KH domain containing 2 12
MIRT494455 BTG2 BTG anti-proliferation factor 2 2 2
MIRT494966 USP46 ubiquitin specific peptidase 46 2 2
MIRT496690 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT496698 RGS11 regulator of G protein signaling 11 2 2
MIRT504377 IRF4 interferon regulatory factor 4 2 6
MIRT510981 PFN2 profilin 2 2 6
MIRT512549 MFN2 mitofusin 2 2 6
MIRT513640 TP53INP2 tumor protein p53 inducible nuclear protein 2 2 2
MIRT514017 CAMSAP1 calmodulin regulated spectrin associated protein 1 2 4
MIRT514075 MTRNR2L6 MT-RNR2-like 6 2 2
MIRT515302 C15orf38-AP3S2 C15orf38-AP3S2 readthrough 2 4
MIRT517286 AP3S2 adaptor related protein complex 3 sigma 2 subunit 2 4
MIRT519076 KCNK6 potassium two pore domain channel subfamily K member 6 2 2
MIRT520780 TCF23 transcription factor 23 2 2
MIRT522487 MFSD9 major facilitator superfamily domain containing 9 2 2
MIRT528857 PKP1 plakophilin 1 2 2
MIRT529080 PATE2 prostate and testis expressed 2 2 2
MIRT531210 PLA2G4D phospholipase A2 group IVD 2 2
MIRT533989 TAB3 TGF-beta activated kinase 1 and MAP3K7 binding protein 3 2 2
MIRT537025 GRIN2B glutamate ionotropic receptor NMDA type subunit 2B 2 2
MIRT537499 FAM168B family with sequence similarity 168 member B 2 2
MIRT553127 UBE2Z ubiquitin conjugating enzyme E2 Z 2 2
MIRT555592 PIP5K1C phosphatidylinositol-4-phosphate 5-kinase type 1 gamma 2 2
MIRT556371 LUZP1 leucine zipper protein 1 2 2
MIRT569746 C2orf71 chromosome 2 open reading frame 71 2 2
MIRT570150 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT571244 FADS6 fatty acid desaturase 6 2 2
MIRT573066 TRIB1 tribbles pseudokinase 1 2 2
MIRT575534 Map4 microtubule-associated protein 4 2 2
MIRT575778 Tnfrsf10b tumor necrosis factor receptor superfamily, member 10b 2 2
MIRT616559 ZNF512B zinc finger protein 512B 2 2
MIRT630079 GRWD1 glutamate rich WD repeat containing 1 2 2
MIRT631480 KLHL21 kelch like family member 21 2 2
MIRT632174 CCL22 C-C motif chemokine ligand 22 2 2
MIRT638398 QSOX2 quiescin sulfhydryl oxidase 2 2 4
MIRT641193 ISG20L2 interferon stimulated exonuclease gene 20 like 2 2 2
MIRT642563 TEX9 testis expressed 9 2 2
MIRT642938 KRTAP5-9 keratin associated protein 5-9 2 2
MIRT649704 ZNF175 zinc finger protein 175 2 2
MIRT652114 TRUB2 TruB pseudouridine synthase family member 2 2 2
MIRT652274 TOMM20 translocase of outer mitochondrial membrane 20 2 2
MIRT655216 PFKM phosphofructokinase, muscle 2 2
MIRT682779 ZNF852 zinc finger protein 852 2 2
MIRT683002 MUC20 mucin 20, cell surface associated 2 2
MIRT684321 GTF3C4 general transcription factor IIIC subunit 4 2 2
MIRT689436 CYB561 cytochrome b561 2 2
MIRT693848 ZNF107 zinc finger protein 107 2 2
MIRT696716 TAX1BP3 Tax1 binding protein 3 2 2
MIRT698598 TEX261 testis expressed 261 2 2
MIRT699974 RREB1 ras responsive element binding protein 1 2 2
MIRT703311 GFPT1 glutamine--fructose-6-phosphate transaminase 1 2 2
MIRT706797 RAI1 retinoic acid induced 1 2 2
MIRT709005 CD109 CD109 molecule 2 2
MIRT709182 TBC1D10B TBC1 domain family member 10B 2 2
MIRT709836 PAQR7 progestin and adipoQ receptor family member 7 2 2
MIRT711628 CORO1C coronin 1C 2 2
MIRT712635 RNF103-CHMP3 RNF103-CHMP3 readthrough 2 2
MIRT713695 CYB5R4 cytochrome b5 reductase 4 2 2
MIRT713753 SLC9A8 solute carrier family 9 member A8 2 2
MIRT714909 CHMP3 charged multivesicular body protein 3 2 2
MIRT716372 CBLL1 Cbl proto-oncogene like 1 2 2
MIRT718304 XPOT exportin for tRNA 2 2
MIRT718714 ANKRD18A ankyrin repeat domain 18A 2 2
MIRT718741 ATP9A ATPase phospholipid transporting 9A (putative) 2 2
MIRT719442 NPTX2 neuronal pentraxin 2 2 2
MIRT720897 OTUD4 OTU deubiquitinase 4 2 2
MIRT722450 RXFP4 relaxin/insulin like family peptide receptor 4 2 2
MIRT723883 VKORC1 vitamin K epoxide reductase complex subunit 1 2 2
MIRT724587 SYNJ2BP synaptojanin 2 binding protein 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-1199 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-1199-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-1199-5p Tamoxifen+Fulvestrant resistant cell line (LCC9)

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