miRTarBase - #MIRT106648


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pre-miRNA Information
pre-miRNA hsa-mir-4703   
Genomic Coordinates chr13: 51552589 - 51552667
Description Homo sapiens miR-4703 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4703-3p
Sequence 49| UGUAGUUGUAUUGUAUUGCCAC |70
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1460841833 5 dbSNP
rs775733304 5 dbSNP
rs756076492 10 dbSNP
rs1378936855 11 dbSNP
rs1049480258 12 dbSNP
rs555347919 13 dbSNP
rs1343138432 18 dbSNP
rs1011011214 19 dbSNP
rs1008216326 21 dbSNP
rs1238676458 22 dbSNP
Putative Targets

Gene Information
Gene Symbol PLEKHF2   
Synonyms EAPF, PHAFIN2, ZFYVE18
Description pleckstrin homology and FYVE domain containing 2
Transcript NM_024613   
Expression
Putative miRNA Targets on PLEKHF2
3'UTR of PLEKHF2
(miRNA target sites are highlighted)		 
>PLEKHF2|NM_024613|3'UTR
   1 GGACACATTTGGGAGTATTTAATCAGGTGTGGCTATCTGAGAAATCAACTTTGGGGGAAATGTAAGATTCTGAGCTCTCT
  81 CTCTGTTTTGTTCTAGCCATGAATTTGCCTGAGAAACTTGTAACCTATGTGCCTCAATATATTCCATAGAAAGTAGGTCC
 161 CCCTGCCTTCTCCCACTCCTCACACTCTTCTACAGGGATAGGCTTTTGCAAATATATCAGATAAATTTTTTGTTTCTTGT
 241 TTATTTTTAGGTTATTTTCTTGGAAGGTTGGGAAAAGATGTTTGTTTTAACAGGTCATGTACTACGTTGTTGTTTTCATT
 321 TCTGTTATAAGTAAAACTAAAAGCACAGAATGGTGGGAAAGGGGCTATAATGTGGTTCATTAATAATGTTAGCAGCTTTT
 401 TTCTAACCATCCTGTCTAATGGTTAAGACACCAGTAACAAAAACACATGATTTGGAAATACTTTGGCTTTTTCATATACC
 481 TAGTGGTGCCTTATCATAATAGCACTGTTACATGAAATAAGCCCCTACCTTCTTACTTTCTGGTTTGTTGAAAAAATACA
 561 CTGGTGCTCTTTGAAGTGATAAAATGAGTGTTTATGAATGGGTGTAATTAGGAAATACTTCTCATCTGACAGCTACAAAT
 641 AACTAAGTTTGGAGGTATTTTCACTCTATATGAATAAATATTTTTCCATAAAATAGTTGTGATTATATTTTTGTTTTATA
 721 TAGGTCCCAAATTATAATTGTCAAATATATATTTTAAATTAATAAAAGTTGTCATTCTTAGGAATTTGGTTTGAAATTTA
 801 TCAGTTATACAGAATTGTCATACTGCATTAGCTTCTACCTTTAGTAAGACATATTTTTTAGGTATAAATTCTTATGCTTT
 881 AACATTATTTCTGGATTGAAAATCTTATAAAACCCTTGAAAATAAACAGTCTCTTTTTTACAAAGCCTGTGTTAGAGCAC
 961 AGATTTACCTAGGCTTGAAGATTTGGAAGAAATAATATGTAAGAATGGCCTCAAGGCAGACCACTTTAAGTTTGGCTAGA
1041 CTTCATATCGTGGAAGTATTGTCTATTTCAGTGTGAAACTATCTTGAATTTGCAAATATAGTGTTATATTTTATAAAGTT
1121 TTGTAAAATCCCAAACAATATTTCTATTTTTGTAAAACAATTGTATGTATAATCTGTATTTGAAATCATTTTGCAATCTA
1201 TGGAAATAGAGTAGCAATTGCTATTTCTAAATTGTGAACTTTAAGTCAATCTAGATTTATTTTGAGAAGTAATTGTTCAC
1281 TCTTTACTTTTGAGGCAGCCATTAGGTTGAAAGTATATATTTATCATATAAAACTTGATGCGTTTTGCACTACTCTTTCC
1361 ATTTATATGCTGCAAACAACTACAGTCTTTGAAATATGGAAAATCAGCAGTCTAAAGTTTGTTTTAAATTCTAAATTTAA
1441 AAAATCTTCAAATCTGAATATACCGCAAATGTCATGAGAAGTTTGATTCAGTAACTTGTGATGGAGGATTCTTTGGTATC
1521 TTACTGTTTGGTTAAGGCACTAATTTTACTTACCTATTAGATTTTGAAAGTATCTGAGATATACAAATCTCCCTGTAGGA
1601 AATGTGAAAGAAAAGCACAACAAAACTAGGGTTTTTTGTTCATTTGCTTGCTTTTATGATTTTTTTTGGTTTGTTTTAAT
1681 ATCAGGTGGATTTTTGTTTCTAAGCAATATATACATAAAATCAACCAACATATCTGAAAAGGATCATGAAACCTGAGAAA
1761 TGCTAATGGAGATTTGCTGGTACATAGGAATCTAGCAAATTCAGGAACCAAGGGGAAATGTTGTGAGATAACATTTACAT
1841 TGTCAACCTTTATTGACTTTGTTTTTACAATAAAAAATATTTTACAACTTAAAAAAAAAAAAA
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' caccguuAUGUUAUGUUGAUGu 5'
                 |:||| |||||||| 
Target 5' tatatgcTGCAA-ACAACTACa 3'
 1364 - 1384 158.00 -12.90
2 
miRNA  3' caCCGUUAUG----UUA---UGUUGAUGu 5'
            || |||||     ||   |||:|||| 
Target 5' taGGAAATACTTCTCATCTGACAGCTACa 3'
 609 - 637 142.00 -14.12
3 
miRNA  3' caCCGUUAUGUUAU-GUUGAUGu 5'
            || |||| |:|| |||:|:| 
Target 5' atGGAAATAGAGTAGCAATTGCt 3'
 1200 - 1222 140.00 -13.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30520017 12 COSMIC
COSN31593338 26 COSMIC
COSN31613408 30 COSMIC
COSN30103903 36 COSMIC
COSN14359107 40 COSMIC
COSN20076301 47 COSMIC
COSN30530360 58 COSMIC
COSN31498547 73 COSMIC
COSN20105725 82 COSMIC
COSN30190682 96 COSMIC
COSN30104746 99 COSMIC
COSN30141078 111 COSMIC
COSN1370124 126 COSMIC
COSN30531303 140 COSMIC
COSN31549581 212 COSMIC
COSN30131139 213 COSMIC
COSN31570728 225 COSMIC
COSN30129503 228 COSMIC
COSN30118868 250 COSMIC
COSN26849192 279 COSMIC
COSN31480498 307 COSMIC
COSN27465062 393 COSMIC
COSN15625887 409 COSMIC
COSN31535852 572 COSMIC
COSN30117633 585 COSMIC
COSN21518074 629 COSMIC
COSN30116591 678 COSMIC
COSN30532581 712 COSMIC
COSN2299849 815 COSMIC
COSN30142487 872 COSMIC
COSN30161114 899 COSMIC
COSN31533158 930 COSMIC
COSN30117827 940 COSMIC
COSN26549608 956 COSMIC
COSN30174560 978 COSMIC
COSN5116848 1027 COSMIC
COSN30111415 1063 COSMIC
COSN30526639 1151 COSMIC
COSN29867880 1199 COSMIC
COSN30141526 1364 COSMIC
COSN30119744 1475 COSMIC
COSN31520167 1561 COSMIC
COSN31547111 1624 COSMIC
COSN31603047 1755 COSMIC
COSN31545599 1803 COSMIC
COSN31590433 1843 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs773740275 1 dbSNP
rs1275846888 3 dbSNP
rs1362070957 3 dbSNP
rs1369919792 4 dbSNP
rs1222297350 9 dbSNP
rs747435276 11 dbSNP
rs1330003794 14 dbSNP
rs975256719 16 dbSNP
rs1269994055 24 dbSNP
rs1449824169 25 dbSNP
rs760102447 27 dbSNP
rs767968576 28 dbSNP
rs753103148 31 dbSNP
rs376944320 33 dbSNP
rs528564629 33 dbSNP
rs1182334766 36 dbSNP
rs760983767 38 dbSNP
rs764277982 45 dbSNP
rs370400775 47 dbSNP
rs1389158714 49 dbSNP
rs374412711 50 dbSNP
rs902788079 58 dbSNP
rs1200610425 61 dbSNP
rs111831010 65 dbSNP
rs111998521 75 dbSNP
rs1485347555 75 dbSNP
rs370201243 75 dbSNP
rs746481974 75 dbSNP
rs762152303 75 dbSNP
rs113636579 77 dbSNP
rs1038537112 79 dbSNP
rs1347832080 80 dbSNP
rs1235726382 86 dbSNP
rs575105602 102 dbSNP
rs1283066853 108 dbSNP
rs1340198485 112 dbSNP
rs1381809901 119 dbSNP
rs1203901229 128 dbSNP
rs190776501 130 dbSNP
rs34768946 136 dbSNP
rs566572206 136 dbSNP
rs1233668178 139 dbSNP
rs1420353067 148 dbSNP
rs536012150 159 dbSNP
rs1162178267 160 dbSNP
rs765527921 163 dbSNP
rs1369354072 164 dbSNP
rs555995844 165 dbSNP
rs569514194 167 dbSNP
rs895957043 168 dbSNP
rs1001028568 174 dbSNP
rs1020495411 176 dbSNP
rs1032506209 180 dbSNP
rs1488305309 185 dbSNP
rs1290445471 212 dbSNP
rs150535406 214 dbSNP
rs1032972846 219 dbSNP
rs1266022475 219 dbSNP
rs957114837 222 dbSNP
rs964119978 225 dbSNP
rs1007223173 226 dbSNP
rs975456803 228 dbSNP
rs1388245449 231 dbSNP
rs1408868547 235 dbSNP
rs1029466109 242 dbSNP
rs1392072401 252 dbSNP
rs538525144 255 dbSNP
rs1460764135 261 dbSNP
rs751468826 265 dbSNP
rs1471730708 267 dbSNP
rs144194148 268 dbSNP
rs1195210932 279 dbSNP
rs184222173 279 dbSNP
rs1370793090 281 dbSNP
rs1442087750 288 dbSNP
rs1219415744 294 dbSNP
rs77880997 295 dbSNP
rs1273364378 299 dbSNP
rs1438659150 301 dbSNP
rs937755992 304 dbSNP
rs1445260442 306 dbSNP
rs574301887 306 dbSNP
rs111482529 307 dbSNP
rs1332481743 312 dbSNP
rs1469666974 323 dbSNP
rs1428160743 329 dbSNP
rs950211762 333 dbSNP
rs1478713254 341 dbSNP
rs1377723216 350 dbSNP
rs1180913299 354 dbSNP
rs937831257 364 dbSNP
rs1456397313 366 dbSNP
rs1042270756 368 dbSNP
rs1199032881 369 dbSNP
rs1309516105 376 dbSNP
rs1055181414 388 dbSNP
rs1000837769 391 dbSNP
rs1272757992 397 dbSNP
rs1279039984 407 dbSNP
rs146585238 410 dbSNP
rs1468801239 412 dbSNP
rs553937654 415 dbSNP
rs1310722227 422 dbSNP
rs1452335152 430 dbSNP
rs1357837130 432 dbSNP
rs1331737432 434 dbSNP
rs949389808 439 dbSNP
rs1415853929 445 dbSNP
rs1402220606 447 dbSNP
rs752607859 448 dbSNP
rs1157514307 450 dbSNP
rs1195195437 452 dbSNP
rs899817099 468 dbSNP
rs1443726866 474 dbSNP
rs574072547 476 dbSNP
rs542761968 481 dbSNP
rs1235552056 497 dbSNP
rs561524693 501 dbSNP
rs1212423670 515 dbSNP
rs1443232296 522 dbSNP
rs1283903851 524 dbSNP
rs996905828 526 dbSNP
rs1355996986 528 dbSNP
rs1029665559 529 dbSNP
rs1042810741 538 dbSNP
rs1245919459 559 dbSNP
rs1377381573 560 dbSNP
rs902756305 568 dbSNP
rs756029597 579 dbSNP
rs1340694025 592 dbSNP
rs1297241511 595 dbSNP
rs1421080030 603 dbSNP
rs1015823008 605 dbSNP
rs297558 613 dbSNP
rs1163838611 629 dbSNP
rs889915500 656 dbSNP
rs777195466 667 dbSNP
rs974366448 669 dbSNP
rs1412767598 673 dbSNP
rs1241716656 675 dbSNP
rs190620215 690 dbSNP
rs182784940 693 dbSNP
rs748763351 694 dbSNP
rs991915714 698 dbSNP
rs1320429392 701 dbSNP
rs901615522 705 dbSNP
rs945117189 719 dbSNP
rs1041913516 720 dbSNP
rs1277122234 739 dbSNP
rs1397780803 742 dbSNP
rs544300236 745 dbSNP
rs549086054 750 dbSNP
rs532745512 751 dbSNP
rs924760995 769 dbSNP
rs1430590257 770 dbSNP
rs1348048209 772 dbSNP
rs997180263 775 dbSNP
rs1026435801 778 dbSNP
rs546583985 783 dbSNP
rs936281431 801 dbSNP
rs566384578 816 dbSNP
rs1364230185 818 dbSNP
rs1231513780 820 dbSNP
rs528993661 828 dbSNP
rs770633625 835 dbSNP
rs1264240454 838 dbSNP
rs950662869 843 dbSNP
rs1487567546 844 dbSNP
rs1248938089 851 dbSNP
rs569373624 852 dbSNP
rs1256562445 854 dbSNP
rs867491828 856 dbSNP
rs996771459 863 dbSNP
rs1319544308 868 dbSNP
rs1357228229 874 dbSNP
rs1278520094 876 dbSNP
rs1051041230 884 dbSNP
rs1016198583 885 dbSNP
rs1295172395 919 dbSNP
rs539005766 926 dbSNP
rs3174075 928 dbSNP
rs1399194314 939 dbSNP
rs3174076 947 dbSNP
rs1467048713 951 dbSNP
rs990670535 963 dbSNP
rs917995670 970 dbSNP
rs796495509 979 dbSNP
rs1175678871 984 dbSNP
rs1431458468 989 dbSNP
rs1186516617 998 dbSNP
rs949533386 1004 dbSNP
rs1418134646 1009 dbSNP
rs1475954082 1010 dbSNP
rs569455802 1013 dbSNP
rs978114187 1017 dbSNP
rs1406289320 1031 dbSNP
rs1400467148 1038 dbSNP
rs962837477 1043 dbSNP
rs60768881 1051 dbSNP
rs1033562136 1054 dbSNP
rs1347394652 1057 dbSNP
rs1251505281 1061 dbSNP
rs936691960 1066 dbSNP
rs1413028511 1073 dbSNP
rs1312301016 1082 dbSNP
rs558124350 1099 dbSNP
rs1209020253 1101 dbSNP
rs959268121 1102 dbSNP
rs1219680659 1104 dbSNP
rs1376054223 1106 dbSNP
rs991863541 1112 dbSNP
rs1053932289 1127 dbSNP
rs890053398 1137 dbSNP
rs966515687 1137 dbSNP
rs772434002 1138 dbSNP
rs1302442676 1139 dbSNP
rs1277985115 1147 dbSNP
rs1464735461 1153 dbSNP
rs1360906730 1156 dbSNP
rs571919586 1161 dbSNP
rs1439238922 1162 dbSNP
rs777980619 1163 dbSNP
rs1181110085 1164 dbSNP
rs534267639 1166 dbSNP
rs1041228227 1177 dbSNP
rs775887217 1179 dbSNP
rs1484614535 1188 dbSNP
rs1209553951 1193 dbSNP
rs924824125 1197 dbSNP
rs1482081023 1208 dbSNP
rs141296198 1209 dbSNP
rs1210938725 1219 dbSNP
rs1283733569 1224 dbSNP
rs1352398636 1224 dbSNP
rs997715893 1233 dbSNP
rs187074087 1235 dbSNP
rs1026067519 1255 dbSNP
rs1179281009 1267 dbSNP
rs1231941013 1269 dbSNP
rs886071955 1274 dbSNP
rs747296589 1282 dbSNP
rs143361961 1283 dbSNP
rs777036397 1283 dbSNP
rs542696947 1287 dbSNP
rs1358728826 1291 dbSNP
rs1160935515 1300 dbSNP
rs556254765 1307 dbSNP
rs1368203034 1314 dbSNP
rs1185852979 1315 dbSNP
rs1425965368 1316 dbSNP
rs959299475 1336 dbSNP
rs990644334 1342 dbSNP
rs891090075 1353 dbSNP
rs1025266627 1354 dbSNP
rs1487650228 1356 dbSNP
rs940136135 1366 dbSNP
rs575067345 1372 dbSNP
rs1218628319 1377 dbSNP
rs1351291874 1382 dbSNP
rs970588654 1384 dbSNP
rs544399218 1388 dbSNP
rs1323335512 1396 dbSNP
rs771184272 1397 dbSNP
rs924060868 1398 dbSNP
rs1300135796 1401 dbSNP
rs1400756095 1405 dbSNP
rs564183976 1415 dbSNP
rs761110766 1418 dbSNP
rs898335320 1438 dbSNP
rs551435417 1439 dbSNP
rs989460710 1439 dbSNP
rs1459722161 1450 dbSNP
rs1335332485 1454 dbSNP
rs1442675303 1459 dbSNP
rs1165107469 1462 dbSNP
rs751482927 1465 dbSNP
rs151301921 1466 dbSNP
rs1447115656 1471 dbSNP
rs1041215991 1475 dbSNP
rs895086884 1481 dbSNP
rs1233524408 1493 dbSNP
rs1013496625 1494 dbSNP
rs1273585400 1496 dbSNP
rs1024656438 1504 dbSNP
rs1316284917 1513 dbSNP
rs922723847 1515 dbSNP
rs1280410540 1517 dbSNP
rs1280925495 1524 dbSNP
rs1330618097 1526 dbSNP
rs966755516 1531 dbSNP
rs1389036614 1532 dbSNP
rs1349492841 1550 dbSNP
rs769186419 1551 dbSNP
rs1464452215 1554 dbSNP
rs776616305 1556 dbSNP
rs540207489 1558 dbSNP
rs1475429547 1575 dbSNP
rs990319578 1580 dbSNP
rs1196575993 1581 dbSNP
rs1434856256 1582 dbSNP
rs140525102 1583 dbSNP
rs1183024179 1587 dbSNP
rs1303209734 1598 dbSNP
rs886208630 1603 dbSNP
rs375426290 1605 dbSNP
rs1005872216 1611 dbSNP
rs1197778121 1617 dbSNP
rs1240459927 1622 dbSNP
rs1037405682 1624 dbSNP
rs765614753 1627 dbSNP
rs1260179220 1632 dbSNP
rs191520655 1633 dbSNP
rs1012130767 1644 dbSNP
rs1273163063 1647 dbSNP
rs183636523 1650 dbSNP
rs912565789 1652 dbSNP
rs1166170069 1656 dbSNP
rs1444996936 1660 dbSNP
rs939980717 1660 dbSNP
rs1037025468 1664 dbSNP
rs1330427408 1680 dbSNP
rs1410186949 1694 dbSNP
rs970937045 1697 dbSNP
rs999383259 1705 dbSNP
rs1478764858 1716 dbSNP
rs10099012 1719 dbSNP
rs1013527923 1722 dbSNP
rs958141959 1722 dbSNP
rs1239776806 1728 dbSNP
rs1182723875 1731 dbSNP
rs188023975 1732 dbSNP
rs1276854416 1742 dbSNP
rs1439874050 1744 dbSNP
rs867186677 1746 dbSNP
rs1304156284 1766 dbSNP
rs531902656 1768 dbSNP
rs551944751 1769 dbSNP
rs563987109 1778 dbSNP
rs1224639691 1785 dbSNP
rs781151901 1804 dbSNP
rs533204305 1809 dbSNP
rs752601417 1816 dbSNP
rs79037660 1818 dbSNP
rs1280519587 1819 dbSNP
rs902186161 1819 dbSNP
rs547810994 1833 dbSNP
rs1331840442 1840 dbSNP
rs767238228 1854 dbSNP
rs567289470 1858 dbSNP
rs974432465 1859 dbSNP
rs1417797615 1861 dbSNP
rs752512686 1870 dbSNP
rs930113380 1872 dbSNP
rs1213381607 1874 dbSNP
rs1158926174 1881 dbSNP
rs1047250050 1888 dbSNP
rs1435379250 1891 dbSNP
rs1191162602 1892 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 79666.0
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.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' caccguuAUGUUAUGUUGAUGu 5'
                 |:||| |||||||| 
Target 5' uauaugcUGCAA-ACAACUACa 3'
 		15 - 35
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 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions MCF7
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 SRR1045082. RNA binding protein: AGO2. Condition:Untreated ...

- Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology.

Article - Farazi TA; Ten Hoeve JJ; Brown M; et al.
- Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
CLIP-seq Support 1 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000315367.3 | 3UTR | UUUUGCACUACUCUUUCCAUUUAUAUGCUGCAAACAACUACAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000315367.3 | 3UTR | CUACUCUUUCCAUUUAUAUGCUGCAAACAACUACAG
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 SRR1045082
Method / RBP PAR-CLIP / AGO2
Cell line / Condition MCF7 / Untreated
Location of target site ENST00000315367.3 | 3UTR | CACUACUCUUUCCAUUUAUAUGCUGCAAACAACUACAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 24398324 / SRX388831
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
42 hsa-miR-4703-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT072026 SCP2 sterol carrier protein 2 2 2
MIRT079071 BIRC5 baculoviral IAP repeat containing 5 2 6
MIRT106648 PLEKHF2 pleckstrin homology and FYVE domain containing 2 2 4
MIRT178174 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 2
MIRT190328 HSP90AA1 heat shock protein 90 alpha family class A member 1 2 2
MIRT230081 SH3BGRL SH3 domain binding glutamate rich protein like 2 2
MIRT238900 PEX3 peroxisomal biogenesis factor 3 2 2
MIRT473705 MAPK1 mitogen-activated protein kinase 1 2 6
MIRT481891 ANKRD46 ankyrin repeat domain 46 2 4
MIRT483743 ALDH9A1 aldehyde dehydrogenase 9 family member A1 2 2
MIRT488823 MRRF mitochondrial ribosome recycling factor 2 2
MIRT488990 SLC28A1 solute carrier family 28 member 1 2 2
MIRT504173 FAM127B retrotransposon Gag like 8A 2 2
MIRT524461 CMPK1 cytidine/uridine monophosphate kinase 1 2 2
MIRT529787 AP4S1 adaptor related protein complex 4 sigma 1 subunit 2 2
MIRT546449 SLC9A7 solute carrier family 9 member A7 2 2
MIRT547827 IGF2BP3 insulin like growth factor 2 mRNA binding protein 3 2 4
MIRT561462 TCERG1 transcription elongation regulator 1 2 2
MIRT562315 G3BP1 G3BP stress granule assembly factor 1 2 2
MIRT563644 ZNF675 zinc finger protein 675 2 2
MIRT563741 ZNF107 zinc finger protein 107 2 4
MIRT568318 BACH1 BTB domain and CNC homolog 1 2 2
MIRT571528 ZNF367 zinc finger protein 367 2 2
MIRT574840 CADM1 cell adhesion molecule 1 2 2
MIRT612262 MNT MAX network transcriptional repressor 2 4
MIRT622234 SLC25A45 solute carrier family 25 member 45 2 2
MIRT625372 IRGQ immunity related GTPase Q 2 2
MIRT628260 EFCAB14 EF-hand calcium binding domain 14 2 2
MIRT631738 NKX2-1 NK2 homeobox 1 2 2
MIRT646103 GORAB golgin, RAB6 interacting 2 2
MIRT647768 AMOTL1 angiomotin like 1 2 2
MIRT654309 RBMS3 RNA binding motif single stranded interacting protein 3 2 2
MIRT654988 PLCG2 phospholipase C gamma 2 2 2
MIRT659715 CCDC93 coiled-coil domain containing 93 2 2
MIRT666976 PHAX phosphorylated adaptor for RNA export 2 2
MIRT683247 WFDC6 WAP four-disulfide core domain 6 2 2
MIRT688424 DNAL1 dynein axonemal light chain 1 2 2
MIRT691896 FBXL18 F-box and leucine rich repeat protein 18 2 2
MIRT701616 MYO1B myosin IB 2 2
MIRT702141 MAP3K1 mitogen-activated protein kinase kinase kinase 1 2 2
MIRT704403 CTPS1 CTP synthase 1 2 2
MIRT719515 RAB10 RAB10, member RAS oncogene family 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4703 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4703-3p Tamoxifen 2733525 NSC180973 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-4703-3p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-4703-3p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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