miRTarBase - #MIRT477440


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pre-miRNA Information
pre-miRNA hsa-mir-4260   
Genomic Coordinates chr1: 209623444 - 209623510
Description Homo sapiens miR-4260 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4260
Sequence 11| CUUGGGGCAUGGAGUCCCA |29
Evidence Experimental
Experiments SOLiD
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSM7908770 6 COSMIC
COSN30117883 7 COSMIC
COSN26730871 12 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs372999583 2 dbSNP
rs1367351910 8 dbSNP
rs1266505194 15 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ELOVL5   
Synonyms HELO1, SCA38, dJ483K16.1
Description ELOVL fatty acid elongase 5
Transcript NM_021814   
Expression
Putative miRNA Targets on ELOVL5
3'UTR of ELOVL5
(miRNA target sites are highlighted)		 
>ELOVL5|NM_021814|3'UTR
   1 AGTCAAAGAATTGAAACCCTCCAAACCACGTCATCTGATTGTAAGCACAATATGAGTTGTGCCCCAATGCTCGTTAACAG
  81 CTGCTGTAACTAGTCTGGCCTACAATAGTGTGATTCATGTAGGACTTCTTTCATCAATTCAAAACCCCTAGAAAACGTAT
 161 ACAGATTATATAAGTAGGGATAAGATTTCTAACATTTCTGGGCTCTCTGACCCCTGCGCTAGACTGTGGAAAGGGAGTAT
 241 TATTATAGTATACAACACTGCTGTTGCCTTATTAGTTATAACATGATAGGTGCTGAATTGTGATTCACAATTTAAAAACA
 321 CTGTAATCCAAACTTTTTTTTTTAACTGTAGATCATGCATGTGATTGTAAATGTAAATTTGTACAATGTTGTTATGGTAG
 401 AGAAACACACATGCCTTAAAATTTAAAAAGCAGGGCCCAAAGCTTATTAGTTTAAATTAGGGTATGTTTCAAGTTTGTAT
 481 TAATTTGTAATAGCTCTGTTTAGAAAAAATCAAAGACCATGATTTATGAAACTAATGTGACATAATTTCCAGTGACTTGT
 561 TGATGTGAAATCAGACACGGCACCTTCAGTTTTGTACTATTGGCTTTGAATCAAGCAGGCTCAAATCTAGTGGAACAGTC
 641 AGTTTAACTTTTTAACAGATCTTATTTTTTTATTTTGAGTGCCACTATTAATGTAAAAAGGGGGGGGCTCTACAGCAGTC
 721 GTGATGAAACTTAAATATATATTCTTTGTCCTCGAGATTTTAGGAAGGGTGTAGGGTGAGTAGGCCATTTTTAATTTCTG
 801 AAGTGCTAAGTGTTTTTATACAGCAAACAAAAAGTCAATTTTGCTTTCCACCAGTGCGAGAGAGGATGTATACTTTTCAA
 881 GAGAGATGATTGCCTATTTACCGTTTGACAGAGTCCCGTAGATGAGCAATGGGGAACTGGTTGCCAGGGTCTAAATTTGG
 961 ATTGATTTATGCACTGTTATCTGTTTTGACACAGATTTCCTTGTAAAATGTGCCTAGTTTACCAAAATTAACAAAGGGGG
1041 GGAAAGGACCTTAGAACTTTTTAAGGTAAAATCAAATATAGCTACAGCATAAGAGAATCGAGAAATTTGATAGAGGTAAC
1121 TTGTTTAATGTAAATCTAATAGTACTTGTAATTTCTTTCTGCTTAGAATCTAAAGATGTGTTTAGAACCTCTTGTTTAAA
1201 AATAATAGACTGCTTATCATAAAATCACATCTCACACATTTGAGGCAGTGGTCAAACAGGTAAAGCCTATGATGTGTGTC
1281 ATTTTAAAGTGTCGGAATTTAGCCTCTGAATACCTTCTCCATTGGGGGAAAGATATTCTTGGAACCACTCATGACATATC
1361 TTAGAAGGTCATTGACAATGTATAAACTAATTGTTGGTTTGATATTTATGTAAATATCAGTTTACCATGCTTTAATTTTG
1441 CACATTCGTACTATAGGGAGCCTATTGGTTCTCTATTAGTCTTGTGGGTTTTCTGTTTGAAAAGGAGTCATGGCATCTGT
1521 TTACATTTACCTTATCAAACCTAGAATGTGTATATTTATAAATGTATGTCTTCATTGCTAGGTACTAATTTGCAGATGTC
1601 TTTACATATTTCAATACAGAAACTATAACATTCAATAGTGTGCTGTCAAAGTGTGCTTAGCTCACCTGGATATACCTACA
1681 TTGTTAAATGTCTAAACAGTAATCATTAAAACATTTTTGATTACCTGTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1761 AAAAAAA
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' accCUGAGGUACGGGGUUc 5'
             || | ::|||||||| 
Target 5' tatGAGT-TGTGCCCCAAt 3'
 51 - 68 151.00 -12.50
2 
miRNA  3' acccUGAG-GUACGGGGUUc 5'
              || | ||||||::|| 
Target 5' agaaACACACATGCCTTAAa 3'
 401 - 420 127.00 -11.20
3 
miRNA  3' acccugagGUACGGGGUUc 5'
                  || | ||||| 
Target 5' ttaaaaagCAGGGCCCAAa 3'
 423 - 441 115.00 -7.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30112373 8 COSMIC
COSN31553955 29 COSMIC
COSN30189897 37 COSMIC
COSN15662528 51 COSMIC
COSN30181287 69 COSMIC
COSN26974913 72 COSMIC
COSN30171947 99 COSMIC
COSN30523290 112 COSMIC
COSN5089066 118 COSMIC
COSN31492187 138 COSMIC
COSN30112985 156 COSMIC
COSN31556818 225 COSMIC
COSN15716489 302 COSMIC
COSN5857477 395 COSMIC
COSN31519887 423 COSMIC
COSN31528012 467 COSMIC
COSN26572867 478 COSMIC
COSN31547051 503 COSMIC
COSN16796726 578 COSMIC
COSN31566654 658 COSMIC
COSN7886697 664 COSMIC
COSN2464078 699 COSMIC
COSN27066002 700 COSMIC
COSN31512771 700 COSMIC
COSN22304152 1293 COSMIC
COSN30174477 1332 COSMIC
COSN26647966 1454 COSMIC
COSN26555110 1461 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1280853462 2 dbSNP
rs759693062 8 dbSNP
rs373741980 11 dbSNP
rs774153330 13 dbSNP
rs1220912506 16 dbSNP
rs770672457 18 dbSNP
rs755114275 19 dbSNP
rs749262790 21 dbSNP
rs201013116 28 dbSNP
rs369586873 29 dbSNP
rs192430033 30 dbSNP
rs753934331 31 dbSNP
rs780687010 32 dbSNP
rs373505112 33 dbSNP
rs779454276 35 dbSNP
rs777009170 37 dbSNP
rs1474393893 41 dbSNP
rs754423501 46 dbSNP
rs764500497 48 dbSNP
rs756575743 50 dbSNP
rs1241319777 55 dbSNP
rs752730524 57 dbSNP
rs996139752 59 dbSNP
rs767535319 61 dbSNP
rs539815431 67 dbSNP
rs867693044 72 dbSNP
rs964809340 73 dbSNP
rs1403012356 76 dbSNP
rs41273876 77 dbSNP
rs1465227250 83 dbSNP
rs942147229 86 dbSNP
rs1335513228 92 dbSNP
rs1414607257 93 dbSNP
rs1165263360 95 dbSNP
rs1471911068 100 dbSNP
rs1366523524 102 dbSNP
rs1182689954 106 dbSNP
rs1306581454 107 dbSNP
rs1440248811 110 dbSNP
rs1378662006 111 dbSNP
rs1240025992 113 dbSNP
rs1196663815 115 dbSNP
rs909367265 116 dbSNP
rs1009098657 119 dbSNP
rs369634758 120 dbSNP
rs1053413897 126 dbSNP
rs923527497 129 dbSNP
rs1279310005 137 dbSNP
rs1000410781 142 dbSNP
rs1457113657 145 dbSNP
rs1176575132 149 dbSNP
rs1240183135 154 dbSNP
rs1353756541 156 dbSNP
rs976402410 157 dbSNP
rs965409487 162 dbSNP
rs1241244182 164 dbSNP
rs551708824 166 dbSNP
rs1375993545 167 dbSNP
rs1379566432 170 dbSNP
rs528347776 182 dbSNP
rs988279147 198 dbSNP
rs1464333188 201 dbSNP
rs957794325 203 dbSNP
rs772532374 208 dbSNP
rs1378190004 215 dbSNP
rs149100764 217 dbSNP
rs917034702 218 dbSNP
rs1328828240 223 dbSNP
rs1002042841 229 dbSNP
rs745564246 235 dbSNP
rs1057265691 240 dbSNP
rs1317224116 246 dbSNP
rs1390204458 247 dbSNP
rs1259733796 253 dbSNP
rs939908229 260 dbSNP
rs1458099004 264 dbSNP
rs1159475065 268 dbSNP
rs1209432683 272 dbSNP
rs565703607 275 dbSNP
rs1434943101 278 dbSNP
rs558245074 283 dbSNP
rs905069191 294 dbSNP
rs1477121013 296 dbSNP
rs1173540777 300 dbSNP
rs1401447263 305 dbSNP
rs144905181 306 dbSNP
rs1292534371 307 dbSNP
rs1013536311 309 dbSNP
rs1387933476 313 dbSNP
rs1303240010 325 dbSNP
rs983921733 336 dbSNP
rs952610272 343 dbSNP
rs1036387305 344 dbSNP
rs1243821267 344 dbSNP
rs1246803953 345 dbSNP
rs1200297345 346 dbSNP
rs1263838139 350 dbSNP
rs942096223 355 dbSNP
rs1210726056 360 dbSNP
rs1262562833 363 dbSNP
rs11555162 368 dbSNP
rs1196446395 371 dbSNP
rs1487374823 371 dbSNP
rs1449519432 375 dbSNP
rs1423562673 382 dbSNP
rs887875254 395 dbSNP
rs921159268 396 dbSNP
rs549145650 398 dbSNP
rs1048697 404 dbSNP
rs780798939 410 dbSNP
rs1284276869 412 dbSNP
rs1359315839 414 dbSNP
rs1397647756 432 dbSNP
rs932148851 434 dbSNP
rs770376505 443 dbSNP
rs149886496 449 dbSNP
rs1395182109 452 dbSNP
rs1310296873 465 dbSNP
rs1009395756 467 dbSNP
rs1246953371 490 dbSNP
rs1276695362 496 dbSNP
rs1434492384 505 dbSNP
rs1351540561 506 dbSNP
rs1218934035 510 dbSNP
rs1264438997 516 dbSNP
rs1483215355 524 dbSNP
rs139081058 532 dbSNP
rs956267546 537 dbSNP
rs1032257596 538 dbSNP
rs1163803802 539 dbSNP
rs1379324849 545 dbSNP
rs1000294992 560 dbSNP
rs1159948313 563 dbSNP
rs987840147 566 dbSNP
rs957738927 568 dbSNP
rs1362251275 578 dbSNP
rs146708366 579 dbSNP
rs1044614724 581 dbSNP
rs371438650 581 dbSNP
rs1425696833 585 dbSNP
rs1308752752 614 dbSNP
rs1374964175 627 dbSNP
rs1242328869 631 dbSNP
rs1012560127 634 dbSNP
rs895468002 639 dbSNP
rs1208596308 653 dbSNP
rs1258339086 661 dbSNP
rs1476788698 672 dbSNP
rs1178441908 677 dbSNP
rs777581304 688 dbSNP
rs41273874 691 dbSNP
rs1180196292 700 dbSNP
rs886823671 700 dbSNP
rs182388209 701 dbSNP
rs1024837403 702 dbSNP
rs1215433016 702 dbSNP
rs1013900929 705 dbSNP
rs572371808 706 dbSNP
rs375923542 708 dbSNP
rs745458407 708 dbSNP
rs79049968 708 dbSNP
rs796159129 708 dbSNP
rs1281426696 709 dbSNP
rs1303998272 712 dbSNP
rs931105956 713 dbSNP
rs921213351 718 dbSNP
rs1198635817 720 dbSNP
rs975312004 721 dbSNP
rs41273872 727 dbSNP
rs1233126455 732 dbSNP
rs763609128 744 dbSNP
rs1278881383 748 dbSNP
rs911875282 754 dbSNP
rs1402103408 756 dbSNP
rs987449777 761 dbSNP
rs1477388187 774 dbSNP
rs1006181275 775 dbSNP
rs956336429 776 dbSNP
rs1427112775 784 dbSNP
rs143266597 786 dbSNP
rs1169961131 791 dbSNP
rs1031725351 795 dbSNP
rs887818140 800 dbSNP
rs866260162 804 dbSNP
rs1050463070 808 dbSNP
rs968840293 811 dbSNP
rs542385881 812 dbSNP
rs932098184 813 dbSNP
rs901991896 818 dbSNP
rs754722098 830 dbSNP
rs1428017025 834 dbSNP
rs1295374829 838 dbSNP
rs1346305636 843 dbSNP
rs1218532788 844 dbSNP
rs1170705195 845 dbSNP
rs1276918964 849 dbSNP
rs1013112869 858 dbSNP
rs140131369 872 dbSNP
rs896034790 883 dbSNP
rs1478601152 887 dbSNP
rs1450701698 890 dbSNP
rs1218998796 892 dbSNP
rs1270405463 894 dbSNP
rs1490380865 895 dbSNP
rs1035767723 896 dbSNP
rs146109873 902 dbSNP
rs539507173 903 dbSNP
rs1168285040 904 dbSNP
rs1413268825 909 dbSNP
rs1239550216 910 dbSNP
rs11555161 914 dbSNP
rs1167224687 915 dbSNP
rs1048706 917 dbSNP
rs1461219735 918 dbSNP
rs1299203650 927 dbSNP
rs931160255 933 dbSNP
rs1296848801 943 dbSNP
rs761813471 945 dbSNP
rs1342947295 948 dbSNP
rs899667175 950 dbSNP
rs1283962163 953 dbSNP
rs554180841 955 dbSNP
rs142017484 963 dbSNP
rs924973831 964 dbSNP
rs1039678625 967 dbSNP
rs1359470075 970 dbSNP
rs1316135853 972 dbSNP
rs1295197446 980 dbSNP
rs1260853471 990 dbSNP
rs943961537 992 dbSNP
rs35857447 1001 dbSNP
rs1448674192 1008 dbSNP
rs41273870 1010 dbSNP
rs754006653 1012 dbSNP
rs912456468 1016 dbSNP
rs917717977 1021 dbSNP
rs41273868 1032 dbSNP
rs1386130783 1036 dbSNP
rs148578233 1037 dbSNP
rs74973466 1038 dbSNP
rs1028974651 1040 dbSNP
rs1331950139 1041 dbSNP
rs1238719658 1043 dbSNP
rs996195597 1043 dbSNP
rs1283246404 1046 dbSNP
rs1352268748 1057 dbSNP
rs1205625183 1062 dbSNP
rs1277862183 1063 dbSNP
rs1440442903 1071 dbSNP
rs978812622 1072 dbSNP
rs375864180 1079 dbSNP
rs1439309375 1083 dbSNP
rs374893019 1086 dbSNP
rs1177083019 1089 dbSNP
rs1023095663 1099 dbSNP
rs1169362032 1100 dbSNP
rs772583720 1110 dbSNP
rs991634027 1116 dbSNP
rs960587919 1120 dbSNP
rs891996613 1123 dbSNP
rs1471121430 1124 dbSNP
rs1054705002 1129 dbSNP
rs1035918416 1139 dbSNP
rs549852994 1141 dbSNP
rs1444564641 1146 dbSNP
rs886761617 1152 dbSNP
rs532838541 1163 dbSNP
rs759937224 1179 dbSNP
rs144828030 1180 dbSNP
rs1239178194 1188 dbSNP
rs1201054498 1192 dbSNP
rs924921768 1198 dbSNP
rs1342805764 1199 dbSNP
rs113011503 1207 dbSNP
rs899550943 1216 dbSNP
rs1457182853 1221 dbSNP
rs1039574579 1226 dbSNP
rs917682627 1231 dbSNP
rs1196956256 1234 dbSNP
rs1252953321 1234 dbSNP
rs1438424785 1235 dbSNP
rs1008030860 1237 dbSNP
rs773874929 1242 dbSNP
rs540605839 1248 dbSNP
rs1052341212 1249 dbSNP
rs1323671907 1251 dbSNP
rs770555066 1257 dbSNP
rs934697366 1263 dbSNP
rs1423330831 1270 dbSNP
rs1464413023 1271 dbSNP
rs1296052276 1273 dbSNP
rs112894921 1294 dbSNP
rs562399644 1306 dbSNP
rs1391410050 1309 dbSNP
rs115014448 1321 dbSNP
rs370372522 1322 dbSNP
rs748892429 1332 dbSNP
rs966487620 1360 dbSNP
rs1166158163 1386 dbSNP
rs992080452 1391 dbSNP
rs1216600740 1397 dbSNP
rs1253221155 1403 dbSNP
rs1340337554 1404 dbSNP
rs1019023620 1427 dbSNP
rs1265353735 1433 dbSNP
rs1435322748 1436 dbSNP
rs1370583480 1440 dbSNP
rs576587221 1447 dbSNP
rs556433052 1448 dbSNP
rs2273012 1450 dbSNP
rs1161273956 1453 dbSNP
rs951063334 1457 dbSNP
rs1462179024 1463 dbSNP
rs769273870 1464 dbSNP
rs1363137920 1467 dbSNP
rs1181097536 1475 dbSNP
rs1303642844 1479 dbSNP
rs1339759636 1487 dbSNP
rs1026660770 1488 dbSNP
rs1297437929 1509 dbSNP
rs896175299 1512 dbSNP
rs577377753 1513 dbSNP
rs995133186 1525 dbSNP
rs1361629268 1541 dbSNP
rs963800297 1545 dbSNP
rs748109188 1558 dbSNP
rs554236292 1559 dbSNP
rs1487588343 1565 dbSNP
rs534182403 1566 dbSNP
rs1188873627 1576 dbSNP
rs1262834619 1579 dbSNP
rs1423649629 1582 dbSNP
rs781069526 1587 dbSNP
rs139025292 1595 dbSNP
rs754774914 1603 dbSNP
rs1163678775 1606 dbSNP
rs3207469 1612 dbSNP
rs74843119 1614 dbSNP
rs890958756 1617 dbSNP
rs1290600977 1625 dbSNP
rs1052815495 1633 dbSNP
rs73433434 1635 dbSNP
rs903740365 1638 dbSNP
rs535343655 1645 dbSNP
rs1305677290 1651 dbSNP
rs1313106213 1653 dbSNP
rs1385281326 1657 dbSNP
rs1247066978 1660 dbSNP
rs1308623744 1666 dbSNP
rs975107502 1670 dbSNP
rs183091687 1673 dbSNP
rs190581187 1680 dbSNP
rs1483103978 1687 dbSNP
rs1300957755 1690 dbSNP
rs947362364 1708 dbSNP
rs1446068779 1712 dbSNP
rs988891998 1722 dbSNP
rs1379118840 1724 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' acccugagguacGGGGUUc 5'
                      |||||| 
Target 5' ------------CCCCAAu 3'
 		1 - 7
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 GSM4903825
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID14_NS
Location of target site NM_001242830 | 3UTR | AAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_001242830 | 3UTR | CCCUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_001242830 | 3UTR | CCUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_001242830 | 3UTR | ACCCUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_001242830 | 3UTR | CCUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_001242830 | 3UTR | CCCUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_001242830 | 3UTR | CUCCAAACCACGUCAUCUGAUUGUAAGCACAAUAUGAGUUGUGCCCCAAUGCUCGUUAACAGCUGCUGUAACUAGUCUGGCCUACAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000370918.4 | 3UTR | CCCCAAUGCUCGUUAACAG
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
66 hsa-miR-4260 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT074404 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT289774 PER1 period circadian clock 1 2 2
MIRT442576 HOXD9 homeobox D9 2 2
MIRT443878 CNKSR3 CNKSR family member 3 2 2
MIRT449080 XPO6 exportin 6 2 2
MIRT450294 DRAXIN dorsal inhibitory axon guidance protein 2 2
MIRT461785 FXR2 FMR1 autosomal homolog 2 2 2
MIRT463931 WNT10B Wnt family member 10B 2 2
MIRT464860 UBB ubiquitin B 2 8
MIRT467619 SLC7A5 solute carrier family 7 member 5 2 2
MIRT469649 RAC1 Rac family small GTPase 1 2 2
MIRT473421 MDM4 MDM4, p53 regulator 2 2
MIRT473646 MARCKSL1 MARCKS like 1 2 2
MIRT474213 LCOR ligand dependent nuclear receptor corepressor 2 2
MIRT474335 KMT2D lysine methyltransferase 2D 2 2
MIRT474871 KDELR1 KDEL endoplasmic reticulum protein retention receptor 1 2 2
MIRT477440 ELOVL5 ELOVL fatty acid elongase 5 2 2
MIRT478432 DAZAP2 DAZ associated protein 2 2 2
MIRT479851 CCDC6 coiled-coil domain containing 6 2 2
MIRT482507 ACTB actin beta 2 2
MIRT485473 IGF1R insulin like growth factor 1 receptor 2 8
MIRT485670 CCDC64 BICD family like cargo adaptor 1 2 4
MIRT485902 PGPEP1 pyroglutamyl-peptidase I 2 4
MIRT488143 PRRC2B proline rich coiled-coil 2B 2 4
MIRT489455 MSC musculin 2 2
MIRT509568 HIST2H2AB histone cluster 2 H2A family member b 2 4
MIRT513093 DYNAP dynactin associated protein 2 2
MIRT513256 CALM3 calmodulin 3 2 2
MIRT514356 UBBP4 ubiquitin B pseudogene 4 2 6
MIRT522019 PAQR3 progestin and adipoQ receptor family member 3 2 4
MIRT523164 HIST3H3 histone cluster 3 H3 2 2
MIRT523297 HIST1H1B histone cluster 1 H1 family member b 2 2
MIRT524782 BAG5 BCL2 associated athanogene 5 2 2
MIRT530921 SCIN scinderin 2 2
MIRT533302 USP44 ubiquitin specific peptidase 44 2 2
MIRT552782 YIPF4 Yip1 domain family member 4 2 4
MIRT553981 SRPR SRP receptor alpha subunit 2 2
MIRT563126 ZNF215 zinc finger protein 215 2 2
MIRT569025 IL21R interleukin 21 receptor 2 2
MIRT573413 RPL18A ribosomal protein L18a 2 2
MIRT574877 Dnajc6 DnaJ heat shock protein family (Hsp40) member C6 2 3
MIRT607538 GLI2 GLI family zinc finger 2 2 2
MIRT607682 MAPK10 mitogen-activated protein kinase 10 2 3
MIRT623791 GK5 glycerol kinase 5 (putative) 2 2
MIRT628834 FAM151B family with sequence similarity 151 member B 2 2
MIRT635547 LEPREL1 prolyl 3-hydroxylase 2 2 2
MIRT635698 NMNAT2 nicotinamide nucleotide adenylyltransferase 2 2 2
MIRT635906 ARPC1B actin related protein 2/3 complex subunit 1B 2 2
MIRT649985 MSI1 musashi RNA binding protein 1 2 2
MIRT654900 POMGNT1 protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) 2 2
MIRT655116 PHF7 PHD finger protein 7 2 2
MIRT658958 DNAJC6 DnaJ heat shock protein family (Hsp40) member C6 2 3
MIRT659665 CDC42EP4 CDC42 effector protein 4 2 2
MIRT668946 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT691164 APOL6 apolipoprotein L6 2 2
MIRT692696 MEAF6 MYST/Esa1 associated factor 6 2 2
MIRT693245 HBS1L HBS1 like translational GTPase 2 2
MIRT695203 SCAMP3 secretory carrier membrane protein 3 2 2
MIRT701957 MINK1 misshapen like kinase 1 2 2
MIRT706802 APOL4 apolipoprotein L4 2 2
MIRT716899 CACNB2 calcium voltage-gated channel auxiliary subunit beta 2 2 2
MIRT717632 HLX H2.0 like homeobox 2 2
MIRT719052 ZNF281 zinc finger protein 281 2 2
MIRT722973 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT723643 RPTN repetin 2 2
MIRT734708 NR3C2 nuclear receptor subfamily 3 group C member 2 4 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4260 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4260 Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4260 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-4260 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-4260 Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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