miRTarBase - #MIRT291952


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pre-miRNA Information
pre-miRNA hsa-mir-4796   
Genomic Coordinates chr3: 114743445 - 114743525
Description Homo sapiens miR-4796 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4796-3p
Sequence 53| UAAAGUGGCAGAGUAUAGACAC |74
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN9734363 9 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1045223845 8 dbSNP
rs185555286 18 dbSNP
Putative Targets

Gene Information
Gene Symbol TPM4   
Synonyms HEL-S-108
Description tropomyosin 4
Transcript NM_001145160   
Other Transcripts NM_003290   
Expression
Putative miRNA Targets on TPM4
3'UTR of TPM4
(miRNA target sites are highlighted)		 
>TPM4|NM_001145160|3'UTR
   1 GCAAAACAGAAGAGTCTTGTTCCAACAGAAACTCTGGAGCTCCGTGGGTCTTTCTCTTCTCTTGTAAGAAGTTCCTTTTG
  81 TTATTGCCATCTTCGCTTTGCTGGAAATGTCAAGCAAATTATGAATACATGACCAAATATTTTGTATCGGAGAAGCTTTG
 161 AGCACCAGTTAAATCTCATTCCTTCCCTTTTTTTTTCAAATGGCACCAGCTTTTTCAGCTCTCTTATTTTTTCCTTAAGT
 241 AGCATTTATTCCTAAGGTAGGCAGGGTATTTCCTAGTAAGCATACTTTCTTAAGACGGAGGCCATTTGGTTCCTGGGAGA
 321 ATAGGCAGCCCCACACTTTGAAGAATACAGACCCCAGTATCTAGTCGTGGATATAATTAAAACGCTGAAGACCATAACCT
 401 TTTGGGTCAACTGTTGGTCAAACTATAGGAGAGACCAGGGACCATCACATGGGTAGGGATTTTCCATCCAGAGCCAATAA
 481 AAGGACTGGTGGGGGCCGGGGGTGGCTATTGTGGGAAGTCATAACCCACAGATAGATCAACCTAAGAATCCTGGCCCTTC
 561 TCCACTCTCCACCATGCAGGACAAACATCTTCTCAAGCAGTCAACGTAGAATGCTTGGGAAATAGTCATAATTACCCACA
 641 TATAGTAATTAATAGATGGTAATTAATTGATCCTTGATGTGATGTTCTTTTGCATATTTCCTTCATTCTAAAGTTGTTCC
 721 CTGGCCGGGAGCGTTGGCTTTCGCCTGTAATCCCAACACTTTGGGAGGCCAGGACAGATCACTTGAGGTCAGGAGTTCGA
 801 GACCAGCCCAGCCAACATGGCGAAACCATGTCTCTACTAAAAATACAAAAATTATGGTGACGCCTGCCTGTAGTCCCAGC
 881 TACTCGGGAGGCTGAGGCAGGAGGATCGCTTGAACCCAGGAAGTGGAGACTGCAGTGAGCCGATATCGCACCACAGCGCT
 961 CCAGCCTGGTCGACAGAGTGAGACTCCATCTCAAGAAAAAATAAAAATAAAGTTGTTCTCTGAAGAGCAAATGTCTCATT
1041 CCAGTAATGACCCACTCAGCAGGAATATGGTGGAGTTCAGTCCAATTCAGGTCAGCCATATCCAAAAGACCACAAGTCAT
1121 TACTAAGTTGAGCAAAAGAGTTTTTATCTATTAGCAGAAAGGGCCTCTCTGGCAGCAGAGATTAAAAACTGGCCCAACTT
1201 CATTTCCATACTTCAGGGAACAGCAAATTGAGGATTTACTTATCTAGGACTTGAATTCCTTCTTTGGGACCAAGTTAATA
1281 AAAGACCAAGAAACTCCTGATTAAACTGGATAATGAAGGATTCTGTAGACAGGGCTGCACGTATCGGCTTTGTTTGACTT
1361 CTCTTTTCTCAGTTAACATCTCAGAGCTAGAACATTCCACATTCCCCAGCAGCGTGTGGGGGCTGACTAAAGTTTACAAT
1441 TCCAACTAAAAATCACCCTGCTTCTGGCTTATCTGAATCCCTTACCCACCCCACCCCACCACCCTACTCCTATTTATTCA
1521 GCACCACACTACCCAGGAAATACACTAGCAAATTGTGCAATGGAATAAAATCCACACTTTAGATTCTTGCAACTGTATCA
1601 TATGTAATAGTATCACTTTTTCTACATTTTGGTCAAATAAATTTTTACATAAACTAC
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' cacAGAUAUGA-GACGGUGAAAu 5'
             | |:|| |  | :|||||| 
Target 5' tcaTATGTAATAGTATCACTTTt 3'
 1598 - 1620 135.00 -7.40
2 
miRNA  3' caCAGAUAUGA-GACGGUGAAAu 5'
            | ||:|| | |   |||||| 
Target 5' tcGCCTGTAATCCCAACACTTTg 3'
 741 - 763 124.00 -10.00
3 
miRNA  3' caCAGAUAUG--AGACGGUGAAAu 5'
            ||:  |:|  ||| :|:|||| 
Target 5' ttGTTATTGCCATCT-TCGCTTTg 3'
 78 - 100 121.00 -8.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN14662545 13 COSMIC
COSN24507234 26 COSMIC
COSN20079239 44 COSMIC
COSN31491489 45 COSMIC
COSN31491507 45 COSMIC
COSN28669267 47 COSMIC
COSN8605163 47 COSMIC
COSN30530968 73 COSMIC
COSN30530957 81 COSMIC
COSN29461210 95 COSMIC
COSN31527984 95 COSMIC
COSN13786030 96 COSMIC
COSN30527063 125 COSMIC
COSN30533186 144 COSMIC
COSN26582475 149 COSMIC
COSN30128220 151 COSMIC
COSN30158712 165 COSMIC
COSN20093531 557 COSMIC
COSN17539530 750 COSMIC
COSN31961512 887 COSMIC
COSN31517991 991 COSMIC
COSN20093532 1047 COSMIC
COSN9349290 1060 COSMIC
rs143558304 1543 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1256167668 3 dbSNP
rs368900524 4 dbSNP
rs1206251872 9 dbSNP
rs1243397698 13 dbSNP
rs762878634 15 dbSNP
rs1180959349 20 dbSNP
rs764216060 23 dbSNP
rs1476055296 26 dbSNP
rs1228909350 27 dbSNP
rs372607957 27 dbSNP
rs774766759 28 dbSNP
rs762376164 33 dbSNP
rs1286263966 38 dbSNP
rs768022761 39 dbSNP
rs990827729 40 dbSNP
rs1303640098 41 dbSNP
rs1345891756 44 dbSNP
rs375338008 45 dbSNP
rs1301330903 47 dbSNP
rs1357476009 50 dbSNP
rs946215432 51 dbSNP
rs1458256022 56 dbSNP
rs543131161 58 dbSNP
rs773934055 63 dbSNP
rs1157422858 64 dbSNP
rs928702028 67 dbSNP
rs1256507846 69 dbSNP
rs1180913821 76 dbSNP
rs1482017528 78 dbSNP
rs1243315021 81 dbSNP
rs938782344 84 dbSNP
rs1328421317 85 dbSNP
rs1055790584 90 dbSNP
rs894503066 92 dbSNP
rs1322087712 93 dbSNP
rs1313764965 95 dbSNP
rs563013997 96 dbSNP
rs1422222146 97 dbSNP
rs1377195270 104 dbSNP
rs1290732134 110 dbSNP
rs1308112521 113 dbSNP
rs1038034003 130 dbSNP
rs1173378292 131 dbSNP
rs1396107107 136 dbSNP
rs1157587501 138 dbSNP
rs771566213 147 dbSNP
rs1163686970 149 dbSNP
rs775810104 149 dbSNP
rs993737225 150 dbSNP
rs772800637 151 dbSNP
rs3207457 153 dbSNP
rs1188658144 156 dbSNP
rs1464044149 160 dbSNP
rs1246177080 169 dbSNP
rs1215458827 186 dbSNP
rs1488705978 188 dbSNP
rs954450951 188 dbSNP
rs1242271525 192 dbSNP
rs1344842746 202 dbSNP
rs1320153960 204 dbSNP
rs531736069 206 dbSNP
rs760062417 210 dbSNP
rs1290738447 211 dbSNP
rs1368674738 214 dbSNP
rs1319196844 220 dbSNP
rs761130512 223 dbSNP
rs1389001155 224 dbSNP
rs1392031650 228 dbSNP
rs774385118 246 dbSNP
rs1303876003 257 dbSNP
rs1355982998 264 dbSNP
rs1168823150 265 dbSNP
rs1448401442 267 dbSNP
rs1194913409 269 dbSNP
rs1433720768 279 dbSNP
rs1266511034 282 dbSNP
rs1207844856 290 dbSNP
rs181484867 297 dbSNP
rs151083679 298 dbSNP
rs1206115500 302 dbSNP
rs990383866 322 dbSNP
rs914812262 325 dbSNP
rs1235453750 330 dbSNP
rs1332193754 339 dbSNP
rs112643959 345 dbSNP
rs765008967 351 dbSNP
rs977985516 359 dbSNP
rs1308301465 360 dbSNP
rs1428736140 361 dbSNP
rs1317178638 368 dbSNP
rs1368262691 377 dbSNP
rs764332716 378 dbSNP
rs141332431 385 dbSNP
rs1377070056 390 dbSNP
rs1196654242 393 dbSNP
rs1420709804 394 dbSNP
rs1244524980 398 dbSNP
rs938729774 399 dbSNP
rs1181140331 403 dbSNP
rs1482865587 404 dbSNP
rs567502216 406 dbSNP
rs1193630437 411 dbSNP
rs185969469 417 dbSNP
rs1455809296 426 dbSNP
rs915884285 430 dbSNP
rs942032837 436 dbSNP
rs1037582075 438 dbSNP
rs897732033 454 dbSNP
rs1348244117 456 dbSNP
rs1335773389 457 dbSNP
rs1396167630 471 dbSNP
rs993459577 472 dbSNP
rs1170792731 475 dbSNP
rs1458787186 486 dbSNP
rs1392464866 489 dbSNP
rs1460850256 490 dbSNP
rs561823912 491 dbSNP
rs1373103593 492 dbSNP
rs1471450643 496 dbSNP
rs890307349 498 dbSNP
rs377622341 499 dbSNP
rs1443115697 510 dbSNP
rs1255596160 512 dbSNP
rs868703705 527 dbSNP
rs1198749297 542 dbSNP
rs1373578183 542 dbSNP
rs1269243035 547 dbSNP
rs1225155271 552 dbSNP
rs1327512166 553 dbSNP
rs1285648045 556 dbSNP
rs10424384 568 dbSNP
rs957689521 572 dbSNP
rs568613626 573 dbSNP
rs1436574344 575 dbSNP
rs1389294876 584 dbSNP
rs1319806794 588 dbSNP
rs1455486848 591 dbSNP
rs924871096 593 dbSNP
rs1010986980 597 dbSNP
rs1020652630 598 dbSNP
rs556151965 606 dbSNP
rs145121230 607 dbSNP
rs1466303233 616 dbSNP
rs960207541 618 dbSNP
rs35855446 620 dbSNP
rs1208628705 626 dbSNP
rs1180043290 629 dbSNP
rs1229203297 633 dbSNP
rs1355225873 634 dbSNP
rs1281999485 638 dbSNP
rs991535570 640 dbSNP
rs1232706856 644 dbSNP
rs1470634246 648 dbSNP
rs1296833146 658 dbSNP
rs915998806 665 dbSNP
rs758022039 672 dbSNP
rs942164436 675 dbSNP
rs1460925530 678 dbSNP
rs973800867 679 dbSNP
rs1161886093 684 dbSNP
rs1165790195 695 dbSNP
rs1390834146 699 dbSNP
rs919290472 711 dbSNP
rs1474726729 720 dbSNP
rs1248909069 726 dbSNP
rs1222783786 727 dbSNP
rs188529032 728 dbSNP
rs1287372338 730 dbSNP
rs929191805 733 dbSNP
rs540499828 734 dbSNP
rs1143209 737 dbSNP
rs890254600 742 dbSNP
rs943209040 743 dbSNP
rs553816061 744 dbSNP
rs1354960857 746 dbSNP
rs1038882716 748 dbSNP
rs569637783 751 dbSNP
rs146864170 754 dbSNP
rs1435568709 774 dbSNP
rs1010684687 780 dbSNP
rs1021021841 788 dbSNP
rs902194274 799 dbSNP
rs1168051695 800 dbSNP
rs1408216516 802 dbSNP
rs1427950678 816 dbSNP
rs1192271673 822 dbSNP
rs1267247080 823 dbSNP
rs1354428880 829 dbSNP
rs1233317199 835 dbSNP
rs1294618636 844 dbSNP
rs999078390 852 dbSNP
rs1035950304 858 dbSNP
rs538402405 862 dbSNP
rs542892536 863 dbSNP
rs1290010750 868 dbSNP
rs1410142282 875 dbSNP
rs1359047665 880 dbSNP
rs960153892 886 dbSNP
rs562924923 887 dbSNP
rs531853864 889 dbSNP
rs1360946279 907 dbSNP
rs1176828292 908 dbSNP
rs1023165509 909 dbSNP
rs371245034 917 dbSNP
rs973533495 921 dbSNP
rs756234090 924 dbSNP
rs1175094102 926 dbSNP
rs140722571 929 dbSNP
rs1188721503 930 dbSNP
rs150400878 932 dbSNP
rs1208759988 937 dbSNP
rs548057673 942 dbSNP
rs911808930 943 dbSNP
rs943323458 946 dbSNP
rs755461864 947 dbSNP
rs138181014 949 dbSNP
rs1303509550 954 dbSNP
rs149159678 956 dbSNP
rs549970455 958 dbSNP
rs779339609 959 dbSNP
rs1042151201 970 dbSNP
rs1314175438 972 dbSNP
rs866669559 973 dbSNP
rs1157326500 976 dbSNP
rs902140956 981 dbSNP
rs1226080946 986 dbSNP
rs568579866 993 dbSNP
rs181426301 996 dbSNP
rs1249889135 1002 dbSNP
rs1209256923 1004 dbSNP
rs186588696 1010 dbSNP
rs1258759727 1013 dbSNP
rs1231009595 1020 dbSNP
rs1323732125 1029 dbSNP
rs1313695386 1030 dbSNP
rs571207396 1031 dbSNP
rs896060135 1043 dbSNP
rs1380647203 1044 dbSNP
rs1013201408 1047 dbSNP
rs1436502691 1048 dbSNP
rs1023533317 1049 dbSNP
rs1287502148 1061 dbSNP
rs1459710294 1069 dbSNP
rs771787273 1082 dbSNP
rs1350178320 1086 dbSNP
rs963593734 1092 dbSNP
rs1485450766 1098 dbSNP
rs995298310 1106 dbSNP
rs1258332388 1115 dbSNP
rs1445296091 1139 dbSNP
rs1192568515 1141 dbSNP
rs1373529151 1146 dbSNP
rs1259489411 1149 dbSNP
rs1476362298 1149 dbSNP
rs1026402684 1151 dbSNP
rs1488675147 1163 dbSNP
rs950843036 1165 dbSNP
rs987424807 1167 dbSNP
rs1357498604 1168 dbSNP
rs1276892245 1169 dbSNP
rs911922151 1170 dbSNP
rs1434937973 1171 dbSNP
rs56212635 1173 dbSNP
rs1326363227 1179 dbSNP
rs1175070349 1190 dbSNP
rs1382335251 1192 dbSNP
rs1388951447 1199 dbSNP
rs540766210 1200 dbSNP
rs554107472 1209 dbSNP
rs974705632 1211 dbSNP
rs1371959272 1217 dbSNP
rs1168676667 1239 dbSNP
rs1205715487 1241 dbSNP
rs1318432643 1245 dbSNP
rs767515861 1246 dbSNP
rs1200885701 1250 dbSNP
rs573989768 1259 dbSNP
rs746569882 1260 dbSNP
rs1266443501 1263 dbSNP
rs770412609 1268 dbSNP
rs1327512679 1279 dbSNP
rs1437953075 1302 dbSNP
rs1206043226 1321 dbSNP
rs915029823 1321 dbSNP
rs946578484 1323 dbSNP
rs1042489517 1331 dbSNP
rs542804768 1335 dbSNP
rs1236036303 1340 dbSNP
rs1301695300 1342 dbSNP
rs923709832 1344 dbSNP
rs939115414 1346 dbSNP
rs1235496519 1347 dbSNP
rs1352017345 1355 dbSNP
rs1257911099 1359 dbSNP
rs1348845865 1368 dbSNP
rs776613785 1371 dbSNP
rs746464970 1383 dbSNP
rs1204577515 1386 dbSNP
rs1466507301 1389 dbSNP
rs1056127242 1395 dbSNP
rs894834609 1405 dbSNP
rs866127761 1406 dbSNP
rs759470350 1410 dbSNP
rs765021931 1411 dbSNP
rs1466172328 1414 dbSNP
rs111599675 1415 dbSNP
rs1248551917 1417 dbSNP
rs190585886 1418 dbSNP
rs1483865979 1446 dbSNP
rs950790083 1461 dbSNP
rs1222123767 1462 dbSNP
rs1288630540 1486 dbSNP
rs1331635206 1486 dbSNP
rs1200779343 1494 dbSNP
rs768451946 1494 dbSNP
rs1361657343 1499 dbSNP
rs143595902 1502 dbSNP
rs1334592990 1503 dbSNP
rs1158608732 1506 dbSNP
rs1386586924 1507 dbSNP
rs1459270543 1509 dbSNP
rs1412402456 1511 dbSNP
rs1157744055 1513 dbSNP
rs1469840970 1518 dbSNP
rs1362221079 1520 dbSNP
rs767824509 1530 dbSNP
rs1324397738 1531 dbSNP
rs1424458005 1540 dbSNP
rs1243116988 1542 dbSNP
rs143558304 1542 dbSNP
rs964694843 1547 dbSNP
rs750590314 1550 dbSNP
rs975030640 1559 dbSNP
rs565273694 1561 dbSNP
rs1244958151 1572 dbSNP
rs1381374215 1573 dbSNP
rs1442047413 1578 dbSNP
rs1303886290 1586 dbSNP
rs1312889672 1587 dbSNP
rs182948066 1588 dbSNP
rs147192859 1591 dbSNP
rs968407628 1594 dbSNP
rs977942370 1616 dbSNP
rs563923350 1618 dbSNP
rs1383145576 1620 dbSNP
rs532864227 1626 dbSNP
rs1211910096 1635 dbSNP
rs1384719487 1649 dbSNP
rs939063088 1650 dbSNP
rs1468877942 1655 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' cacagauaugagacgGUGAAAu 5'
                         |||||| 
Target 5' ----aauaaaauccaCACUUUa 3'
 		1 - 18
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_001145160 | 3UTR | CCACCCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_001145160 | 3UTR | CCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_001145160 | 3UTR | CACCCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_001145160 | 3UTR | CCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_003290 | 3UTR | ACCCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_001145160 | 3UTR | CACCCCACCACCCUACUCCUAUUUAUUCAGCACCACACUACCCAGGAAAUACACUAGCAAAUUGUGCAAUGGAAUAAAAUCCACACUUUAGAUUCUUGCAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000300933.4 | 3UTR | AAUAAAAUCCACACUUUAGAUUCUUGCAACUG
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
276 hsa-miR-4796-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057030 SGPL1 sphingosine-1-phosphate lyase 1 2 2
MIRT065682 ACVR1B activin A receptor type 1B 2 6
MIRT066973 ATXN7L3B ataxin 7 like 3B 2 2
MIRT068903 TPRG1L tumor protein p63 regulated 1 like 2 2
MIRT069713 FOXJ3 forkhead box J3 2 2
MIRT072259 B2M beta-2-microglobulin 2 10
MIRT074331 TNRC6A trinucleotide repeat containing 6A 2 10
MIRT075132 C16ORF70 chromosome 16 open reading frame 70 2 4
MIRT077079 KRT10 keratin 10 2 8
MIRT084604 BCL2L11 BCL2 like 11 2 8
MIRT088056 UBXN2A UBX domain protein 2A 2 4
MIRT103212 SP4 Sp4 transcription factor 2 6
MIRT108733 XIAP X-linked inhibitor of apoptosis 2 2
MIRT135263 TMBIM6 transmembrane BAX inhibitor motif containing 6 2 8
MIRT140170 SPRED1 sprouty related EVH1 domain containing 1 2 2
MIRT173042 YTHDF3 YTH N6-methyladenosine RNA binding protein 3 2 2
MIRT182530 ZBTB37 zinc finger and BTB domain containing 37 2 2
MIRT184890 ULK1 unc-51 like autophagy activating kinase 1 2 2
MIRT187490 PCBP2 poly(rC) binding protein 2 2 4
MIRT188195 DYRK2 dual specificity tyrosine phosphorylation regulated kinase 2 2 2
MIRT190442 EIF5 eukaryotic translation initiation factor 5 2 2
MIRT201089 ZNF805 zinc finger protein 805 2 2
MIRT213239 REST RE1 silencing transcription factor 2 2
MIRT213335 KIAA0232 KIAA0232 2 2
MIRT220130 CAV1 caveolin 1 2 2
MIRT257298 FOXC1 forkhead box C1 2 2
MIRT260352 XRCC6 X-ray repair cross complementing 6 2 6
MIRT262478 KLF6 Kruppel like factor 6 2 2
MIRT263459 SAMD8 sterile alpha motif domain containing 8 2 2
MIRT291952 TPM4 tropomyosin 4 2 2
MIRT295277 LZIC leucine zipper and CTNNBIP1 domain containing 2 4
MIRT300679 MAPK1 mitogen-activated protein kinase 1 2 2
MIRT322414 PPP2R2A protein phosphatase 2 regulatory subunit Balpha 2 2
MIRT338103 CLIC4 chloride intracellular channel 4 2 4
MIRT361507 AP1S1 adaptor related protein complex 1 sigma 1 subunit 2 2
MIRT365827 ZBTB33 zinc finger and BTB domain containing 33 2 4
MIRT371746 ATXN1 ataxin 1 2 2
MIRT375470 NFAT5 nuclear factor of activated T-cells 5 2 6
MIRT387879 MKNK2 MAP kinase interacting serine/threonine kinase 2 2 6
MIRT395213 PRKCB protein kinase C beta 2 2
MIRT407418 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT442641 TBC1D12 TBC1 domain family member 12 2 2
MIRT442757 NRIP3 nuclear receptor interacting protein 3 2 2
MIRT443435 MAPT microtubule associated protein tau 2 2
MIRT443707 LLPH LLP homolog, long-term synaptic facilitation 2 2
MIRT444306 SREK1IP1 SREK1 interacting protein 1 2 2
MIRT447332 SSU72 SSU72 homolog, RNA polymerase II CTD phosphatase 2 2
MIRT448310 WNK3 WNK lysine deficient protein kinase 3 2 2
MIRT448362 TSR1 TSR1, ribosome maturation factor 2 6
MIRT448388 TP53INP1 tumor protein p53 inducible nuclear protein 1 2 2
MIRT448640 NPNT nephronectin 2 2
MIRT450184 TMEM9B TMEM9 domain family member B 2 2
MIRT452303 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 2
MIRT453732 RAP1GDS1 Rap1 GTPase-GDP dissociation stimulator 1 2 2
MIRT455237 KIAA2013 KIAA2013 2 2
MIRT456354 CITED2 Cbp/p300 interacting transactivator with Glu/Asp rich carboxy-terminal domain 2 2 2
MIRT457591 NCOA3 nuclear receptor coactivator 3 2 2
MIRT458288 FUT10 fucosyltransferase 10 2 2
MIRT458694 MRI1 methylthioribose-1-phosphate isomerase 1 2 2
MIRT462073 CCDC77 coiled-coil domain containing 77 2 2
MIRT462122 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT463267 ZFYVE9 zinc finger FYVE-type containing 9 2 2
MIRT465103 TSC22D3 TSC22 domain family member 3 2 4
MIRT465108 TSC22D2 TSC22 domain family member 2 2 4
MIRT465228 TRIP10 thyroid hormone receptor interactor 10 2 2
MIRT465830 TMEM64 transmembrane protein 64 2 2
MIRT466450 TFAM transcription factor A, mitochondrial 2 8
MIRT467464 SNAPIN SNAP associated protein 2 2
MIRT467490 SMIM13 small integral membrane protein 13 2 6
MIRT467890 SLC22A23 solute carrier family 22 member 23 2 2
MIRT468846 RRM2 ribonucleotide reductase regulatory subunit M2 2 2
MIRT469699 RAB5B RAB5B, member RAS oncogene family 2 8
MIRT469853 PXK PX domain containing serine/threonine kinase like 2 8
MIRT470265 PRR14L proline rich 14 like 2 2
MIRT471136 PHF19 PHD finger protein 19 2 2
MIRT471265 PGM2L1 phosphoglucomutase 2 like 1 2 2
MIRT471917 NSUN4 NOP2/Sun RNA methyltransferase family member 4 2 2
MIRT472051 NPAT nuclear protein, coactivator of histone transcription 2 2
MIRT472161 NIN ninein 2 4
MIRT472339 NETO2 neuropilin and tolloid like 2 2 4
MIRT473262 MIDN midnolin 2 10
MIRT473326 MEX3A mex-3 RNA binding family member A 2 2
MIRT474868 KDM5B lysine demethylase 5B 2 2
MIRT475050 JOSD1 Josephin domain containing 1 2 2
MIRT475467 HSPA8 heat shock protein family A (Hsp70) member 8 2 6
MIRT475695 HHIPL1 HHIP like 1 2 2
MIRT476905 FBXL5 F-box and leucine rich repeat protein 5 2 12
MIRT477187 F3 coagulation factor III, tissue factor 2 8
MIRT477281 ERGIC2 ERGIC and golgi 2 2 2
MIRT478551 CTNND1 catenin delta 1 2 2
MIRT479035 COIL coilin 2 10
MIRT479059 CNOT6L CCR4-NOT transcription complex subunit 6 like 2 8
MIRT479263 CHSY1 chondroitin sulfate synthase 1 2 2
MIRT479801 CCND1 cyclin D1 2 12
MIRT479847 CCDC86 coiled-coil domain containing 86 2 2
MIRT480522 C11orf30 EMSY, BRCA2 interacting transcriptional repressor 2 10
MIRT480556 BZW1 basic leucine zipper and W2 domains 1 2 2
MIRT481340 ATL3 atlastin GTPase 3 2 2
MIRT481960 ANKH ANKH inorganic pyrophosphate transport regulator 2 8
MIRT482135 AKAP11 A-kinase anchoring protein 11 2 12
MIRT482474 ADAR adenosine deaminase, RNA specific 2 4
MIRT484824 ZNFX1 zinc finger NFX1-type containing 1 2 2
MIRT484911 ZFYVE26 zinc finger FYVE-type containing 26 2 4
MIRT485188 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 4
MIRT485366 MYLIP myosin regulatory light chain interacting protein 2 12
MIRT488821 TBC1D28 TBC1 domain family member 28 2 2
MIRT491802 ZFYVE21 zinc finger FYVE-type containing 21 2 8
MIRT492006 UGCG UDP-glucose ceramide glucosyltransferase 2 2
MIRT492365 SEMA7A semaphorin 7A (John Milton Hagen blood group) 2 2
MIRT493389 KIAA0513 KIAA0513 2 6
MIRT493667 HBP1 HMG-box transcription factor 1 2 2
MIRT494068 DUSP2 dual specificity phosphatase 2 2 4
MIRT494384 SOLH calpain 15 2 2
MIRT494426 BTG2 BTG anti-proliferation factor 2 2 4
MIRT494775 ANKRD33B ankyrin repeat domain 33B 2 10
MIRT498159 FEM1C fem-1 homolog C 2 8
MIRT499904 KIAA1191 KIAA1191 2 4
MIRT500763 TMEM127 transmembrane protein 127 2 6
MIRT501460 PTPN4 protein tyrosine phosphatase, non-receptor type 4 2 8
MIRT501955 MAPRE3 microtubule associated protein RP/EB family member 3 2 8
MIRT502367 GIGYF1 GRB10 interacting GYF protein 1 2 8
MIRT502400 GATA6 GATA binding protein 6 2 8
MIRT503444 GINS4 GINS complex subunit 4 2 4
MIRT503605 ZNF780A zinc finger protein 780A 2 2
MIRT503824 TMEM242 transmembrane protein 242 2 4
MIRT504095 C9orf40 chromosome 9 open reading frame 40 2 6
MIRT505278 TUBB2A tubulin beta 2A class IIa 2 2
MIRT505489 SRSF2 serine and arginine rich splicing factor 2 2 4
MIRT505740 SEPT2 septin 2 2 4
MIRT505976 RAB11FIP1 RAB11 family interacting protein 1 2 4
MIRT506228 PFKP phosphofructokinase, platelet 2 8
MIRT506431 NAGK N-acetylglucosamine kinase 2 6
MIRT506454 NACC2 NACC family member 2 2 4
MIRT506617 MARCH6 membrane associated ring-CH-type finger 6 2 8
MIRT506838 KIF23 kinesin family member 23 2 4
MIRT506865 KIAA1147 KIAA1147 2 2
MIRT507189 FZD9 frizzled class receptor 9 2 6
MIRT507235 FOXK2 forkhead box K2 2 4
MIRT507362 FAM129A family with sequence similarity 129 member A 2 6
MIRT507942 BTF3L4 basic transcription factor 3 like 4 2 6
MIRT508087 ANKRD52 ankyrin repeat domain 52 2 2
MIRT508134 AMD1 adenosylmethionine decarboxylase 1 2 2
MIRT511083 NIPA1 non imprinted in Prader-Willi/Angelman syndrome 1 2 4
MIRT511257 KLHL36 kelch like family member 36 2 6
MIRT511610 HIST1H4H histone cluster 1 H4 family member h 2 2
MIRT511725 HIST1H2BF histone cluster 1 H2B family member f 2 2
MIRT512318 ACTR2 ARP2 actin related protein 2 homolog 2 6
MIRT513462 NARS asparaginyl-tRNA synthetase 2 6
MIRT513984 CEP97 centrosomal protein 97 2 2
MIRT513998 CENPQ centromere protein Q 2 4
MIRT514035 BNIP2 BCL2 interacting protein 2 2 2
MIRT514096 EPS15L1 epidermal growth factor receptor pathway substrate 15 like 1 2 6
MIRT514993 DNTTIP2 deoxynucleotidyltransferase terminal interacting protein 2 2 2
MIRT517016 COX19 COX19, cytochrome c oxidase assembly factor 2 2
MIRT524699 BTG3 BTG anti-proliferation factor 3 2 8
MIRT525199 ZNF93 zinc finger protein 93 2 2
MIRT527200 XIRP2 xin actin binding repeat containing 2 2 2
MIRT527469 CLEC12B C-type lectin domain family 12 member B 2 4
MIRT527888 SERF1B small EDRK-rich factor 1B 2 2
MIRT529344 SERF1A small EDRK-rich factor 1A 2 2
MIRT529493 TPD52L3 tumor protein D52 like 3 2 2
MIRT531821 ZNF264 zinc finger protein 264 2 6
MIRT531835 MTPAP mitochondrial poly(A) polymerase 2 4
MIRT532509 KCNN1 potassium calcium-activated channel subfamily N member 1 2 2
MIRT533390 U2SURP U2 snRNP associated SURP domain containing 2 6
MIRT533836 TGFBR2 transforming growth factor beta receptor 2 2 6
MIRT533876 TBL1XR1 transducin beta like 1 X-linked receptor 1 2 2
MIRT534005 SUV420H1 lysine methyltransferase 5B 2 2
MIRT534626 RNASEH1 ribonuclease H1 2 4
MIRT537731 ELAVL2 ELAV like RNA binding protein 2 2 2
MIRT537781 EIF4H eukaryotic translation initiation factor 4H 2 6
MIRT538716 CAPRIN2 caprin family member 2 2 4
MIRT541088 RLIM ring finger protein, LIM domain interacting 2 2
MIRT541284 GLO1 glyoxalase I 2 2
MIRT542058 SLC25A46 solute carrier family 25 member 46 2 2
MIRT542952 GDF11 growth differentiation factor 11 2 2
MIRT543506 PLS1 plastin 1 2 2
MIRT543578 RPF2 ribosome production factor 2 homolog 2 4
MIRT545201 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT546254 TNFRSF21 TNF receptor superfamily member 21 2 2
MIRT546293 TMEM200C transmembrane protein 200C 2 4
MIRT546457 SLC5A3 solute carrier family 5 member 3 2 4
MIRT546494 SIK1 salt inducible kinase 1 2 2
MIRT546820 RAP2C RAP2C, member of RAS oncogene family 2 2
MIRT547080 PLRG1 pleiotropic regulator 1 2 2
MIRT548228 FJX1 four jointed box 1 2 4
MIRT548338 EPHA4 EPH receptor A4 2 2
MIRT548390 ENPP5 ectonucleotide pyrophosphatase/phosphodiesterase 5 (putative) 2 4
MIRT548463 EGLN3 egl-9 family hypoxia inducible factor 3 2 2
MIRT548862 CERCAM cerebral endothelial cell adhesion molecule 2 2
MIRT549821 LUZP2 leucine zipper protein 2 2 2
MIRT550092 TRAPPC2 trafficking protein particle complex 2 2 2
MIRT550241 PVR poliovirus receptor 2 4
MIRT551744 FMNL2 formin like 2 2 2
MIRT552203 F2RL3 F2R like thrombin or trypsin receptor 3 2 2
MIRT552639 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT552684 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta 2 4
MIRT553031 USP48 ubiquitin specific peptidase 48 2 2
MIRT553474 TNKS2 tankyrase 2 2 2
MIRT554329 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT554411 SCD stearoyl-CoA desaturase 2 2
MIRT554474 SAMD12 sterile alpha motif domain containing 12 2 2
MIRT554529 RUFY2 RUN and FYVE domain containing 2 2 2
MIRT554554 RRN3 RRN3 homolog, RNA polymerase I transcription factor 2 2
MIRT554611 RPS6KA5 ribosomal protein S6 kinase A5 2 2
MIRT554744 RHOC ras homolog family member C 2 2
MIRT554802 RGMB repulsive guidance molecule family member b 2 4
MIRT555165 PTPDC1 protein tyrosine phosphatase domain containing 1 2 2
MIRT555192 PRUNE2 prune homolog 2 2 2
MIRT556143 MED17 mediator complex subunit 17 2 2
MIRT556591 LEPROT leptin receptor overlapping transcript 2 2
MIRT556903 ISOC1 isochorismatase domain containing 1 2 2
MIRT557756 FRS2 fibroblast growth factor receptor substrate 2 2 2
MIRT557828 FOXJ2 forkhead box J2 2 2
MIRT558220 EFCAB14 EF-hand calcium binding domain 14 2 4
MIRT558331 DNAJC28 DnaJ heat shock protein family (Hsp40) member C28 2 4
MIRT558934 CBX1 chromobox 1 2 2
MIRT559078 C19orf47 chromosome 19 open reading frame 47 2 4
MIRT559439 ARSJ arylsulfatase family member J 2 2
MIRT561376 TXNIP thioredoxin interacting protein 2 2
MIRT561644 RUNX3 runt related transcription factor 3 2 2
MIRT561741 PLAGL2 PLAG1 like zinc finger 2 2 2
MIRT562214 HMGB2 high mobility group box 2 2 2
MIRT562558 CCDC71L coiled-coil domain containing 71 like 2 4
MIRT562964 LRPAP1 LDL receptor related protein associated protein 1 2 2
MIRT563378 DSPP dentin sialophosphoprotein 2 2
MIRT566557 OTUD4 OTU deubiquitinase 4 2 2
MIRT566878 LRP12 LDL receptor related protein 12 2 2
MIRT567008 KLHL15 kelch like family member 15 2 2
MIRT567050 KCNB1 potassium voltage-gated channel subfamily B member 1 2 2
MIRT567112 ITGB1 integrin subunit beta 1 2 2
MIRT567542 FGFR1OP FGFR1 oncogene partner 2 2
MIRT567627 FAM210A family with sequence similarity 210 member A 2 2
MIRT567684 EIF4A2 eukaryotic translation initiation factor 4A2 2 2
MIRT567915 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT571014 CKAP2 cytoskeleton associated protein 2 2 2
MIRT571220 F2R coagulation factor II thrombin receptor 2 2
MIRT571678 RRAS2 RAS related 2 2 2
MIRT571693 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 2
MIRT571723 RPL17-C18orf32 RPL17-C18orf32 readthrough 2 2
MIRT571860 NKIRAS1 NFKB inhibitor interacting Ras like 1 2 2
MIRT572045 GPR137B G protein-coupled receptor 137B 2 2
MIRT572209 C18orf32 chromosome 18 open reading frame 32 2 2
MIRT573375 LIMA1 LIM domain and actin binding 1 2 2
MIRT573707 RBM12B RNA binding motif protein 12B 2 2
MIRT573915 SNAP47 synaptosome associated protein 47 2 2
MIRT574719 HAUS8 HAUS augmin like complex subunit 8 2 2
MIRT610998 BRI3BP BRI3 binding protein 2 2
MIRT615446 FAXC failed axon connections homolog 2 2
MIRT616437 FAM126B family with sequence similarity 126 member B 2 2
MIRT624424 CBX8 chromobox 8 2 2
MIRT625079 C15orf41 chromosome 15 open reading frame 41 2 2
MIRT628867 KCNE4 potassium voltage-gated channel subfamily E regulatory subunit 4 2 2
MIRT630570 SOWAHA sosondowah ankyrin repeat domain family member A 2 4
MIRT634454 PAK6 p21 (RAC1) activated kinase 6 2 2
MIRT640010 OSTM1 osteopetrosis associated transmembrane protein 1 2 2
MIRT641800 USP32 ubiquitin specific peptidase 32 2 2
MIRT663408 SYT17 synaptotagmin 17 2 2
MIRT664793 LIAS lipoic acid synthetase 2 4
MIRT672157 PLEKHH1 pleckstrin homology, MyTH4 and FERM domain containing H1 2 2
MIRT679620 RRP36 ribosomal RNA processing 36 2 2
MIRT682524 GJD3 gap junction protein delta 3 2 2
MIRT684063 FOLR1 folate receptor 1 2 2
MIRT688711 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT691249 DFNB59 pejvakin 2 2
MIRT693152 THEM4 thioesterase superfamily member 4 2 2
MIRT693198 MKI67 marker of proliferation Ki-67 2 2
MIRT700440 PURB purine rich element binding protein B 2 2
MIRT701591 MYPN myopalladin 2 2
MIRT701966 MINK1 misshapen like kinase 1 2 2
MIRT702051 METTL21A methyltransferase like 21A 2 2
MIRT702588 JARID2 jumonji and AT-rich interaction domain containing 2 2 2
MIRT722312 DHCR24 24-dehydrocholesterol reductase 2 2
MIRT725222 PEA15 phosphoprotein enriched in astrocytes 15 2 2
MIRT755772 RAD51 RAD51 recombinase 5 1
MIRT755773 XRCC3 X-ray repair cross complementing 3 5 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4796-3p 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4796-3p Erlotinib 176870 NSC718781 approved sensitive High Non-Small Cell Lung Cancer tissue
hsa-miR-4796-3p Gefitinib 123631 NSC715055 approved sensitive High Non-Small Cell Lung Cancer tissue
hsa-miR-4796-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4796-3p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-4796-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4796-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (MGC-803)
hsa-miR-4796-3p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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