pre-miRNA Information
pre-miRNA hsa-mir-4446   
Genomic Coordinates chr3: 113594876 - 113594942
Description Homo sapiens miR-4446 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4446-5p
Sequence 8| AUUUCCCUGCCAUUCCCUUGGC |29
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1356015605 6 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ERBB3   
Synonyms ErbB-3, HER3, LCCS2, MDA-BF-1, c-erbB-3, c-erbB3, erbB3-S, p180-ErbB3, p45-sErbB3, p85-sErbB3
Description erb-b2 receptor tyrosine kinase 3
Transcript NM_001982   
Other Transcripts NM_001005915   
Expression
Putative miRNA Targets on ERBB3
3'UTR of ERBB3
(miRNA target sites are highlighted)
>ERBB3|NM_001982|3'UTR
   1 CTCCTGCTCCCTGTGGCACTCAGGGAGCATTTAATGGCAGCTAGTGCCTTTAGAGGGTACCGTCTTCTCCCTATTCCCTC
  81 TCTCTCCCAGGTCCCAGCCCCTTTTCCCCAGTCCCAGACAATTCCATTCAATCTTTGGAGGCTTTTAAACATTTTGACAC
 161 AAAATTCTTATGGTATGTAGCCAGCTGTGCACTTTCTTCTCTTTCCCAACCCCAGGAAAGGTTTTCCTTATTTTGTGTGC
 241 TTTCCCAGTCCCATTCCTCAGCTTCTTCACAGGCACTCCTGGAGATATGAAGGATTACTCTCCATATCCCTTCCTCTCAG
 321 GCTCTTGACTACTTGGAACTAGGCTCTTATGTGTGCCTTTGTTTCCCATCAGACTGTCAAGAAGAGGAAAGGGAGGAAAC
 401 CTAGCAGAGGAAAGTGTAATTTTGGTTTATGACTCTTAACCCCCTAGAAAGACAGAAGCTTAAAATCTGTGAAGAAAGAG
 481 GTTAGGAGTAGATATTGATTACTATCATAATTCAGCACTTAACTATGAGCCAGGCATCATACTAAACTTCACCTACATTA
 561 TCTCACTTAGTCCTTTATCATCCTTAAAACAATTCTGTGACATACATATTATCTCATTTTACACAAAGGGAAGTCGGGCA
 641 TGGTGGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCTGAGGCAGAAGGATTACCTGAGGCAAGGAGTTTGAGACCAGC
 721 TTAGCCAACATAGTAAGACCCCCATCTCTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAACTTTAGAACTGGGTGCAGTGG
 801 CTCATGCCTGTAATCCCAGCCAGCACTTTGGGAGGCTGAGATGGGAAGATCACTTGAGCCCAGAATTAGAGATAAGCCTA
 881 TGGAAACATAGCAAGACACTGTCTCTACAGGGGAAAAAAAAAAAAGAAACTGAGCCTTAAAGAGATGAAATAAATTAAGC
 961 AGTAGATCCAGGATGCAAAATCCTCCCAATTCCTGTGCATGTGCTCTTATTGTAAGGTGCCAAGAAAAACTGATTTAAGT
1041 TACAGCCCTTGTTTAAGGGGCACTGTTTCTTGTTTTTGCACTGAATCAAGTCTAACCCCAACAGCCACATCCTCCTATAC
1121 CTAGACATCTCATCTCAGGAAGTGGTGGTGGGGGTAGTCAGAAGGAAAAATAACTGGACATCTTTGTGTAAACCATAATC
1201 CACATGTGCCGTAAATGATCTTCACTCCTTATCCGAGGGCAAATTCACAAGGATCCCCAAGATCCACTTTTAGAAGCCAT
1281 TCTCATCCAGCAGTGAGAAGCTTCCAGGTAGGACAGAAAAAAGATCCAGCTTCAGCTGCACACCTCTGTCCCCTTGGATG
1361 GGGAACTAAGGGAAAACGTCTGTTGTATCACTGAAGTTTTTTGTTTTGTTTTTATACGTGTCTGAATAAAAATGCCAAAG
1441 TTTTTTTTCAGCAAAAAAAA
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' cggUUCCCUUACCGUCCCUUUa 5'
             | |||:|    ||||||| 
Target 5' tggATGGGGAACTAAGGGAAAa 3'
1355 - 1376 151.00 -15.40
2
miRNA  3' cgGUUCCCUUAC-----CGUCCCUUUa 5'
            ||||  | ||      |||||:|| 
Target 5' agCAAGACACTGTCTCTACAGGGGAAa 3'
890 - 916 136.00 -13.10
3
miRNA  3' cggUUCCCUU--ACCGUC-CCUUUa 5'
             :||| ||  | |||| ||||| 
Target 5' aggGAGGAAACCTAGCAGAGGAAAg 3'
390 - 414 133.00 -14.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30182726 14 COSMIC
COSN30179313 22 COSMIC
COSN30514832 24 COSMIC
COSN30449467 25 COSMIC
COSN30449220 29 COSMIC
COSN32053513 38 COSMIC
COSN30183543 45 COSMIC
COSN30462758 71 COSMIC
COSN30517010 81 COSMIC
COSN30145710 93 COSMIC
COSN30151686 100 COSMIC
COSN30112948 103 COSMIC
COSN30486078 107 COSMIC
COSN30165911 130 COSMIC
COSN30163702 241 COSMIC
COSN29232118 318 COSMIC
COSN1577311 348 COSMIC
COSN9752021 562 COSMIC
COSN5947046 815 COSMIC
COSN14457879 915 COSMIC
COSN29227375 939 COSMIC
COSN26573773 1048 COSMIC
COSN1577313 1133 COSMIC
COSN32088154 1221 COSMIC
COSN15282079 1331 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1311698886 11 dbSNP
rs753461903 13 dbSNP
rs1230226208 18 dbSNP
rs754711278 20 dbSNP
rs373960466 23 dbSNP
rs747758405 28 dbSNP
rs1210195146 31 dbSNP
rs1239740355 33 dbSNP
rs771484411 36 dbSNP
rs781739506 41 dbSNP
rs1249083751 42 dbSNP
rs746395481 43 dbSNP
rs1159023849 56 dbSNP
rs1033739414 63 dbSNP
rs1253136839 72 dbSNP
rs1248555893 88 dbSNP
rs142378459 99 dbSNP
rs961061052 104 dbSNP
rs1269933181 106 dbSNP
rs371477277 108 dbSNP
rs907477911 112 dbSNP
rs35291818 113 dbSNP
rs992280082 128 dbSNP
rs1238265578 131 dbSNP
rs1317403183 145 dbSNP
rs1309019406 150 dbSNP
rs768694587 152 dbSNP
rs1344621103 153 dbSNP
rs945391892 157 dbSNP
rs977299903 159 dbSNP
rs925860851 169 dbSNP
rs376206732 172 dbSNP
rs1422369624 182 dbSNP
rs1287732923 194 dbSNP
rs574059831 202 dbSNP
rs1401935588 208 dbSNP
rs145948980 210 dbSNP
rs899694599 211 dbSNP
rs1016799434 221 dbSNP
rs933719007 222 dbSNP
rs962111976 224 dbSNP
rs1159318308 241 dbSNP
rs1201873524 242 dbSNP
rs1389975418 253 dbSNP
rs1487401000 257 dbSNP
rs1261160838 261 dbSNP
rs1050906556 264 dbSNP
rs994413213 276 dbSNP
rs1025451826 290 dbSNP
rs1318890641 293 dbSNP
rs886767222 300 dbSNP
rs1221605116 301 dbSNP
rs1322566465 315 dbSNP
rs1003842222 317 dbSNP
rs1283621898 324 dbSNP
rs955176131 328 dbSNP
rs1017102258 332 dbSNP
rs1437372678 336 dbSNP
rs768894101 337 dbSNP
rs774487151 339 dbSNP
rs1225520922 340 dbSNP
rs1335319476 342 dbSNP
rs1469683991 345 dbSNP
rs1395405686 346 dbSNP
rs964091202 347 dbSNP
rs1034243669 351 dbSNP
rs1372769423 352 dbSNP
rs367551566 353 dbSNP
rs1268892962 355 dbSNP
rs992644511 356 dbSNP
rs1430444273 357 dbSNP
rs914315490 358 dbSNP
rs1201705639 374 dbSNP
rs1460778988 376 dbSNP
rs945786540 387 dbSNP
rs1205378790 388 dbSNP
rs771769030 391 dbSNP
rs3202538 393 dbSNP
rs966659783 394 dbSNP
rs979444215 395 dbSNP
rs1227702826 401 dbSNP
rs1041886821 404 dbSNP
rs925833014 415 dbSNP
rs1452585275 427 dbSNP
rs1274757573 429 dbSNP
rs928830537 431 dbSNP
rs371429378 432 dbSNP
rs938839528 433 dbSNP
rs578231398 434 dbSNP
rs1441970350 435 dbSNP
rs894723270 436 dbSNP
rs1006635136 445 dbSNP
rs1463670234 448 dbSNP
rs1383487998 456 dbSNP
rs1037672420 458 dbSNP
rs1445282159 465 dbSNP
rs181895949 467 dbSNP
rs1185335220 468 dbSNP
rs897914694 472 dbSNP
rs560635272 481 dbSNP
rs1472517325 486 dbSNP
rs933873597 489 dbSNP
rs1271949004 492 dbSNP
rs1051252739 501 dbSNP
rs1157593047 505 dbSNP
rs1030409784 516 dbSNP
rs1244669781 531 dbSNP
rs1382869490 534 dbSNP
rs908303894 540 dbSNP
rs891001243 549 dbSNP
rs762190552 562 dbSNP
rs1037987459 565 dbSNP
rs1323372554 570 dbSNP
rs1348329836 580 dbSNP
rs545874178 593 dbSNP
rs898188700 594 dbSNP
rs1363991091 608 dbSNP
rs1163153005 610 dbSNP
rs1018612290 612 dbSNP
rs1002867118 613 dbSNP
rs963961525 622 dbSNP
rs556562151 630 dbSNP
rs1164938841 633 dbSNP
rs527249652 636 dbSNP
rs760370003 637 dbSNP
rs967430616 650 dbSNP
rs977169382 661 dbSNP
rs928380780 667 dbSNP
rs1295051085 674 dbSNP
rs1293250050 680 dbSNP
rs139969906 687 dbSNP
rs1350542590 694 dbSNP
rs991577612 695 dbSNP
rs12322914 698 dbSNP
rs1302848899 699 dbSNP
rs966795897 703 dbSNP
rs1038123661 707 dbSNP
rs1439139595 709 dbSNP
rs1316260795 724 dbSNP
rs1400155098 728 dbSNP
rs1156361776 732 dbSNP
rs897857580 734 dbSNP
rs1426858169 739 dbSNP
rs531304096 740 dbSNP
rs929286272 741 dbSNP
rs1247983990 747 dbSNP
rs1213083472 749 dbSNP
rs1407715499 750 dbSNP
rs1469977184 751 dbSNP
rs1175395950 752 dbSNP
rs1211143735 752 dbSNP
rs1215724331 752 dbSNP
rs1242126690 752 dbSNP
rs1263026388 752 dbSNP
rs1268611892 752 dbSNP
rs1318894902 752 dbSNP
rs1335745572 752 dbSNP
rs1345855482 752 dbSNP
rs1403661060 752 dbSNP
rs1426890133 752 dbSNP
rs1458693451 752 dbSNP
rs1460338487 752 dbSNP
rs1474835754 752 dbSNP
rs1480624245 752 dbSNP
rs1491073729 752 dbSNP
rs150235513 752 dbSNP
rs4016497 752 dbSNP
rs569620844 752 dbSNP
rs751543695 752 dbSNP
rs1032326721 753 dbSNP
rs1189515190 755 dbSNP
rs1370680217 762 dbSNP
rs1214136280 763 dbSNP
rs1362763105 764 dbSNP
rs1051890791 765 dbSNP
rs890507206 765 dbSNP
rs1408953378 767 dbSNP
rs1473436333 767 dbSNP
rs1419644937 768 dbSNP
rs1162997932 769 dbSNP
rs1008072985 770 dbSNP
rs964748806 770 dbSNP
rs975730812 771 dbSNP
rs1249915370 772 dbSNP
rs921199355 772 dbSNP
rs1018079863 773 dbSNP
rs899765756 773 dbSNP
rs1011516686 774 dbSNP
rs955345425 774 dbSNP
rs1441165930 775 dbSNP
rs61632170 775 dbSNP
rs1422281063 776 dbSNP
rs908271806 776 dbSNP
rs1177030972 777 dbSNP
rs1308874236 777 dbSNP
rs376657820 778 dbSNP
rs1441663743 780 dbSNP
rs757437629 780 dbSNP
rs967051041 781 dbSNP
rs1393513395 782 dbSNP
rs1308272906 783 dbSNP
rs146076136 786 dbSNP
rs1292520570 787 dbSNP
rs1340947489 789 dbSNP
rs1245463830 791 dbSNP
rs1323393818 794 dbSNP
rs977053092 795 dbSNP
rs1223056918 804 dbSNP
rs1282149919 806 dbSNP
rs1309476963 807 dbSNP
rs1402649800 816 dbSNP
rs1364428943 817 dbSNP
rs1344045710 829 dbSNP
rs1038122836 834 dbSNP
rs1273447791 835 dbSNP
rs1035404274 844 dbSNP
rs1339693097 847 dbSNP
rs1212369795 848 dbSNP
rs959745716 858 dbSNP
rs1414565123 860 dbSNP
rs992078650 861 dbSNP
rs187008330 867 dbSNP
rs1269738297 870 dbSNP
rs942172821 871 dbSNP
rs1258957668 874 dbSNP
rs937699355 876 dbSNP
rs919502155 881 dbSNP
rs1289929471 888 dbSNP
rs1221337739 891 dbSNP
rs929295997 893 dbSNP
rs369073558 900 dbSNP
rs577236188 900 dbSNP
rs1388069098 903 dbSNP
rs890559356 910 dbSNP
rs571095209 911 dbSNP
rs1454712085 912 dbSNP
rs1039510966 914 dbSNP
rs1391319354 914 dbSNP
rs1412525549 914 dbSNP
rs943411484 914 dbSNP
rs369874280 915 dbSNP
rs896752052 921 dbSNP
rs1185879573 923 dbSNP
rs1011816564 930 dbSNP
rs547261509 934 dbSNP
rs1269909525 936 dbSNP
rs1201587207 937 dbSNP
rs1322546804 943 dbSNP
rs1403012570 947 dbSNP
rs765576656 962 dbSNP
rs944742162 971 dbSNP
rs1043017939 980 dbSNP
rs903068330 989 dbSNP
rs565840792 990 dbSNP
rs1324186639 1000 dbSNP
rs1294176677 1001 dbSNP
rs1436507719 1011 dbSNP
rs191973437 1015 dbSNP
rs998483764 1025 dbSNP
rs1335295028 1030 dbSNP
rs1035288901 1040 dbSNP
rs959797599 1051 dbSNP
rs1403269559 1055 dbSNP
rs1332108669 1062 dbSNP
rs1367339504 1064 dbSNP
rs534155843 1066 dbSNP
rs1372607401 1067 dbSNP
rs1171272237 1081 dbSNP
rs1014140838 1084 dbSNP
rs78743019 1101 dbSNP
rs555468041 1112 dbSNP
rs963620713 1119 dbSNP
rs1460710044 1123 dbSNP
rs1234988839 1127 dbSNP
rs1256524942 1139 dbSNP
rs1201849218 1144 dbSNP
rs973943221 1150 dbSNP
rs919519619 1152 dbSNP
rs76373339 1156 dbSNP
rs1256015590 1159 dbSNP
rs1042568167 1161 dbSNP
rs902707760 1165 dbSNP
rs538319940 1178 dbSNP
rs1032464161 1188 dbSNP
rs943339288 1194 dbSNP
rs183300184 1196 dbSNP
rs964674277 1197 dbSNP
rs1389999785 1207 dbSNP
rs996194505 1209 dbSNP
rs1039152504 1211 dbSNP
rs915308081 1212 dbSNP
rs1028636536 1214 dbSNP
rs1383389761 1218 dbSNP
rs559078261 1228 dbSNP
rs1043247654 1232 dbSNP
rs903119141 1235 dbSNP
rs1189412461 1236 dbSNP
rs1435847675 1238 dbSNP
rs998702842 1243 dbSNP
rs1205340003 1254 dbSNP
rs1189565354 1256 dbSNP
rs750698065 1273 dbSNP
rs1245926409 1288 dbSNP
rs1286445199 1294 dbSNP
rs1237411621 1301 dbSNP
rs1335542884 1302 dbSNP
rs763487393 1310 dbSNP
rs1308871472 1313 dbSNP
rs987145270 1317 dbSNP
rs908380006 1321 dbSNP
rs961227854 1323 dbSNP
rs1302587019 1336 dbSNP
rs149441887 1337 dbSNP
rs559512976 1340 dbSNP
rs919677928 1341 dbSNP
rs1391428652 1343 dbSNP
rs1465595695 1345 dbSNP
rs937647419 1349 dbSNP
rs990512508 1352 dbSNP
rs917601637 1358 dbSNP
rs1473343833 1359 dbSNP
rs1390703584 1363 dbSNP
rs1266285563 1364 dbSNP
rs563581883 1368 dbSNP
rs188400828 1374 dbSNP
rs386763282 1377 dbSNP
rs190031571 1378 dbSNP
rs145070592 1379 dbSNP
rs182361805 1379 dbSNP
rs1289323891 1383 dbSNP
rs1388085234 1387 dbSNP
rs1343918768 1388 dbSNP
rs761827109 1392 dbSNP
rs767787815 1393 dbSNP
rs1351687067 1398 dbSNP
rs541949168 1403 dbSNP
rs1330215156 1416 dbSNP
rs987752865 1423 dbSNP
rs1387670541 1425 dbSNP
rs936833676 1427 dbSNP
rs750680918 1430 dbSNP
rs1159681150 1438 dbSNP
rs112478453 1441 dbSNP
rs144785344 1442 dbSNP
rs1478072311 1451 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HeLa
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in Chi_ControlA_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control A ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' cgguucccuuaccgUCCCUUUa 5'
                        ||||:|| 
Target 5' --------------AGGGGAAa 3'
1 - 8
Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb HITS-CLIP data was present in GSM1084067. RNA binding protein: AGO2. Condition:CLIP_emetine_SantaCruzAb HITS-CLIP data was present in GSM1084068. RNA binding protein: AGO2. Condition:CLIP_noemetine_SigmaAb HITS-CLIP data was present in GSM1084069. RNA binding protein: AGO2. Condition:CLIP_emetine_SigmaAb HITS-CLIP data was present in GSM1084074. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_SantaCruzAb HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb HITS-CLIP data was present in GSM1084081. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_SantaCruzAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset Chi_ControlA_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control A
Location of target site ENST00000267101.3 | 3UTR | AGGGGAAAAAAAAAAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000267101.3 | 3UTR | ACAGGGGAAAAAAAAAAAAGAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000267101.3 | 3UTR | ACAGGGGAAAAAAAAAAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1084067
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_SantaCruzAb
Location of target site ENST00000267101.3 | 3UTR | ACAGGGGAAAAAAAAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1084068
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_SigmaAb
Location of target site ENST00000267101.3 | 3UTR | ACAGGGGAAAAAAAAAAAAGAAAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1084069
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_SigmaAb
Location of target site ENST00000267101.3 | 3UTR | UACAGGGGAAAAAAAAAAAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1084074
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep1_SantaCruzAb
Location of target site ENST00000267101.3 | 3UTR | ACAGGGGAAAAAAAAAAAAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM1084078
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb
Location of target site ENST00000267101.3 | 3UTR | UACAGGGGAAAAAAAAAAAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM1084081
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_hippuristanol_rep2_SantaCruzAb
Location of target site ENST00000267101.3 | 3UTR | AGGGGAAAAAAAAAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
223 hsa-miR-4446-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT078060 PCTP phosphatidylcholine transfer protein 2 2
MIRT099072 FOXC1 forkhead box C1 2 2
MIRT130186 TXNIP thioredoxin interacting protein 2 2
MIRT148786 NARS asparaginyl-tRNA synthetase 2 2
MIRT261965 SEPHS1 selenophosphate synthetase 1 2 2
MIRT345867 SRSF2 serine and arginine rich splicing factor 2 2 2
MIRT409087 HNRNPA2B1 heterogeneous nuclear ribonucleoprotein A2/B1 2 2
MIRT451883 SOD2 superoxide dismutase 2 2 4
MIRT469236 RHOB ras homolog family member B 2 2
MIRT469435 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT483055 FOXB1 forkhead box B1 2 8
MIRT484640 TBC1D5 TBC1 domain family member 5 2 6
MIRT493106 MKNK2 MAP kinase interacting serine/threonine kinase 2 2 6
MIRT497307 TMEFF2 transmembrane protein with EGF like and two follistatin like domains 2 2 2
MIRT497798 GABRB1 gamma-aminobutyric acid type A receptor beta1 subunit 2 2
MIRT501273 SCARB2 scavenger receptor class B member 2 2 4
MIRT506756 KMT2D lysine methyltransferase 2D 2 2
MIRT511986 EEF2 eukaryotic translation elongation factor 2 2 4
MIRT513126 ZNF431 zinc finger protein 431 2 2
MIRT519733 ZNF394 zinc finger protein 394 2 4
MIRT520351 UBE2K ubiquitin conjugating enzyme E2 K 2 4
MIRT520542 TPPP tubulin polymerization promoting protein 2 8
MIRT530782 HDHD2 haloacid dehalogenase like hydrolase domain containing 2 2 2
MIRT531112 ZYG11B zyg-11 family member B, cell cycle regulator 2 2
MIRT532144 GALNT8 polypeptide N-acetylgalactosaminyltransferase 8 2 2
MIRT533208 WAPAL WAPL cohesin release factor 2 2
MIRT533419 TWF1 twinfilin actin binding protein 1 2 2
MIRT534063 SRSF10 serine and arginine rich splicing factor 10 2 2
MIRT534288 SLAIN2 SLAIN motif family member 2 2 2
MIRT537796 EFNB2 ephrin B2 2 2
MIRT538017 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT538058 DMD dystrophin 2 2
MIRT538132 DDI2 DNA damage inducible 1 homolog 2 2 2
MIRT538680 CCDC80 coiled-coil domain containing 80 2 2
MIRT538788 C3orf52 chromosome 3 open reading frame 52 2 2
MIRT542762 PPAP2B phospholipid phosphatase 3 2 2
MIRT546861 RAB10 RAB10, member RAS oncogene family 2 4
MIRT547418 MED4 mediator complex subunit 4 2 4
MIRT551633 TRUB1 TruB pseudouridine synthase family member 1 2 4
MIRT552329 ZNF704 zinc finger protein 704 2 2
MIRT556124 MFSD9 major facilitator superfamily domain containing 9 2 4
MIRT559290 ATXN1 ataxin 1 2 2
MIRT562125 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT563777 HUWE1 HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase 2 2
MIRT564430 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT566102 RBPJ recombination signal binding protein for immunoglobulin kappa J region 2 2
MIRT567126 IRF2BP2 interferon regulatory factor 2 binding protein 2 2 2
MIRT571213 RRS1 ribosome biogenesis regulator homolog 2 2
MIRT571939 LCLAT1 lysocardiolipin acyltransferase 1 2 2
MIRT571967 KIF21A kinesin family member 21A 2 2
MIRT606792 IL1RAPL1 interleukin 1 receptor accessory protein like 1 2 8
MIRT607351 TNS1 tensin 1 2 4
MIRT609416 GJB7 gap junction protein beta 7 2 4
MIRT609522 AZI2 5-azacytidine induced 2 2 4
MIRT611218 FAM174B family with sequence similarity 174 member B 2 2
MIRT611385 TRIP10 thyroid hormone receptor interactor 10 2 2
MIRT612053 KLB klotho beta 2 4
MIRT612102 CHRM3 cholinergic receptor muscarinic 3 2 2
MIRT612146 SIX1 SIX homeobox 1 2 4
MIRT612488 SIX3 SIX homeobox 3 2 4
MIRT613685 QPRT quinolinate phosphoribosyltransferase 2 2
MIRT613763 TTC38 tetratricopeptide repeat domain 38 2 2
MIRT613876 FGD1 FYVE, RhoGEF and PH domain containing 1 2 2
MIRT613965 PPP1R3D protein phosphatase 1 regulatory subunit 3D 2 4
MIRT614894 PAPOLG poly(A) polymerase gamma 2 2
MIRT614912 NFIA nuclear factor I A 2 2
MIRT615013 ERGIC2 ERGIC and golgi 2 2 2
MIRT615106 BCL7A BCL tumor suppressor 7A 2 2
MIRT615242 FAM227A family with sequence similarity 227 member A 2 4
MIRT615695 NEGR1 neuronal growth regulator 1 2 2
MIRT615956 ERBB3 erb-b2 receptor tyrosine kinase 3 2 4
MIRT615979 FSTL4 follistatin like 4 2 2
MIRT616053 PTPRE protein tyrosine phosphatase, receptor type E 2 4
MIRT616073 TBX2 T-box 2 2 4
MIRT616234 NPAS3 neuronal PAS domain protein 3 2 2
MIRT616306 CELF2 CUGBP Elav-like family member 2 2 2
MIRT616474 MACC1 MACC1, MET transcriptional regulator 2 2
MIRT616662 ST3GAL1 ST3 beta-galactoside alpha-2,3-sialyltransferase 1 2 2
MIRT616887 ATP5E ATP synthase, H+ transporting, mitochondrial F1 complex, epsilon subunit 2 2
MIRT616902 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT617025 SYT6 synaptotagmin 6 2 2
MIRT617162 SLC16A5 solute carrier family 16 member 5 2 2
MIRT617318 DPF3 double PHD fingers 3 2 2
MIRT617792 CHRM2 cholinergic receptor muscarinic 2 2 2
MIRT618418 DNAJC30 DnaJ heat shock protein family (Hsp40) member C30 2 2
MIRT618663 RPP40 ribonuclease P/MRP subunit p40 2 2
MIRT620212 VN1R1 vomeronasal 1 receptor 1 2 2
MIRT620413 TFDP3 transcription factor Dp family member 3 2 2
MIRT620667 BBS5 Bardet-Biedl syndrome 5 2 2
MIRT620709 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT620956 SFT2D2 SFT2 domain containing 2 2 2
MIRT621225 LMAN1 lectin, mannose binding 1 2 2
MIRT621333 SLC11A1 solute carrier family 11 member 1 2 2
MIRT621696 TSKU tsukushi, small leucine rich proteoglycan 2 2
MIRT623484 KCTD11 potassium channel tetramerization domain containing 11 2 2
MIRT623777 GOSR1 golgi SNAP receptor complex member 1 2 2
MIRT624215 DCAF5 DDB1 and CUL4 associated factor 5 2 2
MIRT624675 ARAP2 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2 2 2
MIRT627369 PRICKLE4 prickle planar cell polarity protein 4 2 2
MIRT628252 EFCAB14 EF-hand calcium binding domain 14 2 2
MIRT630790 TGIF2 TGFB induced factor homeobox 2 2 2
MIRT635631 PRR15L proline rich 15 like 2 2
MIRT636425 MARCH1 membrane associated ring-CH-type finger 1 2 2
MIRT637295 ACTN2 actinin alpha 2 2 2
MIRT637345 PIGP phosphatidylinositol glycan anchor biosynthesis class P 2 2
MIRT637842 SLC2A9 solute carrier family 2 member 9 2 2
MIRT638327 RCAN1 regulator of calcineurin 1 2 2
MIRT638375 RABL3 RAB, member of RAS oncogene family like 3 2 2
MIRT638751 EPHA4 EPH receptor A4 2 2
MIRT638965 ARHGAP6 Rho GTPase activating protein 6 2 2
MIRT639094 GLIPR1L2 GLI pathogenesis related 1 like 2 2 2
MIRT639172 CEP70 centrosomal protein 70 2 2
MIRT639254 SLC38A1 solute carrier family 38 member 1 2 4
MIRT639368 ZCCHC24 zinc finger CCHC-type containing 24 2 4
MIRT639504 CACNA1G calcium voltage-gated channel subunit alpha1 G 2 2
MIRT639644 WHAMM WAS protein homolog associated with actin, golgi membranes and microtubules 2 2
MIRT640486 EXOC5 exocyst complex component 5 2 2
MIRT641424 SCUBE3 signal peptide, CUB domain and EGF like domain containing 3 2 2
MIRT641550 LIPG lipase G, endothelial type 2 2
MIRT642180 TOR1AIP1 torsin 1A interacting protein 1 2 2
MIRT642656 RGS6 regulator of G protein signaling 6 2 2
MIRT642873 SAMD1 sterile alpha motif domain containing 1 2 2
MIRT643355 TRIM10 tripartite motif containing 10 2 2
MIRT643531 DNTTIP2 deoxynucleotidyltransferase terminal interacting protein 2 2 2
MIRT643998 PPP1R3G protein phosphatase 1 regulatory subunit 3G 2 2
MIRT644105 PHLPP1 PH domain and leucine rich repeat protein phosphatase 1 2 2
MIRT644421 VDR vitamin D receptor 2 2
MIRT644481 SLFN12 schlafen family member 12 2 2
MIRT644573 SPOP speckle type BTB/POZ protein 2 2
MIRT645354 SPNS1 sphingolipid transporter 1 (putative) 2 2
MIRT645383 FBLIM1 filamin binding LIM protein 1 2 2
MIRT645758 SURF6 surfeit 6 2 2
MIRT646060 VANGL2 VANGL planar cell polarity protein 2 2 2
MIRT646194 DUSP10 dual specificity phosphatase 10 2 2
MIRT647915 RGS5 regulator of G protein signaling 5 2 2
MIRT649216 AMMECR1L AMMECR1 like 2 2
MIRT649265 C17orf64 chromosome 17 open reading frame 64 2 2
MIRT649522 GTF3C3 general transcription factor IIIC subunit 3 2 2
MIRT649605 ITPKC inositol-trisphosphate 3-kinase C 2 2
MIRT650392 ORMDL2 ORMDL sphingolipid biosynthesis regulator 2 2 2
MIRT650835 SEMA4G semaphorin 4G 2 2
MIRT651273 ZDHHC5 zinc finger DHHC-type containing 5 2 2
MIRT651674 VPS37A VPS37A, ESCRT-I subunit 2 2
MIRT651763 VASP vasodilator stimulated phosphoprotein 2 2
MIRT652250 TPD52L3 tumor protein D52 like 3 2 2
MIRT652277 TOM1L2 target of myb1 like 2 membrane trafficking protein 2 2
MIRT652316 TNFSF15 TNF superfamily member 15 2 2
MIRT652342 TMOD3 tropomodulin 3 2 2
MIRT652373 TMEM57 transmembrane protein 57 2 2
MIRT652438 TMEM236 transmembrane protein 236 2 2
MIRT652723 TGFB2 transforming growth factor beta 2 2 2
MIRT652752 TET3 tet methylcytosine dioxygenase 3 2 2
MIRT653310 SMOC1 SPARC related modular calcium binding 1 2 2
MIRT653327 SMIM18 small integral membrane protein 18 2 2
MIRT653406 SLC7A2 solute carrier family 7 member 2 2 2
MIRT653512 SLC41A1 solute carrier family 41 member 1 2 2
MIRT653912 SERPINC1 serpin family C member 1 2 2
MIRT654111 RPS6KA5 ribosomal protein S6 kinase A5 2 2
MIRT654153 RORB RAR related orphan receptor B 2 2
MIRT654548 RAB14 RAB14, member RAS oncogene family 2 2
MIRT654920 POLR3D RNA polymerase III subunit D 2 2
MIRT655169 PHF19 PHD finger protein 19 2 2
MIRT655412 PAN2 PAN2 poly(A) specific ribonuclease subunit 2 2
MIRT655784 NOVA2 NOVA alternative splicing regulator 2 2 2
MIRT655836 NGDN neuroguidin 2 2
MIRT656079 MTA3 metastasis associated 1 family member 3 2 2
MIRT656404 MCTP1 multiple C2 and transmembrane domain containing 1 2 2
MIRT656720 LMLN leishmanolysin like peptidase 2 2
MIRT656774 LARP1 La ribonucleoprotein domain family member 1 2 2
MIRT656922 KIAA1462 junctional cadherin 5 associated 2 2
MIRT657004 KCNMB4 potassium calcium-activated channel subfamily M regulatory beta subunit 4 2 2
MIRT657477 HCAR2 hydroxycarboxylic acid receptor 2 2 2
MIRT657539 GSTO2 glutathione S-transferase omega 2 2 2
MIRT657911 GCC1 GRIP and coiled-coil domain containing 1 2 2
MIRT658478 EXOC8 exocyst complex component 8 2 2
MIRT658612 ENPP5 ectonucleotide pyrophosphatase/phosphodiesterase 5 (putative) 2 2
MIRT658823 SRCAP Snf2 related CREBBP activator protein 2 2
MIRT658965 DNAJB5 DnaJ heat shock protein family (Hsp40) member B5 2 4
MIRT659706 CCDC93 coiled-coil domain containing 93 2 2
MIRT660034 C15orf61 chromosome 15 open reading frame 61 2 2
MIRT660108 BTBD3 BTB domain containing 3 2 2
MIRT660697 AMOTL2 angiomotin like 2 2 2
MIRT660763 ALDH6A1 aldehyde dehydrogenase 6 family member A1 2 2
MIRT660884 ADCYAP1R1 ADCYAP receptor type I 2 2
MIRT660956 ABL2 ABL proto-oncogene 2, non-receptor tyrosine kinase 2 2
MIRT661217 SCIMP SLP adaptor and CSK interacting membrane protein 2 2
MIRT661596 C2orf15 chromosome 2 open reading frame 15 2 2
MIRT661624 UGT2B28 UDP glucuronosyltransferase family 2 member B28 2 2
MIRT662430 EID2 EP300 interacting inhibitor of differentiation 2 2 2
MIRT664816 NOX5 NADPH oxidase 5 2 2
MIRT665548 UCHL5 ubiquitin C-terminal hydrolase L5 2 2
MIRT665815 TMEM161B transmembrane protein 161B 2 2
MIRT666668 RBM23 RNA binding motif protein 23 2 2
MIRT667995 HCFC2 host cell factor C2 2 2
MIRT668064 GPR180 G protein-coupled receptor 180 2 2
MIRT669056 CELSR3 cadherin EGF LAG seven-pass G-type receptor 3 2 2
MIRT669637 ACSBG1 acyl-CoA synthetase bubblegum family member 1 2 2
MIRT699368 SLC30A6 solute carrier family 30 member 6 2 2
MIRT699882 RUNX1 runt related transcription factor 1 2 2
MIRT703834 ETV3 ETS variant 3 2 2
MIRT708528 ZNF177 zinc finger protein 177 2 2
MIRT709696 DMWD DM1 locus, WD repeat containing 2 2
MIRT710381 PARD6G par-6 family cell polarity regulator gamma 2 2
MIRT710639 GLUL glutamate-ammonia ligase 2 2
MIRT711584 SETD1A SET domain containing 1A 2 2
MIRT713208 FAM13A family with sequence similarity 13 member A 2 2
MIRT714129 IL20RB interleukin 20 receptor subunit beta 2 2
MIRT714204 MRE11A MRE11 homolog, double strand break repair nuclease 2 2
MIRT714733 CCNO cyclin O 2 2
MIRT714761 ZNF462 zinc finger protein 462 2 2
MIRT715624 ZBTB8B zinc finger and BTB domain containing 8B 2 2
MIRT715755 SKA2 spindle and kinetochore associated complex subunit 2 2 2
MIRT716075 RNF150 ring finger protein 150 2 2
MIRT716179 MTRNR2L1 MT-RNR2-like 1 2 2
MIRT717450 RWDD2A RWD domain containing 2A 2 2
MIRT717866 CACNA2D1 calcium voltage-gated channel auxiliary subunit alpha2delta 1 2 2
MIRT720964 ZBTB43 zinc finger and BTB domain containing 43 2 2
MIRT721564 SLC5A12 solute carrier family 5 member 12 2 2
MIRT722348 BAG2 BCL2 associated athanogene 2 2 2
MIRT723235 BTLA B and T lymphocyte associated 2 2
MIRT724018 LMBRD2 LMBR1 domain containing 2 2 2
MIRT724507 KLHL5 kelch like family member 5 2 2
MIRT725478 GPR26 G protein-coupled receptor 26 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4446 Aed Therapy sensitive High Epilepsy tissue
hsa-mir-4446 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-4446 Androstenedione+Letrozole sensitive cell line (MCF-7)
hsa-mir-4446 Tamoxifen 2733525 NSC180973 approved resistant cell line (MCF7)
hsa-mir-4446 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-mir-4446 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-4446-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4446-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-4446-5p Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4446-5p Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)

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