pre-miRNA Information
pre-miRNA hsa-mir-4291   
Genomic Coordinates chr9: 93819357 - 93819421
Description Homo sapiens miR-4291 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4291
Sequence 11| UUCAGCAGGAACAGCU |26
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1265713434 9 dbSNP
rs1433969451 12 dbSNP
rs1372852268 16 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol MED23   
Synonyms ARC130, CRSP130, CRSP133, CRSP3, DRIP130, MRT18, SUR-2, SUR2
Description mediator complex subunit 23
Transcript NM_004830   
Other Transcripts NM_015979   
Expression
Putative miRNA Targets on MED23
3'UTR of MED23
(miRNA target sites are highlighted)
>MED23|NM_004830|3'UTR
   1 AGCCAGACTGTACTGTGGAGAAAGTAGAAATATATCCGTCTTTGAGAGTGGACTCAAACCTTTTAAATCTGAATGCGATC
  81 ACACTGTAGTGATATAGTAGAAGCAGTGATGATATTCAGATTGTTTTATTTTGATTCAAATGATGAATCTGTTGACACCT
 161 TATAACTCCCATCTCCCTATCTATATTTTTGTCTCTAAGAGATCAAGTAAGATACATGTTGTTCATATTCATAACAACTT
 241 ATTAGAGCTATGTAGGAACATAGAGGTATCTGTGATCAAATGACTTGTCATTGGCACTTTCAGTCTTTCCTATTCTAGCC
 321 GTTGTTTTTGTTTGTATTTTTTATTATTAATGACATATTTAGTCTTCAGATATATTATTTTAAAGGCACCACACATGTAA
 401 AACAGTTATTACAAATATTTTATACATAAATCTCTTGGTAGATTTTCAGAATAATAGAGATTTATATCAAGAAAAGGAAT
 481 CTAGATTTTGTTGCATTGTAGGAGCAAACAAGGCTTCATATTCTTTTTAAAATGACTTGAAATTTTATTATAAATTTCCA
 561 TAGTTTCTATCAAGGTCAACTGGCAGTTTTATTACCTTTGCTATGGACTTGAACTTACTGTATAAAATTAGTTGGAAGCC
 641 ATGTAAGAAAATAACATCTGAAAATTCTTGAACTTAAAATCATGCTTAAATGGTTGATTCTCCAATTTCTTTTTTTAAAA
 721 ATAAGTTAATTGCTTTTGCAGGTTGACACTCTCACCTGACAGATGATGTAATTCTTCAATTTTTATAATCTTAAAATTTT
 801 TAAATTTTATATTTGTAAATACAGTACACATTTTATTTCTTGGATTTTGAGAGACATTGTTAATTTTGGGGGAATTGGCA
 881 TTGCGAAAGACTTGAAAACTAATGAGTAAAGTCTGCTGAATGAATAAACCGTGTGATTGTTAA
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' ucgacaaGGACGACUu 5'
                 :||||||| 
Target 5' agtaaagTCTGCTGAa 3'
905 - 920 141.00 -12.20
2
miRNA  3' ucgACAAGGACGACUu 5'
             ||  :|||:||| 
Target 5' tgaTGAATCTGTTGAc 3'
141 - 156 129.00 -8.20
3
miRNA  3' ucGACAAGGACGACUu 5'
            ||| | |||: || 
Target 5' gaCTG-TACTGTGGAg 3'
6 - 20 101.00 -9.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31507237 10 COSMIC
COSN30168444 13 COSMIC
COSN30133261 35 COSMIC
COSN31613041 41 COSMIC
COSN509376 47 COSMIC
COSN16128674 55 COSMIC
COSN32018208 63 COSMIC
COSN30160006 71 COSMIC
COSN31557851 138 COSMIC
COSN16747114 229 COSMIC
COSN30134743 667 COSMIC
COSN30114608 806 COSMIC
COSN30110989 808 COSMIC
COSN30110982 809 COSMIC
COSN24310655 885 COSMIC
COSN20250928 946 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs769722987 2 dbSNP
rs1452608631 6 dbSNP
rs1343770649 8 dbSNP
rs201149484 9 dbSNP
rs781012015 10 dbSNP
rs768486338 14 dbSNP
rs747215595 15 dbSNP
rs780317656 17 dbSNP
rs558312178 19 dbSNP
rs377542582 24 dbSNP
rs778880214 31 dbSNP
rs1318964209 35 dbSNP
rs757741080 37 dbSNP
rs754340396 38 dbSNP
rs552498257 39 dbSNP
rs1009063050 50 dbSNP
rs890669785 69 dbSNP
rs1357627086 70 dbSNP
rs1050562229 76 dbSNP
rs189012428 77 dbSNP
rs530767462 83 dbSNP
rs1252012172 84 dbSNP
rs572633836 86 dbSNP
rs995950175 90 dbSNP
rs1420521779 95 dbSNP
rs1179342598 102 dbSNP
rs1315718687 103 dbSNP
rs898799350 117 dbSNP
rs1458326521 122 dbSNP
rs1030548099 125 dbSNP
rs1037349922 126 dbSNP
rs940383798 128 dbSNP
rs1424025295 129 dbSNP
rs1308728733 133 dbSNP
rs1375740048 138 dbSNP
rs1389925295 141 dbSNP
rs1306703364 150 dbSNP
rs1220216050 151 dbSNP
rs1322348634 160 dbSNP
rs145833305 162 dbSNP
rs1057008707 176 dbSNP
rs1401238388 183 dbSNP
rs938513095 195 dbSNP
rs1251411149 197 dbSNP
rs1481392654 223 dbSNP
rs964384502 229 dbSNP
rs1249539635 231 dbSNP
rs1032435426 242 dbSNP
rs1185206291 245 dbSNP
rs1383242085 252 dbSNP
rs1443958367 254 dbSNP
rs757392559 260 dbSNP
rs1340603549 262 dbSNP
rs1000561522 263 dbSNP
rs927151507 265 dbSNP
rs140768571 268 dbSNP
rs1297881556 274 dbSNP
rs969512291 275 dbSNP
rs1428538105 282 dbSNP
rs1454859443 284 dbSNP
rs1360876399 290 dbSNP
rs902244148 294 dbSNP
rs1229834626 299 dbSNP
rs1295647255 300 dbSNP
rs1308809921 301 dbSNP
rs915336018 310 dbSNP
rs1201996682 314 dbSNP
rs1250344368 320 dbSNP
rs989469229 321 dbSNP
rs1205279529 345 dbSNP
rs956725944 347 dbSNP
rs1241073761 350 dbSNP
rs1013419891 355 dbSNP
rs1428804116 357 dbSNP
rs1174546904 375 dbSNP
rs1478961407 378 dbSNP
rs557737755 392 dbSNP
rs1169838920 393 dbSNP
rs1378371970 408 dbSNP
rs1009157818 415 dbSNP
rs1186052479 417 dbSNP
rs955011709 422 dbSNP
rs1485167094 426 dbSNP
rs1055014221 427 dbSNP
rs1405870089 436 dbSNP
rs557225609 436 dbSNP
rs1291211646 452 dbSNP
rs1360495401 454 dbSNP
rs1395568677 456 dbSNP
rs1212238397 466 dbSNP
rs1294260213 479 dbSNP
rs996306477 484 dbSNP
rs1225010180 487 dbSNP
rs565682341 498 dbSNP
rs1322623583 500 dbSNP
rs1216409346 507 dbSNP
rs1461149029 512 dbSNP
rs538515767 513 dbSNP
rs1484863584 518 dbSNP
rs1185959383 521 dbSNP
rs150938673 530 dbSNP
rs1037441081 534 dbSNP
rs1037653202 537 dbSNP
rs1429021382 550 dbSNP
rs1458035089 552 dbSNP
rs1161750906 560 dbSNP
rs1343899547 569 dbSNP
rs546724312 579 dbSNP
rs1430681672 581 dbSNP
rs1287752713 591 dbSNP
rs1004495741 603 dbSNP
rs1318236497 604 dbSNP
rs1294193635 610 dbSNP
rs1212337839 611 dbSNP
rs886142714 612 dbSNP
rs1322412978 618 dbSNP
rs780388680 627 dbSNP
rs942060268 630 dbSNP
rs907957848 651 dbSNP
rs898194753 655 dbSNP
rs1056938634 656 dbSNP
rs1315021602 658 dbSNP
rs1215039289 668 dbSNP
rs10457573 670 dbSNP
rs1490879766 679 dbSNP
rs1197368868 680 dbSNP
rs954860532 681 dbSNP
rs927089498 685 dbSNP
rs80124471 692 dbSNP
rs1314414879 698 dbSNP
rs753116582 703 dbSNP
rs1321719847 704 dbSNP
rs1179278265 705 dbSNP
rs181918549 710 dbSNP
rs762539357 711 dbSNP
rs1400615602 716 dbSNP
rs1365657755 717 dbSNP
rs1386745257 717 dbSNP
rs755489023 722 dbSNP
rs1381494018 727 dbSNP
rs1425938110 738 dbSNP
rs947238657 741 dbSNP
rs772741561 742 dbSNP
rs1344428387 748 dbSNP
rs1442532365 751 dbSNP
rs1419903669 753 dbSNP
rs1032616286 755 dbSNP
rs1281047500 760 dbSNP
rs764696376 772 dbSNP
rs966402838 773 dbSNP
rs915321605 775 dbSNP
rs761790633 779 dbSNP
rs989604436 782 dbSNP
rs1370759952 783 dbSNP
rs956653151 787 dbSNP
rs1020684490 790 dbSNP
rs1291172812 791 dbSNP
rs1428332967 794 dbSNP
rs776487190 797 dbSNP
rs1188525753 801 dbSNP
rs1231519710 801 dbSNP
rs1013345126 802 dbSNP
rs1291144022 810 dbSNP
rs764325449 811 dbSNP
rs1361668153 812 dbSNP
rs1033944420 813 dbSNP
rs1189378306 818 dbSNP
rs923948925 822 dbSNP
rs1226565658 823 dbSNP
rs1410167009 827 dbSNP
rs987695785 827 dbSNP
rs1324518706 833 dbSNP
rs1297392503 836 dbSNP
rs1400260798 837 dbSNP
rs760402032 845 dbSNP
rs1344413222 848 dbSNP
rs143443166 849 dbSNP
rs898388962 853 dbSNP
rs1390784876 855 dbSNP
rs1038290543 856 dbSNP
rs1461875664 857 dbSNP
rs1384855581 859 dbSNP
rs1371728727 867 dbSNP
rs942001592 872 dbSNP
rs1029684840 878 dbSNP
rs374663323 880 dbSNP
rs886443886 881 dbSNP
rs545575453 884 dbSNP
rs1204658706 885 dbSNP
rs746735680 885 dbSNP
rs1197535839 889 dbSNP
rs1264647780 894 dbSNP
rs975296092 899 dbSNP
rs1453443065 903 dbSNP
rs1268120437 906 dbSNP
rs1169155340 913 dbSNP
rs1195181973 917 dbSNP
rs1337323139 918 dbSNP
rs943587285 921 dbSNP
rs3210525 925 dbSNP
rs1219073563 929 dbSNP
rs963913910 930 dbSNP
rs41285340 931 dbSNP
rs1406367751 932 dbSNP
rs1450343795 935 dbSNP
rs559977582 939 dbSNP
rs1327553152 943 dbSNP
rs765106912 945 dbSNP
rs1311157214 946 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_ControlB_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control B ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ucgacaaGGACGACUu 5'
                 :||||||| 
Target 5' --uaaagUCUGCUGAa 3'
1 - 14
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]
CLIP-seq Support 1 for dataset Chi_ControlB_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control B
Location of target site ENST00000368068.3 | 3UTR | UAAAGUCUGCUGAAUGAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
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
82 hsa-miR-4291 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT102445 CALU calumenin 2 4
MIRT108677 ZBTB33 zinc finger and BTB domain containing 33 2 4
MIRT125969 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 6
MIRT179018 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 4
MIRT379033 CDK6 cyclin dependent kinase 6 2 6
MIRT442473 CPEB4 cytoplasmic polyadenylation element binding protein 4 2 2
MIRT442910 PCBD2 pterin-4 alpha-carbinolamine dehydratase 2 2 2
MIRT442979 ZNF736 zinc finger protein 736 2 2
MIRT445663 TNFSF15 TNF superfamily member 15 2 2
MIRT446237 FZD6 frizzled class receptor 6 2 2
MIRT448860 FAM49B family with sequence similarity 49 member B 2 2
MIRT455559 TRAF1 TNF receptor associated factor 1 2 2
MIRT459704 ZNF641 zinc finger protein 641 2 2
MIRT460608 FEM1A fem-1 homolog A 2 2
MIRT462251 LAMA4 laminin subunit alpha 4 2 2
MIRT462469 FIZ1 FLT3 interacting zinc finger 1 2 2
MIRT466656 TAF1D TATA-box binding protein associated factor, RNA polymerase I subunit D 2 6
MIRT466841 STX6 syntaxin 6 2 2
MIRT471403 PDP2 pyruvate dehyrogenase phosphatase catalytic subunit 2 2 2
MIRT471517 PCGF3 polycomb group ring finger 3 2 2
MIRT471681 PABPN1 poly(A) binding protein nuclear 1 2 2
MIRT472858 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT474813 KIAA0226 RUN and cysteine rich domain containing beclin 1 interacting protein 2 2
MIRT474931 KCTD15 potassium channel tetramerization domain containing 15 2 2
MIRT475814 HDGF heparin binding growth factor 2 2
MIRT480434 C17orf49 chromosome 17 open reading frame 49 2 2
MIRT480903 BCL2L2-PABPN1 BCL2L2-PABPN1 readthrough 2 2
MIRT481478 ARL8B ADP ribosylation factor like GTPase 8B 2 2
MIRT484982 UBE2V1 ubiquitin conjugating enzyme E2 V1 2 8
MIRT485019 TMEM189-UBE2V1 TMEM189-UBE2V1 readthrough 2 8
MIRT485036 TMEM189 transmembrane protein 189 2 8
MIRT495074 HEYL hes related family bHLH transcription factor with YRPW motif-like 2 2
MIRT496004 CD180 CD180 molecule 2 2
MIRT500675 TRIM37 tripartite motif containing 37 2 2
MIRT504544 ZNF417 zinc finger protein 417 2 6
MIRT506782 KLHL15 kelch like family member 15 2 6
MIRT507256 FGF2 fibroblast growth factor 2 2 6
MIRT507386 EN2 engrailed homeobox 2 2 2
MIRT512505 BTBD19 BTB domain containing 19 2 2
MIRT516903 CTSB cathepsin B 2 2
MIRT528124 PPP1R10 protein phosphatase 1 regulatory subunit 10 2 2
MIRT528874 ATF3 activating transcription factor 3 2 2
MIRT536091 MBOAT2 membrane bound O-acyltransferase domain containing 2 2 2
MIRT541079 RLIM ring finger protein, LIM domain interacting 2 2
MIRT541099 RAF1 Raf-1 proto-oncogene, serine/threonine kinase 2 2
MIRT545360 LIN7C lin-7 homolog C, crumbs cell polarity complex component 2 2
MIRT545831 ZNF367 zinc finger protein 367 2 4
MIRT547115 PHLPP2 PH domain and leucine rich repeat protein phosphatase 2 2 2
MIRT547312 NPTN neuroplastin 2 2
MIRT547959 HIGD1A HIG1 hypoxia inducible domain family member 1A 2 4
MIRT549943 RPL7L1 ribosomal protein L7 like 1 2 2
MIRT550749 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT565145 TUBB2A tubulin beta 2A class IIa 2 2
MIRT571050 POLQ DNA polymerase theta 2 2
MIRT571361 ZNF45 zinc finger protein 45 2 2
MIRT610133 FOXI2 forkhead box I2 2 2
MIRT613145 DSE dermatan sulfate epimerase 2 2
MIRT613379 ABCC12 ATP binding cassette subfamily C member 12 2 2
MIRT615752 C6 complement C6 2 2
MIRT616460 ADRA2B adrenoceptor alpha 2B 2 2
MIRT616719 FEM1B fem-1 homolog B 2 2
MIRT618312 IPP intracisternal A particle-promoted polypeptide 2 2
MIRT631491 RASSF4 Ras association domain family member 4 2 2
MIRT643134 PLCXD2 phosphatidylinositol specific phospholipase C X domain containing 2 2 2
MIRT643482 DISC1 disrupted in schizophrenia 1 2 2
MIRT649715 TWSG1 twisted gastrulation BMP signaling modulator 1 2 2
MIRT653542 SLC38A7 solute carrier family 38 member 7 2 2
MIRT666307 SLC22A3 solute carrier family 22 member 3 2 2
MIRT692005 NAP1L4 nucleosome assembly protein 1 like 4 2 2
MIRT696838 ARL2BP ADP ribosylation factor like GTPase 2 binding protein 2 2
MIRT698204 TMEM248 transmembrane protein 248 2 2
MIRT703316 GDPD5 glycerophosphodiester phosphodiesterase domain containing 5 2 2
MIRT709376 FAM13A family with sequence similarity 13 member A 2 2
MIRT710112 MED23 mediator complex subunit 23 2 2
MIRT711975 HOMER2 homer scaffolding protein 2 2 2
MIRT712275 PPIP5K2 diphosphoinositol pentakisphosphate kinase 2 2 2
MIRT714108 TMED9 transmembrane p24 trafficking protein 9 2 2
MIRT719113 MAML1 mastermind like transcriptional coactivator 1 2 2
MIRT719727 SLC39A11 solute carrier family 39 member 11 2 2
MIRT720018 TFAP2C transcription factor AP-2 gamma 2 2
MIRT720358 ZBTB8B zinc finger and BTB domain containing 8B 2 2
MIRT720372 NUDT3 nudix hydrolase 3 2 2
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-4291 Platinum-based doublet chemotherapy resistant High Lung Adenocarcinoma tissue
hsa-miR-4291 Platinum 23939 resistant High Ovarian Cancer tissue
hsa-miR-4291 Paclitaxel 36314 NSC125973 approved resistant High Prostate Cancer cell line (DU-145, PC-3)
hsa-miR-4291 Doxorubicin 31703 NSC123127 approved resistant High Chronic Myelogenous Leukemia cell line (K562)
hsa-miR-4291 Radioactivity Iodine resistant High Papillary Thyroid Cancer tissue
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-miR-4291 Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4291 Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved sensitive cell line (CAL-27) (cytosolic RNA)
hsa-miR-4291 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4291 Platinum-based doublet chemotherapy resistant tissue (lung adenocarcinoma)
hsa-miR-4291 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4291 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR3)
hsa-miR-4291 Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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