miRTarBase - #MIRT052832


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pre-miRNA Information
pre-miRNA hsa-mir-378c   
Genomic Coordinates chr10: 130962588 - 130962668
Description Homo sapiens miR-378c stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-378c
Sequence 11| ACUGGACUUGGAGUCAGAAGAGUGG |35
Evidence Experimental
Experiments SOLiD
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 12 10 - 130962647 29233923 MiREDiBase
A-to-I 21 10 - 130962638 22327324, 27229138, 29165639 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1255712575 1 dbSNP
rs954998865 5 dbSNP
rs1476405711 7 dbSNP
rs1187159745 11 dbSNP
rs936928990 13 dbSNP
rs924224817 14 dbSNP
rs1031754294 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol KDM8   
Synonyms JMJD5
Description lysine demethylase 8
Transcript NM_001145348   
Other Transcripts NM_024773   
Expression
Putative miRNA Targets on KDM8
3'UTR of KDM8
(miRNA target sites are highlighted)		 
>KDM8|NM_001145348|3'UTR
   1 CCAGGATAGGAGCTGAAAGGGCCTGACATGCAGACAGCATTCATCTGTTCACTAATTTCCTGGGTCCTGGAATCTATAGA
  81 GACAAGCAGGACTGAACCTGTGTCCTGAAGAGCCTTCACTGCCCAGTGGCAGCCCTGGGGGGCTGAGCTCCAGCACTGGA
 161 CAGGCACAGAGCAGGGGCTGCCCAGGAAGGAGCACACTCCAGGCCAGGGGTGCATGGCAGAGGAAGGTGGGGAGAGCCCA
 241 GAAGGACATTGCAGACAGACAGCCTGCATGGGGACTCTGGCATCAGAAAGCCGAATGTTTTTGGGAAACGGGTGGGTCAC
 321 ACAGGCAGGGGTGAAACATGGGCTCTGAGGTTGGCTACCTGATTCAAACCCGGCCGCGCTGTGCACCTGCTGGGTGACTT
 401 GGCCAGGATCCCCCACTTCGCTGTGCCCATATGGAAAAGAGGGCAAGGCCAGTCCTCACTGCCGAGGGCCGAGAAGGCGG
 481 TGCCGAGCCCCTGCTGCTGCATGAACCTTAGCCGCTGTCACTGATCCCAATTACTCTGATCCTTTTGCCCTTCCTTCCCA
 561 TAACGGCCTGCTGGACGCCACAGCCTGAATACTGGAGAGAGCTGGGCATTGCCCAGGTCACAGGAGAGAGTCCGTAGAGA
 641 CCTGCGCAGGAGCCGGGACCCCTGCTGAGCAGTGGGAGCTTTCTGTCATCCCCATGGCTCAAGGATAACCTACCTGCCTG
 721 CAGAGAAGTGCGAAGGTCTTGCTGGATGACTTTTCACCCGCACTCACCCAGGAGCAGGCTCCCAAGTGAAGAAACCACCG
 801 AACCATCACCAGCTCCTAGAAGCCTCCCTCCTACCACCTTCTAGTCACCATCCCCCAGAAGTAATGACTCTCAAACCTGG
 881 GGGATTTGAGGCCAGGGGGAGAGCCAGGCTCTATGCTTTCTGTAATTGTGTCTCGTTTGTGTGCACGCAGGTTTGTTTTA
 961 TGTTTTGGCCATTAAGATTTTCCCCAGCCCTCTGTTTTTTGTTTTTTAAACTAAATAGAGATGGGATCTTGCTATGTTAA
1041 AAAAAAAA
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' ggugagaagacUGAGGUUCAGGUCa 5'
                     ||||| || |||| 
Target 5' ggaaggagcacACTCC-AGGCCAGg 3'
 185 - 208 125.00 -17.31
2 
miRNA  3' ggUGAGA----AGA---CUGAGGUUCAGGUCa 5'
            |||||     ||   |: |:::|| |||| 
Target 5' tgACTCTCAAACCTGGGGGATTTGAGGCCAGg 3'
 865 - 896 125.00 -16.80
3 
miRNA  3' ggugagaagaCUGAGGUUCAGGUCa 5'
                    ||   |||| |||| 
Target 5' atatggaaaaGAGGGCAAGGCCAGt 3'
 429 - 453 119.00 -11.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26726228 11 COSMIC
COSN30131739 38 COSMIC
COSN4892721 38 COSMIC
COSN30142029 43 COSMIC
COSN26981252 66 COSMIC
COSN31560972 75 COSMIC
COSN30112897 86 COSMIC
COSN31591534 98 COSMIC
COSN30496510 142 COSMIC
COSN30497156 155 COSMIC
COSN20078547 272 COSMIC
COSN17909397 383 COSMIC
COSN24563401 600 COSMIC
COSN19262630 646 COSMIC
COSN28201289 733 COSMIC
COSN23987782 801 COSMIC
COSN6546029 833 COSMIC
COSN27183318 857 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1486593458 6 dbSNP
rs924812083 8 dbSNP
rs1450067758 9 dbSNP
rs769659006 10 dbSNP
rs773153959 11 dbSNP
rs749069309 16 dbSNP
rs763150745 19 dbSNP
rs370928179 24 dbSNP
rs775758417 29 dbSNP
rs760874775 34 dbSNP
rs375211992 36 dbSNP
rs1264577731 42 dbSNP
rs1319371781 48 dbSNP
rs946946768 52 dbSNP
rs776796691 54 dbSNP
rs762008589 61 dbSNP
rs1300400115 62 dbSNP
rs765802982 63 dbSNP
rs750937338 64 dbSNP
rs1256813262 65 dbSNP
rs1484396604 67 dbSNP
rs1233547117 68 dbSNP
rs758772199 72 dbSNP
rs766708038 77 dbSNP
rs917640881 78 dbSNP
rs746690497 79 dbSNP
rs1302313654 81 dbSNP
rs1450477084 101 dbSNP
rs1362215746 103 dbSNP
rs947765299 105 dbSNP
rs1045098494 110 dbSNP
rs1465444931 121 dbSNP
rs1371683993 122 dbSNP
rs1173244350 131 dbSNP
rs1469802825 133 dbSNP
rs530535545 135 dbSNP
rs776374809 136 dbSNP
rs764344752 138 dbSNP
rs1468192533 141 dbSNP
rs1335959653 142 dbSNP
rs1203895125 143 dbSNP
rs1400400310 150 dbSNP
rs1392567904 151 dbSNP
rs901893121 152 dbSNP
rs993593273 173 dbSNP
rs370993178 177 dbSNP
rs1308028184 183 dbSNP
rs941914849 196 dbSNP
rs1314243117 204 dbSNP
rs751737364 210 dbSNP
rs776315697 218 dbSNP
rs1385007877 227 dbSNP
rs1391032075 229 dbSNP
rs1394827479 231 dbSNP
rs1300237780 240 dbSNP
rs544282206 242 dbSNP
rs1462783194 243 dbSNP
rs897699767 250 dbSNP
rs1162163962 251 dbSNP
rs1442307240 252 dbSNP
rs1386555018 253 dbSNP
rs1183866975 254 dbSNP
rs997283874 258 dbSNP
rs1005458462 260 dbSNP
rs1197370240 269 dbSNP
rs1480798386 271 dbSNP
rs1326035959 278 dbSNP
rs1222254892 281 dbSNP
rs1030431972 293 dbSNP
rs1315780724 293 dbSNP
rs143487068 294 dbSNP
rs147169297 304 dbSNP
rs1309343910 305 dbSNP
rs1007565137 310 dbSNP
rs1022004455 311 dbSNP
rs113487611 313 dbSNP
rs1301912626 314 dbSNP
rs1427077325 314 dbSNP
rs1366953657 315 dbSNP
rs968703368 319 dbSNP
rs1163691943 332 dbSNP
rs1469147286 334 dbSNP
rs1361710291 335 dbSNP
rs1183461991 339 dbSNP
rs1419511778 340 dbSNP
rs552775688 345 dbSNP
rs1220211318 350 dbSNP
rs977703493 352 dbSNP
rs1292341098 354 dbSNP
rs987869350 362 dbSNP
rs1200351198 368 dbSNP
rs1262777713 372 dbSNP
rs1240025789 373 dbSNP
rs1270823692 376 dbSNP
rs1031914600 377 dbSNP
rs542343648 378 dbSNP
rs566229232 382 dbSNP
rs9923178 383 dbSNP
rs917689160 384 dbSNP
rs947762586 386 dbSNP
rs1318168306 387 dbSNP
rs548495810 388 dbSNP
rs1399629484 390 dbSNP
rs1382120475 391 dbSNP
rs1160006534 399 dbSNP
rs1477777889 406 dbSNP
rs1457411333 418 dbSNP
rs568081835 420 dbSNP
rs1197034638 421 dbSNP
rs1481270497 423 dbSNP
rs908912612 425 dbSNP
rs750967337 433 dbSNP
rs910764289 445 dbSNP
rs1192373037 449 dbSNP
rs1036258385 453 dbSNP
rs897721102 464 dbSNP
rs372457448 465 dbSNP
rs1040515062 471 dbSNP
rs537057069 472 dbSNP
rs573930232 479 dbSNP
rs902026283 480 dbSNP
rs1347783319 483 dbSNP
rs1051997325 485 dbSNP
rs889208467 486 dbSNP
rs1429229660 500 dbSNP
rs1008095545 501 dbSNP
rs368674442 502 dbSNP
rs556990824 510 dbSNP
rs77656173 514 dbSNP
rs539239565 515 dbSNP
rs1230215565 527 dbSNP
rs1404936150 528 dbSNP
rs1173745731 534 dbSNP
rs998837781 536 dbSNP
rs1470869527 545 dbSNP
rs1249717151 551 dbSNP
rs187645849 554 dbSNP
rs960250814 555 dbSNP
rs1474373630 561 dbSNP
rs1006263524 565 dbSNP
rs1023392451 566 dbSNP
rs111318537 577 dbSNP
rs1023516905 578 dbSNP
rs1205791120 584 dbSNP
rs1462097855 593 dbSNP
rs1489917681 594 dbSNP
rs765068981 604 dbSNP
rs1342109995 607 dbSNP
rs1262130050 610 dbSNP
rs1228498690 628 dbSNP
rs961652708 631 dbSNP
rs754630676 634 dbSNP
rs78941332 635 dbSNP
rs1034838419 636 dbSNP
rs1190875771 643 dbSNP
rs980965794 646 dbSNP
rs1372029955 647 dbSNP
rs960553216 656 dbSNP
rs1407963298 660 dbSNP
rs908955779 662 dbSNP
rs1169079779 674 dbSNP
rs1444146339 680 dbSNP
rs1134366 691 dbSNP
rs963031086 693 dbSNP
rs778515668 695 dbSNP
rs1473235442 697 dbSNP
rs555705967 698 dbSNP
rs1202896662 699 dbSNP
rs1020695418 701 dbSNP
rs76839117 719 dbSNP
rs1222398911 720 dbSNP
rs1358162089 726 dbSNP
rs34179621 730 dbSNP
rs149257817 731 dbSNP
rs867530732 732 dbSNP
rs910222774 733 dbSNP
rs1439773499 734 dbSNP
rs1356047758 736 dbSNP
rs910410391 758 dbSNP
rs1363842309 760 dbSNP
rs943204177 761 dbSNP
rs1424427406 762 dbSNP
rs1407531935 764 dbSNP
rs923449523 766 dbSNP
rs929494087 773 dbSNP
rs533084480 776 dbSNP
rs1252954775 782 dbSNP
rs1047838371 800 dbSNP
rs12924923 801 dbSNP
rs1317251901 809 dbSNP
rs998870439 812 dbSNP
rs1223133468 828 dbSNP
rs1321738603 830 dbSNP
rs1053074984 831 dbSNP
rs1134367 833 dbSNP
rs1044377369 841 dbSNP
rs1261115106 852 dbSNP
rs74016026 855 dbSNP
rs1404055356 858 dbSNP
rs1023211278 862 dbSNP
rs970651669 865 dbSNP
rs1458484016 868 dbSNP
rs548433837 871 dbSNP
rs1015987947 873 dbSNP
rs1402647880 875 dbSNP
rs751349323 877 dbSNP
rs963060274 878 dbSNP
rs1479623001 879 dbSNP
rs1184967667 880 dbSNP
rs112474931 883 dbSNP
rs1382815430 891 dbSNP
rs1192270039 895 dbSNP
rs568417896 896 dbSNP
rs1001039864 897 dbSNP
rs757493866 902 dbSNP
rs918957806 905 dbSNP
rs747004935 910 dbSNP
rs144602341 925 dbSNP
rs964759833 929 dbSNP
rs550602174 935 dbSNP
rs532230825 936 dbSNP
rs1361423559 947 dbSNP
rs114788340 948 dbSNP
rs1432931830 952 dbSNP
rs1389665923 955 dbSNP
rs950944858 959 dbSNP
rs1468624720 963 dbSNP
rs9788909 968 dbSNP
rs926029126 969 dbSNP
rs1227991183 971 dbSNP
rs934697171 972 dbSNP
rs1184289568 975 dbSNP
rs1044901214 988 dbSNP
rs1307891633 993 dbSNP
rs1202623897 995 dbSNP
rs1248270339 995 dbSNP
rs927303672 997 dbSNP
rs1236685211 1002 dbSNP
rs553207392 1004 dbSNP
rs1306882846 1009 dbSNP
rs1461741937 1033 dbSNP
rs1293272644 1035 dbSNP
rs1230719184 1037 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Flp-In T-REx 293-hAGO1 cells
Location of target site CDS
Original Description (Extracted from the article) ... Validation of interactions identified by CLASH suppports their reliability. ...

- Helwak A; Kudla G; Dudnakova T; Tollervey D, 2013, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ggugagaagacugagguucaGGUCa 5'
                              |||| 
Target 5' ggcctgcccgtggctccctcCCAGa 3'
 		6 - 30
Article - Helwak A; Kudla G; Dudnakova T; Tollervey D
- Cell, 2013
MicroRNAs (miRNAs) play key roles in gene regulation, but reliable bioinformatic or experimental identification of their targets remains difficult. To provide an unbiased view of human miRNA targets, we developed a technique for ligation and sequencing of miRNA-target RNA duplexes associated with human AGO1. Here, we report data sets of more than 18,000 high-confidence miRNA-mRNA interactions. The binding of most miRNAs includes the 5' seed region, but around 60% of seed interactions are noncanonical, containing bulged or mismatched nucleotides. Moreover, seed interactions are generally accompanied by specific, nonseed base pairing. 18% of miRNA-mRNA interactions involve the miRNA 3' end, with little evidence for 5' contacts, and some of these were functionally validated. Analyses of miRNA:mRNA base pairing showed that miRNA species systematically differ in their target RNA interactions, and strongly overrepresented motifs were found in the interaction sites of several miRNAs. We speculate that these affect the response of RISC to miRNA-target binding.
LinkOut: [PMID: 23622248]
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
32 hsa-miR-378c Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT052829 DDX17 DEAD-box helicase 17 1 1
MIRT052830 RPS7 ribosomal protein S7 1 1
MIRT052831 SEC31A SEC31 homolog A, COPII coat complex component 1 1
MIRT052832 KDM8 lysine demethylase 8 1 1
MIRT052833 ANO4 anoctamin 4 1 1
MIRT463104 ZNF609 zinc finger protein 609 2 2
MIRT469375 REST RE1 silencing transcription factor 2 6
MIRT495444 KCNJ6 potassium voltage-gated channel subfamily J member 6 2 2
MIRT513609 VPS37B VPS37B, ESCRT-I subunit 2 2
MIRT520417 TXNL1 thioredoxin like 1 2 4
MIRT525114 PRKD2 protein kinase D2 2 2
MIRT525982 SPA17 sperm autoantigenic protein 17 2 2
MIRT527005 ARL8B ADP ribosylation factor like GTPase 8B 2 2
MIRT529218 CYP20A1 cytochrome P450 family 20 subfamily A member 1 2 2
MIRT529838 ARGFX arginine-fifty homeobox 2 2
MIRT532302 HAUS3 HAUS augmin like complex subunit 3 2 2
MIRT537579 ESYT2 extended synaptotagmin 2 2 2
MIRT543143 AKT1 AKT serine/threonine kinase 1 2 2
MIRT554927 RAP1B RAP1B, member of RAS oncogene family 2 2
MIRT564973 WTAP WT1 associated protein 2 2
MIRT570119 CACNG8 calcium voltage-gated channel auxiliary subunit gamma 8 2 2
MIRT652737 TGFB2 transforming growth factor beta 2 2 2
MIRT655951 NDST1 N-deacetylase and N-sulfotransferase 1 2 2
MIRT656000 MYRF myelin regulatory factor 2 2
MIRT684878 P4HB prolyl 4-hydroxylase subunit beta 2 2
MIRT692972 LGSN lengsin, lens protein with glutamine synthetase domain 2 2
MIRT693740 ACACA acetyl-CoA carboxylase alpha 2 2
MIRT710994 PPARGC1B PPARG coactivator 1 beta 2 2
MIRT712242 RCC2 regulator of chromosome condensation 2 2 2
MIRT718605 DCTPP1 dCTP pyrophosphatase 1 2 2
MIRT723502 WDR33 WD repeat domain 33 2 2
MIRT725450 HIPK3 homeodomain interacting protein kinase 3 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-378c Tamoxifen 2733525 NSC180973 approved resistant High Breast Cancer cell line (MCF-7, T47D)
hsa-mir-378c Cisplatin 5460033 NSC119875 approved resistant High Gastric Cancer cell line (BGC823)
hsa-miR-378c Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved sensitive High Pancreatic Cancer cell line (SW1990)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780)
hsa-miR-378c Aromatase Inhibitor sensitive Low Breast Cancer cell line (MCF-7)
hsa-miR-378c Imatinib 5291 NSC743414 approved resistant High Chronic Myelogenous Leukemia tissue
hsa-miR-378c Palbociclib 5330286 NSC758247 approved sensitive High Breast Cancer cell line (T47D)
hsa-miR-378c Doxorubicin 31703 NSC123127 approved resistant High Breast Cancer tissue
hsa-miR-378c Paclitaxel 36314 NSC125973 approved resistant High Breast Cancer tissue
hsa-mir-378c Androstenedione 6128 NSC9563 sensitive cell line (MCF-7)
hsa-mir-378c Androstenedione+Anastrozole sensitive cell line (MCF-7)
hsa-mir-378c Tamoxifen 2733525 NSC180973 approved resistant cell line (MCF7)
hsa-mir-378c Cisplatin 5460033 NSC119875 approved resistant cell line (BGC-823)
hsa-miR-378c Temozolomide 5394 NSC362856 approved resistant cell line (U251)
hsa-miR-378c Palbociclib 5330286 NSC758247 approved sensitive tissue (breast cancer)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-378c Doxorubicin 31703 NSC123127 approved sensitive cell line (BAS)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-378c Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-378c Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

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