pre-miRNA Information
pre-miRNA hsa-mir-6787   
Genomic Coordinates chr17: 82236668 - 82236728
Description Homo sapiens miR-6787 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6787-5p
Sequence 6| UGGCGGGGGUAGAGCUGGCUGC |27
Evidence Experimental
Experiments Meta-analysis
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs778888046 4 dbSNP
rs772018061 5 dbSNP
rs760886644 6 dbSNP
rs776925052 7 dbSNP
rs760060985 8 dbSNP
rs1432528063 9 dbSNP
rs778772390 10 dbSNP
rs924024166 11 dbSNP
rs201523090 13 dbSNP
rs1451075810 17 dbSNP
rs1378844609 18 dbSNP
Putative Targets

Gene Information
Gene Symbol VPS18   
Synonyms PEP3
Description VPS18, CORVET/HOPS core subunit
Transcript NM_020857   
Expression
Putative miRNA Targets on VPS18
3'UTR of VPS18
(miRNA target sites are highlighted)
>VPS18|NM_020857|3'UTR
   1 GAGGGTGTCACCTTTGATGGGGGGTGGGCAATGGGGAGCAGTGGCTTGAACCCACTTGAGAAGGCTGCCTCCTAGGCTCT
  81 GCTCAGTCATCTTGCAATTGCCACACTGTGACCACGTTGACGGGAGTAGAGTAGCGCTGTTGGCCAGGAGGTGTCAGGTG
 161 TGAGTGTATTCTGCCAGCTTTTCATGCTGTTCTTCAGAGCTGCAGTTATGCCAGACCATCAGCCTGCCTCCCAGTAGAGG
 241 CCCTTCACCTGGAGAAGTCAGAAATCTGACCCAATTCCACCCCCTGCCTCTAGCACCTCTTCTGTCCCTGTCATTCCCCA
 321 CACACGTCCTGTTCACCTCGAGAGAGAGAGAGAGAGAGCACCTTTCTTCCGTCTGTTCACTCTGCGGCCTCTGGAATCCC
 401 AGCTCTTCTCTCTCAGAAGAAGCCTTCTCTTCCTCCTGCCTGTAGGTGTCCCAGAAGTGAGAAGGCAGCCTTCGAAGTCC
 481 TGGGCATTGGGTGAGAAAGTGATGCTAGTTGGGGCATGCTTTTGTGCACACTCTCTGGGGCTCCAGTGTGAAGGGTGCCC
 561 TGGGGCTGAGGGCCTTGTGGAGGATGGTCGGTGGTGGTGATGGAGGTGGAGAGCATTAAACTGTCTGCACTGCAAAAAAA
 641 AAAAAAAAAAAAAAAAAAAAA
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' cgUCGGUCGAGAU-GGGGGCGGu 5'
            | ||| :|| | ||||:||| 
Target 5' tgACCCAATTCCACCCCCTGCCt 3'
267 - 289 148.00 -23.80
2
miRNA  3' cgUCGGUCGAG-AUGGGGGCGGu 5'
            ||||  ||| | |:||:||| 
Target 5' gaAGCCTTCTCTTCCTCCTGCCt 3'
419 - 441 136.00 -24.90
3
miRNA  3' cgucGGUCGAGAUGGGGGCGGu 5'
              ||  :|||::|||:|:| 
Target 5' agcaCCTCTTCTGTCCCTGTCa 3'
292 - 313 130.00 -26.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30487713 20 COSMIC
COSN27004694 25 COSMIC
COSN30473126 35 COSMIC
COSN28190329 98 COSMIC
COSN30503431 123 COSMIC
COSN30541205 149 COSMIC
COSN29720493 356 COSMIC
COSN23099188 358 COSMIC
COSN28197956 421 COSMIC
COSN7044967 451 COSMIC
COSN21843130 534 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1262275095 6 dbSNP
rs946106438 9 dbSNP
rs1327928765 12 dbSNP
rs187027964 13 dbSNP
rs1336076331 19 dbSNP
rs752508350 19 dbSNP
rs1360027247 22 dbSNP
rs1221013110 23 dbSNP
rs755299054 24 dbSNP
rs756236299 28 dbSNP
rs369026694 32 dbSNP
rs1208943190 33 dbSNP
rs757328360 38 dbSNP
rs1447913120 42 dbSNP
rs1374793613 47 dbSNP
rs530636584 49 dbSNP
rs978850969 55 dbSNP
rs1368568309 60 dbSNP
rs1328164945 63 dbSNP
rs1461952016 68 dbSNP
rs1387815434 70 dbSNP
rs1051430695 71 dbSNP
rs1399045998 72 dbSNP
rs563272859 76 dbSNP
rs1325021703 80 dbSNP
rs1453965653 85 dbSNP
rs781423325 91 dbSNP
rs1251573147 92 dbSNP
rs1195876406 96 dbSNP
rs145352103 98 dbSNP
rs748603283 99 dbSNP
rs1053449118 107 dbSNP
rs917140061 116 dbSNP
rs1284310498 117 dbSNP
rs1233176385 121 dbSNP
rs1037994281 122 dbSNP
rs147735445 123 dbSNP
rs1305440436 131 dbSNP
rs1212361189 134 dbSNP
rs993841656 136 dbSNP
rs866015552 137 dbSNP
rs1287073649 143 dbSNP
rs62020569 151 dbSNP
rs1005289756 158 dbSNP
rs530992191 172 dbSNP
rs1434397054 173 dbSNP
rs1035036797 176 dbSNP
rs1175686087 183 dbSNP
rs144974429 190 dbSNP
rs1474458679 203 dbSNP
rs1419193275 210 dbSNP
rs1185327795 218 dbSNP
rs1167254209 220 dbSNP
rs1487124744 223 dbSNP
rs1418810662 224 dbSNP
rs990182954 231 dbSNP
rs1242255806 241 dbSNP
rs1209524914 247 dbSNP
rs1484367483 250 dbSNP
rs778574889 252 dbSNP
rs1282043780 253 dbSNP
rs1026989116 255 dbSNP
rs551948521 258 dbSNP
rs1293132630 260 dbSNP
rs1461083024 265 dbSNP
rs1062970 267 dbSNP
rs1163080969 273 dbSNP
rs939441130 280 dbSNP
rs1388243022 283 dbSNP
rs1383715435 284 dbSNP
rs1021633618 298 dbSNP
rs1373648420 300 dbSNP
rs1315035880 305 dbSNP
rs1354369747 313 dbSNP
rs567590699 314 dbSNP
rs1168761672 319 dbSNP
rs1430877444 326 dbSNP
rs1318887736 327 dbSNP
rs1420858373 334 dbSNP
rs967464052 339 dbSNP
rs115619376 340 dbSNP
rs1231327557 340 dbSNP
rs138331702 340 dbSNP
rs397700866 340 dbSNP
rs59742241 340 dbSNP
rs763527476 340 dbSNP
rs926021308 340 dbSNP
rs956243667 340 dbSNP
rs1353676890 341 dbSNP
rs1295181413 345 dbSNP
rs745334640 347 dbSNP
rs1396888982 349 dbSNP
rs988862659 353 dbSNP
rs190521957 371 dbSNP
rs933843134 372 dbSNP
rs986639721 376 dbSNP
rs1164876070 379 dbSNP
rs911165619 381 dbSNP
rs942620380 383 dbSNP
rs775340765 384 dbSNP
rs1232240246 385 dbSNP
rs182962304 386 dbSNP
rs929738491 387 dbSNP
rs186547599 388 dbSNP
rs906930750 390 dbSNP
rs1211784483 403 dbSNP
rs1336836988 406 dbSNP
rs1275201321 409 dbSNP
rs539071216 410 dbSNP
rs1335189023 411 dbSNP
rs1038528552 413 dbSNP
rs147924884 416 dbSNP
rs1003480993 417 dbSNP
rs1378170772 421 dbSNP
rs1190739389 424 dbSNP
rs1325619091 425 dbSNP
rs929705095 428 dbSNP
rs1166195364 433 dbSNP
rs1452444568 434 dbSNP
rs575844349 436 dbSNP
rs543609659 439 dbSNP
rs1185998597 447 dbSNP
rs1327612077 462 dbSNP
rs1419272274 463 dbSNP
rs890775624 466 dbSNP
rs1191511783 470 dbSNP
rs754119957 471 dbSNP
rs1034514911 475 dbSNP
rs1455142457 483 dbSNP
rs1158969634 511 dbSNP
rs1204432232 512 dbSNP
rs894758379 516 dbSNP
rs1350088872 519 dbSNP
rs1384010091 520 dbSNP
rs140557912 525 dbSNP
rs1303214946 526 dbSNP
rs1439160208 532 dbSNP
rs1021648250 534 dbSNP
rs573938762 549 dbSNP
rs967348617 556 dbSNP
rs1314657983 558 dbSNP
rs1017840465 559 dbSNP
rs1382115683 563 dbSNP
rs1382190218 564 dbSNP
rs900674635 573 dbSNP
rs977402772 574 dbSNP
rs542546354 579 dbSNP
rs1240172005 580 dbSNP
rs1171300230 585 dbSNP
rs1030861727 587 dbSNP
rs1033587817 589 dbSNP
rs548836283 590 dbSNP
rs563763791 591 dbSNP
rs1259816378 596 dbSNP
rs1206973807 599 dbSNP
rs1488622104 608 dbSNP
rs1279899566 609 dbSNP
rs911020894 615 dbSNP
rs980004486 621 dbSNP
rs564959566 624 dbSNP
rs963939549 626 dbSNP
rs1227404907 630 dbSNP
rs776288873 633 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_124A_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + A ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' cgucggucgagaugGGGGCGGu 5'
                        ||||||| 
Target 5' ------gggggccgCCCCGCCg 3'
1 - 16
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_124A_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell miR-124 + A
Location of target site ENST00000220509.5 | 3UTR | GGGGGCCGCCCCGCCG
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
90 hsa-miR-6787-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT449091 XPO6 exportin 6 2 2
MIRT449991 PSMG1 proteasome assembly chaperone 1 2 2
MIRT454608 MYADM myeloid associated differentiation marker 2 2
MIRT456116 VAV3 vav guanine nucleotide exchange factor 3 2 6
MIRT457064 TOR4A torsin family 4 member A 2 2
MIRT461023 SDF4 stromal cell derived factor 4 2 2
MIRT467197 SPRY4 sprouty RTK signaling antagonist 4 2 2
MIRT471711 OTUB1 OTU deubiquitinase, ubiquitin aldehyde binding 1 2 2
MIRT472566 NACC1 nucleus accumbens associated 1 2 2
MIRT476079 GRB2 growth factor receptor bound protein 2 2 2
MIRT480150 CALR calreticulin 2 2
MIRT483027 KHSRP KH-type splicing regulatory protein 2 4
MIRT483498 STMN3 stathmin 3 2 4
MIRT483728 THSD4 thrombospondin type 1 domain containing 4 2 2
MIRT484550 BARHL1 BarH like homeobox 1 2 6
MIRT484684 PACSIN1 protein kinase C and casein kinase substrate in neurons 1 2 2
MIRT486059 CTDNEP1 CTD nuclear envelope phosphatase 1 2 2
MIRT486116 INO80E INO80 complex subunit E 2 2
MIRT486313 SIPA1 signal-induced proliferation-associated 1 2 2
MIRT486525 CLCN7 chloride voltage-gated channel 7 2 2
MIRT486857 DPF1 double PHD fingers 1 2 2
MIRT487352 PHF15 jade family PHD finger 2 1 1
MIRT487582 FAM83H family with sequence similarity 83 member H 2 4
MIRT487792 GPR20 G protein-coupled receptor 20 2 4
MIRT488104 POU3F1 POU class 3 homeobox 1 2 2
MIRT488786 POFUT2 protein O-fucosyltransferase 2 2 2
MIRT489361 SYNGR1 synaptogyrin 1 2 4
MIRT489387 RAB11B RAB11B, member RAS oncogene family 2 2
MIRT489680 SCAMP4 secretory carrier membrane protein 4 2 2
MIRT489731 GNAI2 G protein subunit alpha i2 2 4
MIRT489750 TACC3 transforming acidic coiled-coil containing protein 3 2 2
MIRT490029 PCSK4 proprotein convertase subtilisin/kexin type 4 2 2
MIRT490379 LHFPL3 LHFPL tetraspan subfamily member 3 2 2
MIRT490580 SLC47A1 solute carrier family 47 member 1 2 2
MIRT490753 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT491187 JUND JunD proto-oncogene, AP-1 transcription factor subunit 2 4
MIRT491301 VGF VGF nerve growth factor inducible 2 2
MIRT491462 HOXB8 homeobox B8 2 2
MIRT491702 PDZD4 PDZ domain containing 4 2 2
MIRT491724 RTN4R reticulon 4 receptor 2 2
MIRT491737 SEMA3F semaphorin 3F 2 2
MIRT491984 UNK unkempt family zinc finger 2 2
MIRT492844 NRGN neurogranin 2 2
MIRT492936 NEUROD2 neuronal differentiation 2 2 4
MIRT493713 H2AFX H2A histone family member X 2 2
MIRT494623 ASB6 ankyrin repeat and SOCS box containing 6 2 4
MIRT494703 ARHGAP31 Rho GTPase activating protein 31 2 2
MIRT495602 NKX2-5 NK2 homeobox 5 2 2
MIRT495750 PDE4C phosphodiesterase 4C 2 4
MIRT500367 ZNF385A zinc finger protein 385A 2 2
MIRT501161 SLC10A7 solute carrier family 10 member 7 2 6
MIRT501702 PCGF3 polycomb group ring finger 3 2 6
MIRT504922 PDRG1 p53 and DNA damage regulated 1 2 2
MIRT517945 TRIM59 tripartite motif containing 59 2 2
MIRT524212 DDI2 DNA damage inducible 1 homolog 2 2 6
MIRT531186 SIGLEC12 sialic acid binding Ig like lectin 12 (gene/pseudogene) 2 2
MIRT531972 C12orf49 chromosome 12 open reading frame 49 2 2
MIRT558055 EVI5L ecotropic viral integration site 5 like 2 2
MIRT560482 LACE1 AFG1 like ATPase 2 2
MIRT563217 FXN frataxin 2 2
MIRT569095 FSCN1 fascin actin-bundling protein 1 2 2
MIRT569522 AP5Z1 adaptor related protein complex 5 zeta 1 subunit 2 2
MIRT569531 CTTN cortactin 2 2
MIRT569848 RGS5 regulator of G protein signaling 5 2 2
MIRT570738 ANKRD52 ankyrin repeat domain 52 2 2
MIRT574140 MARVELD1 MARVEL domain containing 1 2 2
MIRT615994 DHTKD1 dehydrogenase E1 and transketolase domain containing 1 2 2
MIRT628493 ZNF556 zinc finger protein 556 2 2
MIRT633451 KLLN killin, p53-regulated DNA replication inhibitor 2 2
MIRT649054 SLC1A2 solute carrier family 1 member 2 2 2
MIRT649340 HEXA hexosaminidase subunit alpha 2 2
MIRT670226 PTCHD1 patched domain containing 1 2 2
MIRT670666 KIAA1551 KIAA1551 2 2
MIRT671452 CDH7 cadherin 7 2 2
MIRT671729 ZNF451 zinc finger protein 451 2 2
MIRT690285 ZNF154 zinc finger protein 154 2 2
MIRT700575 PRSS22 protease, serine 22 2 2
MIRT701411 NKRF NFKB repressing factor 2 2
MIRT711877 VASP vasodilator stimulated phosphoprotein 2 2
MIRT712082 UNC13A unc-13 homolog A 2 2
MIRT712523 CYTH2 cytohesin 2 2 2
MIRT712751 GMDS GDP-mannose 4,6-dehydratase 2 2
MIRT714681 PRX periaxin 2 2
MIRT714718 VPS8 VPS8, CORVET complex subunit 2 2
MIRT717508 HRNR hornerin 2 2
MIRT717650 THBS2 thrombospondin 2 2 2
MIRT719592 PIAS4 protein inhibitor of activated STAT 4 2 2
MIRT720521 PTGR2 prostaglandin reductase 2 2 2
MIRT721295 C3orf36 chromosome 3 open reading frame 36 2 2
MIRT724922 VPS18 VPS18, CORVET/HOPS core subunit 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-6787 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-miR-6787-5p Dabrafenib 44462760 NSC764134 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-6787-5p Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-6787-5p Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-6787-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-6787-5p Tamoxifen 2733525 NSC180973 approved sensitive cell line (LCC2)
hsa-miR-6787-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-6787-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-6787-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-6787-5p Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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