pre-miRNA Information
pre-miRNA hsa-mir-6768   
Genomic Coordinates chr16: 2463967 - 2464038
Description Homo sapiens miR-6768 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6768-3p
Sequence 45| CAAAGGCCACAUUCUCCUGUGCAC |68
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN28846463 17 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs372529217 1 dbSNP
rs375499936 3 dbSNP
rs754371523 6 dbSNP
rs757893316 7 dbSNP
rs1234310587 11 dbSNP
rs369572179 12 dbSNP
rs746522005 14 dbSNP
rs768134371 15 dbSNP
rs372852875 16 dbSNP
rs572852254 17 dbSNP
rs769601549 18 dbSNP
rs773041368 20 dbSNP
rs762865317 23 dbSNP
rs770921850 24 dbSNP
Putative Targets

Gene Information
Gene Symbol GBA2   
Synonyms AD035, NLGase, SPG46
Description glucosylceramidase beta 2
Transcript NM_020944   
Expression
Putative miRNA Targets on GBA2
3'UTR of GBA2
(miRNA target sites are highlighted)
>GBA2|NM_020944|3'UTR
   1 GCCGTCTGAACTGTGGGAGGGAAGTGCTAACAGCCCAGCCTCCAGCCTGGCCTTTCCTCCTTCCCCTCTGAACCTCCTGC
  81 AACCCTGAGCCATCAGGACAATCATACCCCTTCCCTTCTCTCCACCCAATTGTGCCAGTAAATGGGGGTTGAGGGTGACC
 161 TAGGCAGCATTAGAATCACTTATTTATTTCTTTCCTCACCTGTTCCCTGACTGCGTGAAATGTTCAGGGAGGTCAGTTGA
 241 TTTCCCCAGGTACATTCATGGTGTGACAGACACATGGGTACAAATAAAAGACCCAGAAAGCCAAAAAAAAAAAAAAAAAA
 321 AAAAAAAAAAA
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' caCGUGUC--CUCUUACACCGGAAAc 5'
            || |||     |:  |||||||| 
Target 5' caGCCCAGCCTCCAGCCTGGCCTTTc 3'
31 - 56 148.00 -12.59
2
miRNA  3' cacgUGUCCU---CUUACACCGGAaac 5'
              |::||:   ||: ||| |||   
Target 5' gtaaATGGGGGTTGAGGGTGACCTagg 3'
138 - 164 92.00 -13.10
3
miRNA  3' cacGU-GUCCUCUUA-CA-CCGGAAac 5'
             || ||||| |||  |   ||||  
Target 5' agcCATCAGGACAATCATACCCCTTcc 3'
88 - 114 81.00 -8.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31562514 4 COSMIC
COSN30473541 65 COSMIC
COSN20076936 90 COSMIC
COSN15761822 106 COSMIC
COSN8520559 141 COSMIC
COSN28185107 143 COSMIC
COSN31605212 180 COSMIC
COSN30158367 269 COSMIC
COSN31611318 270 COSMIC
COSN30502016 300 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs186702075 1 dbSNP
rs747837125 3 dbSNP
rs1408408323 4 dbSNP
rs781470140 6 dbSNP
rs780899461 11 dbSNP
rs1233912055 12 dbSNP
rs1244965342 13 dbSNP
rs732784 14 dbSNP
rs372562411 17 dbSNP
rs1336568849 19 dbSNP
rs767673780 25 dbSNP
rs1245774556 26 dbSNP
rs1217454341 27 dbSNP
rs751208161 32 dbSNP
rs766034702 39 dbSNP
rs757950539 41 dbSNP
rs1357836094 46 dbSNP
rs953706983 49 dbSNP
rs1389261627 56 dbSNP
rs1234923409 57 dbSNP
rs1470701508 58 dbSNP
rs1177041717 63 dbSNP
rs1410019890 64 dbSNP
rs1003010507 67 dbSNP
rs1167565082 68 dbSNP
rs920969258 95 dbSNP
rs1403492428 101 dbSNP
rs1330773059 103 dbSNP
rs1355091079 106 dbSNP
rs762150608 107 dbSNP
rs1475862579 116 dbSNP
rs1286297960 120 dbSNP
rs546341042 124 dbSNP
rs971516173 125 dbSNP
rs974334885 126 dbSNP
rs963320399 129 dbSNP
rs112785437 130 dbSNP
rs764517257 141 dbSNP
rs971556515 143 dbSNP
rs1204799979 148 dbSNP
rs1250078722 149 dbSNP
rs13287359 160 dbSNP
rs1213572258 161 dbSNP
rs1486745944 163 dbSNP
rs1049100408 167 dbSNP
rs115645052 174 dbSNP
rs1013037877 178 dbSNP
rs528287633 183 dbSNP
rs1471838253 184 dbSNP
rs1169783858 186 dbSNP
rs1420134821 186 dbSNP
rs182108271 186 dbSNP
rs111496988 187 dbSNP
rs1037332661 190 dbSNP
rs768898931 190 dbSNP
rs532364442 192 dbSNP
rs560639241 197 dbSNP
rs903739878 207 dbSNP
rs1341005657 209 dbSNP
rs1042325861 212 dbSNP
rs945169716 214 dbSNP
rs932426169 215 dbSNP
rs914269576 231 dbSNP
rs912430042 237 dbSNP
rs1295073258 238 dbSNP
rs1340602853 239 dbSNP
rs1228340482 254 dbSNP
rs1050798984 259 dbSNP
rs1350459459 260 dbSNP
rs1212108144 265 dbSNP
rs1255720313 269 dbSNP
rs955871413 275 dbSNP
rs932425580 276 dbSNP
rs775952951 277 dbSNP
rs1242791326 278 dbSNP
rs770501648 286 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' cacguguccucuuacacCGGAAac 5'
                           ||| |  
Target 5' accuccugcaacccugaGCCAUca 3'
22 - 45
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]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177624. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_4_2 PAR-CLIP data was present in ERX177604. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_2_6 PAR-CLIP data was present in ERX177616. RNA binding protein: AGO2. Condition:p53_V_AGO_CLIP_3_6 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
CLIP-seq Support 1 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000378103.3 | 3UTR | CCUUUCCUCCUUCCCCUCUGAACCUCCUGCAACCCUGAGCCAUCAG
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
95 hsa-miR-6768-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT060980 LAMC1 laminin subunit gamma 1 2 2
MIRT145633 LASP1 LIM and SH3 protein 1 2 2
MIRT161065 CDV3 CDV3 homolog 2 2
MIRT161171 SLC25A36 solute carrier family 25 member 36 2 2
MIRT177407 ZMYND11 zinc finger MYND-type containing 11 2 2
MIRT262237 WAC WW domain containing adaptor with coiled-coil 2 2
MIRT300236 INO80D INO80 complex subunit D 2 2
MIRT373993 PEBP1 phosphatidylethanolamine binding protein 1 2 4
MIRT379949 CRY2 cryptochrome circadian clock 2 2 2
MIRT405244 ADIPOR2 adiponectin receptor 2 2 2
MIRT441622 ROCK1 Rho associated coiled-coil containing protein kinase 1 2 6
MIRT441807 NOC3L NOC3 like DNA replication regulator 2 2
MIRT442007 NDUFV3 NADH:ubiquinone oxidoreductase subunit V3 2 2
MIRT442254 DCTN5 dynactin subunit 5 2 2
MIRT442413 LIMD1 LIM domains containing 1 2 2
MIRT442741 SERINC5 serine incorporator 5 2 2
MIRT442796 CEP170 centrosomal protein 170 2 2
MIRT443332 OCRL OCRL, inositol polyphosphate-5-phosphatase 2 2
MIRT443602 ZNF91 zinc finger protein 91 2 2
MIRT443695 KCNN3 potassium calcium-activated channel subfamily N member 3 2 2
MIRT443749 ELL2 elongation factor for RNA polymerase II 2 2 2
MIRT446376 THSD4 thrombospondin type 1 domain containing 4 2 2
MIRT452491 BANK1 B-cell scaffold protein with ankyrin repeats 1 2 16
MIRT456028 PSMA7 proteasome subunit alpha 7 2 2
MIRT461191 TRIP4 thyroid hormone receptor interactor 4 2 16
MIRT464498 UCK2 uridine-cytidine kinase 2 2 2
MIRT466640 TAOK1 TAO kinase 1 2 16
MIRT466703 TAF13 TATA-box binding protein associated factor 13 2 4
MIRT467765 SLC30A7 solute carrier family 30 member 7 2 2
MIRT469973 PTPRF protein tyrosine phosphatase, receptor type F 2 2
MIRT470539 COASY Coenzyme A synthase 2 2
MIRT474827 KIAA0226 RUN and cysteine rich domain containing beclin 1 interacting protein 2 2
MIRT475961 GXYLT1 glucoside xylosyltransferase 1 2 4
MIRT476459 GBA2 glucosylceramidase beta 2 2 2
MIRT477658 EFNA1 ephrin A1 2 2
MIRT485320 MZT1 mitotic spindle organizing protein 1 2 4
MIRT485656 CYP1B1 cytochrome P450 family 1 subfamily B member 1 2 2
MIRT494145 CTC1 CST telomere replication complex component 1 2 10
MIRT495127 CXorf67 chromosome X open reading frame 67 2 2
MIRT498279 POFUT1 protein O-fucosyltransferase 1 2 2
MIRT498432 DDX39A DExD-box helicase 39A 2 2
MIRT498853 LITAF lipopolysaccharide induced TNF factor 2 4
MIRT499661 SDR42E1 short chain dehydrogenase/reductase family 42E, member 1 2 2
MIRT502927 CDC42SE1 CDC42 small effector 1 2 4
MIRT503758 CEP19 centrosomal protein 19 2 6
MIRT507753 CERS2 ceramide synthase 2 2 4
MIRT507893 CAMSAP2 calmodulin regulated spectrin associated protein family member 2 2 4
MIRT510091 PPWD1 peptidylprolyl isomerase domain and WD repeat containing 1 2 8
MIRT527065 PPP6R1 protein phosphatase 6 regulatory subunit 1 2 2
MIRT530314 TNFRSF10D TNF receptor superfamily member 10d 2 2
MIRT530702 P2RY1 purinergic receptor P2Y1 2 2
MIRT532378 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT532969 ZNF148 zinc finger protein 148 2 2
MIRT533958 TAF1D TATA-box binding protein associated factor, RNA polymerase I subunit D 2 2
MIRT535186 PLEKHA8 pleckstrin homology domain containing A8 2 2
MIRT538751 CADM1 cell adhesion molecule 1 2 2
MIRT539473 ADARB2 adenosine deaminase, RNA specific B2 (inactive) 2 2
MIRT543858 APIP APAF1 interacting protein 2 2
MIRT558802 CDON cell adhesion associated, oncogene regulated 2 2
MIRT560208 AK4 adenylate kinase 4 2 2
MIRT560318 EFHD2 EF-hand domain family member D2 2 2
MIRT560439 GOLGA7B golgin A7 family member B 2 2
MIRT560846 SUV39H2 suppressor of variegation 3-9 homolog 2 2 2
MIRT562787 LIMA1 LIM domain and actin binding 1 2 2
MIRT563476 POLE3 DNA polymerase epsilon 3, accessory subunit 2 2
MIRT563829 RIPK4 receptor interacting serine/threonine kinase 4 2 2
MIRT563996 SLFN11 schlafen family member 11 2 2
MIRT564596 ZNF791 zinc finger protein 791 2 2
MIRT565442 SURF4 surfeit 4 2 2
MIRT566020 RHOA ras homolog family member A 2 2
MIRT566185 PTPN14 protein tyrosine phosphatase, non-receptor type 14 2 2
MIRT567643 FAM160A1 family with sequence similarity 160 member A1 2 2
MIRT568484 ARL5B ADP ribosylation factor like GTPase 5B 2 2
MIRT568553 AKT2 AKT serine/threonine kinase 2 2 2
MIRT613420 XRCC3 X-ray repair cross complementing 3 2 2
MIRT613638 ARHGAP35 Rho GTPase activating protein 35 2 2
MIRT614841 POU2F2 POU class 2 homeobox 2 2 2
MIRT630143 ZFYVE9 zinc finger FYVE-type containing 9 2 2
MIRT634123 ZMYM1 zinc finger MYM-type containing 1 2 4
MIRT641841 TCF7L2 transcription factor 7 like 2 2 2
MIRT647123 ZNF446 zinc finger protein 446 2 2
MIRT647968 FBXO31 F-box protein 31 2 2
MIRT658186 FBXO9 F-box protein 9 2 2
MIRT659097 DENR density regulated re-initiation and release factor 2 2
MIRT668980 CLCN3 chloride voltage-gated channel 3 2 2
MIRT670351 C1orf106 chromosome 1 open reading frame 106 2 4
MIRT671826 TRPM6 transient receptor potential cation channel subfamily M member 6 2 2
MIRT695610 GATAD1 GATA zinc finger domain containing 1 2 2
MIRT697722 USP8 ubiquitin specific peptidase 8 2 2
MIRT700069 RPL14 ribosomal protein L14 2 2
MIRT708474 MAPKAPK5 mitogen-activated protein kinase-activated protein kinase 5 2 2
MIRT717001 ARL6IP4 ADP ribosylation factor like GTPase 6 interacting protein 4 2 2
MIRT719591 TFCP2L1 transcription factor CP2 like 1 2 2
MIRT722026 CBY3 chibby family member 3 2 2
MIRT722901 LRRC20 leucine rich repeat containing 20 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-6768 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-6768 Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-mir-6768 Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-mir-6768 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-6768-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-6768-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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