pre-miRNA Information | |
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pre-miRNA | hsa-mir-125b-2 |
Genomic Coordinates | chr21: 16590237 - 16590325 |
Synonyms | MIRN125B2, MIR125B2 |
Description | Homo sapiens miR-125b-2 stem-loop |
Comment | This miRNA sequence is predicted based on homology to a verified miRNA from mouse . |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | |||||||||||||||
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Mature miRNA | hsa-miR-125b-2-3p | ||||||||||||||
Sequence | 54| UCACAAGUCAGGCUCUUGGGAC |75 | ||||||||||||||
Evidence | Experimental | ||||||||||||||
Experiments | Cloned | ||||||||||||||
Editing Events in miRNAs |
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SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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Human miRNA Tissue Atlas | |
miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SYTL4 | ||||||||||||||||||||
Synonyms | SLP4 | ||||||||||||||||||||
Description | synaptotagmin like 4 | ||||||||||||||||||||
Transcript | NM_001129896 | ||||||||||||||||||||
Other Transcripts | NM_001174068 , NM_080737 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SYTL4 | |||||||||||||||||||||
3'UTR of SYTL4 (miRNA target sites are highlighted) |
>SYTL4|NM_001129896|3'UTR 1 GTCCCTGTCCTCTTCTGCAGGTCCAGCCCTGGCGAGGGCAGGTCAGAGGAAGTGAAGAAATCAAGAGCAAAGATTTATAA 81 TTTAATGTGTATGTGTGTATGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTATGTGTACAAACATGTATTTTCTGCAAA 161 TCTCATTATGCTGGCTAGAGTGATGCAGACTTGTTCTTCTTTTTAAAGCAGTCTCAAGAATAAGCATTTCTTTAAAATGT 241 TTCTGTGTATAATCTAGTTTATTTTCAGAGTCCATTTTTTCTTATGTCTTTATAAGGTTCACTTAACTTAAAAACAGCTT 321 TTAAAACAACTTTTTATCTTCTGTCTTGCTATCATTGTTCCTACTTCCCTAGGAAGCCCTGGCTACCTTTCGCATTAGGA 401 CCAGTCTGGGTTTTAAGGCTCTGGGAAGCAGGGTTGGTTAGTAAAGACAGGAATGTTGGGGAGAGGTGAGTAGTTCCTTC 481 CTCTTTCTCCTCTCCAATTTATGCTTTTAACTTATTTTCTACCTGGATAAACTTCTGGAACTTGGCTTTTAAATTTAACT 561 TTTCTAGTTTTTAAGCAGTTTCCACCTTGCTTTGGTCTAATGCTTTTCTTTGAAATGCTAACAGAATTCCCAAGCTTTTT 641 CCAGTTCTAGATATCTTTACTAGACCTTTGGGGGACTCTTATAATGGAGCTGCTTTTGAAAAGCACTTTAATTAGATAAT 721 GTATTTTGACTAAATCACGAGGATGCCCAGTGAGAGCTTCTAGCTGATCTCAGAGGACCAGAGTGACTGAGGGTAAAGTG 801 TCTCACAGCCCATGCTGAATTTTCTGCATTTTAAACTGATACTGCAGTCATTGGAGAGAGAGCTCCTCATTTCTCGAATG 881 AAAGATGAGATATATTCATCCTCATGTACCACATCTGTCTTAGTGTTTGCGTCTGGGGTGTGTTATCAAACAGAGCATGG 961 TCTACATCCCACTGTGTCAACCAGAAGAGCCAAGTGTTATCTCAATTGGCCCAGTGTTTCTCCAGGCTGGGGACTGTTAA 1041 GGGCTCTAAGGGAATGTAGACAGAGTCTCCCTGTTATTCTGACTTCCTGCTTGATGAGCTTTCAGTTCCTGTTTTTGCTA 1121 TTGTTTCCTAAATTTGACCTACATATTACATGGGTGTAGTGTGTTGAGGCTTTTCAAAGAAGGGTCTAGTGAGCTAAGTT 1201 TCATCTTCTGGTACTCATTGATCAAACTGACCTTTCTATTCTCATAAGCGTTTCTACCCAAAGTTGTGTGTGGAAGGAGT 1281 GTATAGCAGAGAGGAAATCCCTTTCAACAGAGTCAGCTGCTAACTGATTTCCTATAAGCACACTGGATTAAGGGCAGCCA 1361 CAGTGGTTTCTACTGTATGTATGAACCGAATGGAGGAATGTTTTCAAAGATTGATTTGGTGTGGATTGCAATTGTAATGG 1441 AAGGCATAACTTGGGATCCCGGGCTGTAACTTGCTCTTTTGTTTCCCACCCCCCTGACATGTATGTGTGCTTTAATAAAG 1521 CTTTCTCACTTGTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
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miRNA:Target | ---- | ||||||
Validation Method |
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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
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
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miRNA-target interactions (Provided by authors) |
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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]
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CLIP-seq Support 1 for dataset GSM1084064 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_AbnovaAb |
Location of target site | ENST00000372989.1 | 3UTR | GAGUGAGUGUGUGUGU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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MiRNA-Target Expression Profile (TCGA) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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91 hsa-miR-125b-2-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT038624 | HN1L | Jupiter microtubule associated homolog 2 | ![]() |
1 | 1 | |||||||
MIRT038625 | KDELC2 | KDEL motif containing 2 | ![]() |
1 | 1 | |||||||
MIRT038626 | ABHD15 | abhydrolase domain containing 15 | ![]() |
1 | 1 | |||||||
MIRT038627 | PPP1R12C | protein phosphatase 1 regulatory subunit 12C | ![]() |
1 | 1 | |||||||
MIRT038628 | MSANTD4 | Myb/SANT DNA binding domain containing 4 with coiled-coils | ![]() |
1 | 1 | |||||||
MIRT038629 | ASH2L | ASH2 like histone lysine methyltransferase complex subunit | ![]() |
1 | 1 | |||||||
MIRT038630 | USP22 | ubiquitin specific peptidase 22 | ![]() |
1 | 1 | |||||||
MIRT038631 | CSTB | cystatin B | ![]() |
1 | 1 | |||||||
MIRT038632 | SYT2 | synaptotagmin 2 | ![]() |
1 | 1 | |||||||
MIRT038633 | NDUFS7 | NADH:ubiquinone oxidoreductase core subunit S7 | ![]() |
1 | 1 | |||||||
MIRT038634 | MTA2 | metastasis associated 1 family member 2 | ![]() |
1 | 1 | |||||||
MIRT053086 | IGF1R | insulin like growth factor 1 receptor | ![]() |
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3 | 1 | |||||
MIRT055788 | PLEKHA1 | pleckstrin homology domain containing A1 | ![]() |
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2 | 12 | ||||||
MIRT061248 | AMOTL1 | angiomotin like 1 | ![]() |
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2 | 10 | ||||||
MIRT061649 | BTG2 | BTG anti-proliferation factor 2 | ![]() |
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2 | 6 | ||||||
MIRT079046 | TNRC6C | trinucleotide repeat containing 6C | ![]() |
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2 | 4 | ||||||
MIRT084583 | BCL2L11 | BCL2 like 11 | ![]() |
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2 | 8 | ||||||
MIRT093523 | GALNT7 | polypeptide N-acetylgalactosaminyltransferase 7 | ![]() |
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2 | 2 | ||||||
MIRT097383 | LHFPL2 | LHFPL tetraspan subfamily member 2 | ![]() |
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2 | 4 | ||||||
MIRT098030 | SOBP | sine oculis binding protein homolog | ![]() |
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2 | 2 | ||||||
MIRT186262 | TCEB3 | elongin A | ![]() |
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2 | 2 | ||||||
MIRT187284 | DAZAP2 | DAZ associated protein 2 | ![]() |
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2 | 10 | ||||||
MIRT361113 | LRRC1 | leucine rich repeat containing 1 | ![]() |
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2 | 2 | ||||||
MIRT443585 | FAM84B | family with sequence similarity 84 member B | ![]() |
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2 | 2 | ||||||
MIRT452249 | TRAM1 | translocation associated membrane protein 1 | ![]() |
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2 | 2 | ||||||
MIRT476289 | GMFB | glia maturation factor beta | ![]() |
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2 | 8 | ||||||
MIRT483871 | MRPL12 | mitochondrial ribosomal protein L12 | ![]() |
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2 | 2 | ||||||
MIRT484250 | ANK1 | ankyrin 1 | ![]() |
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2 | 2 | ||||||
MIRT499251 | VAV3 | vav guanine nucleotide exchange factor 3 | ![]() |
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2 | 4 | ||||||
MIRT502270 | HNRNPA1 | heterogeneous nuclear ribonucleoprotein A1 | ![]() |
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2 | 4 | ||||||
MIRT504652 | RPL9 | ribosomal protein L9 | ![]() |
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2 | 6 | ||||||
MIRT505210 | UBN2 | ubinuclein 2 | ![]() |
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2 | 6 | ||||||
MIRT512690 | POP1 | POP1 homolog, ribonuclease P/MRP subunit | ![]() |
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2 | 2 | ||||||
MIRT517341 | ZNF529 | zinc finger protein 529 | ![]() |
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2 | 4 | ||||||
MIRT518946 | LSG1 | large 60S subunit nuclear export GTPase 1 | ![]() |
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2 | 2 | ||||||
MIRT520866 | SUGT1 | SGT1 homolog, MIS12 kinetochore complex assembly cochaperone | ![]() |
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2 | 2 | ||||||
MIRT521236 | SAR1A | secretion associated Ras related GTPase 1A | ![]() |
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2 | 2 | ||||||
MIRT528324 | GIGYF2 | GRB10 interacting GYF protein 2 | ![]() |
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2 | 2 | ||||||
MIRT533297 | USP46 | ubiquitin specific peptidase 46 | ![]() |
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2 | 2 | ||||||
MIRT541024 | WEE1 | WEE1 G2 checkpoint kinase | ![]() |
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2 | 4 | ||||||
MIRT544034 | ERRFI1 | ERBB receptor feedback inhibitor 1 | ![]() |
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2 | 2 | ||||||
MIRT547037 | POGZ | pogo transposable element derived with ZNF domain | ![]() |
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2 | 2 | ||||||
MIRT556102 | MOAP1 | modulator of apoptosis 1 | ![]() |
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2 | 2 | ||||||
MIRT558320 | DR1 | down-regulator of transcription 1 | ![]() |
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2 | 2 | ||||||
MIRT558520 | CSRNP3 | cysteine and serine rich nuclear protein 3 | ![]() |
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2 | 2 | ||||||
MIRT566230 | PTMA | prothymosin, alpha | ![]() |
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2 | 4 | ||||||
MIRT568437 | ARPP19 | cAMP regulated phosphoprotein 19 | ![]() |
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2 | 2 | ||||||
MIRT570584 | OTUD7B | OTU deubiquitinase 7B | ![]() |
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2 | 2 | ||||||
MIRT571384 | JKAMP | JNK1/MAPK8-associated membrane protein | ![]() |
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2 | 2 | ||||||
MIRT572798 | SIGLEC14 | sialic acid binding Ig like lectin 14 | ![]() |
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2 | 2 | ||||||
MIRT573864 | C9orf78 | chromosome 9 open reading frame 78 | ![]() |
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2 | 2 | ||||||
MIRT609930 | SLC38A1 | solute carrier family 38 member 1 | ![]() |
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2 | 4 | ||||||
MIRT610437 | CSMD2 | CUB and Sushi multiple domains 2 | ![]() |
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2 | 2 | ||||||
MIRT614407 | MURC | caveolae associated protein 4 | ![]() |
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2 | 2 | ||||||
MIRT618625 | GREB1 | growth regulation by estrogen in breast cancer 1 | ![]() |
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2 | 2 | ||||||
MIRT620605 | SAP30 | Sin3A associated protein 30 | ![]() |
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2 | 2 | ||||||
MIRT635313 | FAM179A | TOG array regulator of axonemal microtubules 2 | ![]() |
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2 | 2 | ||||||
MIRT635918 | GLTSCR2 | NOP53 ribosome biogenesis factor | ![]() |
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2 | 2 | ||||||
MIRT638507 | MAP3K9 | mitogen-activated protein kinase kinase kinase 9 | ![]() |
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2 | 2 | ||||||
MIRT640597 | TM9SF4 | transmembrane 9 superfamily member 4 | ![]() |
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2 | 2 | ||||||
MIRT644066 | IQCE | IQ motif containing E | ![]() |
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2 | 2 | ||||||
MIRT648287 | TRAPPC2L | trafficking protein particle complex 2 like | ![]() |
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2 | 2 | ||||||
MIRT653089 | SSR3 | signal sequence receptor subunit 3 | ![]() |
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2 | 2 | ||||||
MIRT654651 | PTAFR | platelet activating factor receptor | ![]() |
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2 | 2 | ||||||
MIRT658084 | FOXR2 | forkhead box R2 | ![]() |
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2 | 2 | ||||||
MIRT665306 | ZBTB37 | zinc finger and BTB domain containing 37 | ![]() |
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2 | 2 | ||||||
MIRT665974 | SYTL4 | synaptotagmin like 4 | ![]() |
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2 | 2 | ||||||
MIRT674905 | RASSF9 | Ras association domain family member 9 | ![]() |
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2 | 2 | ||||||
MIRT680085 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT681487 | DIP2A | disco interacting protein 2 homolog A | ![]() |
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2 | 2 | ||||||
MIRT691243 | DFNB59 | pejvakin | ![]() |
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2 | 2 | ||||||
MIRT692361 | AGTRAP | angiotensin II receptor associated protein | ![]() |
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2 | 2 | ||||||
MIRT693034 | MB21D1 | Mab-21 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT694478 | LRTOMT | leucine rich transmembrane and O-methyltransferase domain containing | ![]() |
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2 | 2 | ||||||
MIRT696069 | ZNF264 | zinc finger protein 264 | ![]() |
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2 | 2 | ||||||
MIRT696579 | TTC21B | tetratricopeptide repeat domain 21B | ![]() |
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2 | 2 | ||||||
MIRT696759 | MTFMT | mitochondrial methionyl-tRNA formyltransferase | ![]() |
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2 | 2 | ||||||
MIRT697306 | ZNF652 | zinc finger protein 652 | ![]() |
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2 | 2 | ||||||
MIRT698736 | STX12 | syntaxin 12 | ![]() |
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2 | 2 | ||||||
MIRT701055 | PARP2 | poly(ADP-ribose) polymerase 2 | ![]() |
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2 | 2 | ||||||
MIRT701197 | OTUD3 | OTU deubiquitinase 3 | ![]() |
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2 | 2 | ||||||
MIRT701334 | NSD1 | nuclear receptor binding SET domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT703617 | FBXO45 | F-box protein 45 | ![]() |
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2 | 2 | ||||||
MIRT708893 | ZNF780A | zinc finger protein 780A | ![]() |
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2 | 2 | ||||||
MIRT711621 | DGKH | diacylglycerol kinase eta | ![]() |
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2 | 2 | ||||||
MIRT713744 | TMEM81 | transmembrane protein 81 | ![]() |
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2 | 2 | ||||||
MIRT715060 | TMTC1 | transmembrane and tetratricopeptide repeat containing 1 | ![]() |
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2 | 2 | ||||||
MIRT719711 | CD101 | CD101 molecule | ![]() |
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2 | 2 | ||||||
MIRT720293 | DLGAP3 | DLG associated protein 3 | ![]() |
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2 | 2 | ||||||
MIRT722605 | CCDC152 | coiled-coil domain containing 152 | ![]() |
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2 | 2 | ||||||
MIRT724565 | ACSBG1 | acyl-CoA synthetase bubblegum family member 1 | ![]() |
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2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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