pre-miRNA Information | |
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pre-miRNA | hsa-mir-4477a |
Genomic Coordinates | chr9: 41233755 - 41233835 |
Description | Homo sapiens miR-4477a stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-4477a | ||||||||||||||||||||||||||||||||||||||||||
Sequence | 48| CUAUUAAGGACAUUUGUGAUUC |69 | ||||||||||||||||||||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||||||||||||||||||||
Experiments | Illumina | ||||||||||||||||||||||||||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | PRR15L | ||||||||||||||||||||
Synonyms | ATAD4 | ||||||||||||||||||||
Description | proline rich 15 like | ||||||||||||||||||||
Transcript | NM_024320 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on PRR15L | |||||||||||||||||||||
3'UTR of PRR15L (miRNA target sites are highlighted) |
>PRR15L|NM_024320|3'UTR 1 AGGGCTGAGGAGGGTGCTAGCACCTCTTGGCTCCCTGCCATCAGCCAGATCTGAGACAGGACCTTGCCACGCTGGCCTCT 81 TTGGCCATAGCTGAAGCTGTGGGGCCAGTTGATACCTGCTGGCAGGAAATGGCTGTTTTTTAGGTTTGTATTTATGTGCC 161 GCCACTTTTGTAAGGCCTGGGAGATCCCAGGGTCCTCCACCCTCCCCCTGACCACATACAAAGGCACTCTAGTTCAAGAG 241 TGAAAAGTCTCACCCAGGAGGAACAGCCCTCCTTGAAGCAATGGCAGGGCCAGCAGGGAGGTGGGCATGGCAGGGAATGG 321 AGAGAGTGAGCCAGACAGACTTCACCTCCTTACTGGACACAGGGTCAAGGGCGAGTTTCAATTGCTGCTCCCTTTACTTT 401 CTCTACCTGTGACTACTCCCTGGACCAATCCTGAGGAGGGCACATTTTCCAGAAGCCACGTGATAGGGGCTGGTTTCTGT 481 GGAGCCAGAGGCAGAGACACTGAACTTGAGCTCACCTCCTAACACCGGCAGTAAACTTCCTGGAACTTTGCCCTCAGGTG 561 CGGAGGGGACAGAGGACCCTGGCACTCTGTTAGGGTGCTGTAGAAGACTAGATTGATGGTAGTTTGGCCTGTTAGTTCCT 641 GTTTTGGCCATGACTTTTGCAGATGGCAAGTCACACACCCTCAAAGGGAAGCTACACGGGCCAAATCGGGGGAGTGGGTG 721 GGGAATTTTCTCCTCTCCCTTTCCTACTATAATAGTATTTAAGACATATCAGCTCCAGAGATGAGTCCTGGAGCCTTGAA 801 TTTTGTTTAACAAAATAATTGTAGGTTTCTCTCTGTAATAACAACGCTGGAAAGGCAGAGAACCTCTTTTATGCTCATGT 881 CTTGCATTTATTGAGATGACTGTTTCTCATGCCTTTATGTTCCTTCATGTAAGTAAAGTGGACCTTTGTGCTCAAAAAAA 961 AAAAAAAA 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 GSM1084069. RNA binding protein: AGO2. Condition:CLIP_emetine_SigmaAb
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
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 GSM1084069 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_SigmaAb |
Location of target site | ENST00000300557.2 | 3UTR | CUAGGGGAAAAAAAAAAU |
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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134 hsa-miR-4477a Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT055843 | PLEKHA1 | pleckstrin homology domain containing A1 | ![]() |
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2 | 10 | ||||||
MIRT061259 | AMOTL1 | angiomotin like 1 | ![]() |
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2 | 4 | ||||||
MIRT071895 | BTF3L4 | basic transcription factor 3 like 4 | ![]() |
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2 | 6 | ||||||
MIRT076933 | MLLT6 | MLLT6, PHD finger containing | ![]() |
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2 | 2 | ||||||
MIRT078652 | ICT1 | mitochondrial ribosomal protein L58 | ![]() |
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2 | 2 | ||||||
MIRT083633 | PRNP | prion protein | ![]() |
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2 | 2 | ||||||
MIRT091629 | RPL15 | ribosomal protein L15 | ![]() |
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2 | 4 | ||||||
MIRT107076 | PPP6C | protein phosphatase 6 catalytic subunit | ![]() |
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2 | 2 | ||||||
MIRT111191 | TRIM33 | tripartite motif containing 33 | ![]() |
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2 | 2 | ||||||
MIRT114515 | ARF6 | ADP ribosylation factor 6 | ![]() |
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2 | 2 | ||||||
MIRT175250 | PSAT1 | phosphoserine aminotransferase 1 | ![]() |
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2 | 4 | ||||||
MIRT175430 | ACSL4 | acyl-CoA synthetase long chain family member 4 | ![]() |
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2 | 2 | ||||||
MIRT178687 | FAM102B | family with sequence similarity 102 member B | ![]() |
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2 | 2 | ||||||
MIRT189771 | CDADC1 | cytidine and dCMP deaminase domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT229450 | RPL10 | ribosomal protein L10 | ![]() |
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2 | 2 | ||||||
MIRT244899 | PHF6 | PHD finger protein 6 | ![]() |
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2 | 2 | ||||||
MIRT249189 | AKIRIN1 | akirin 1 | ![]() |
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2 | 8 | ||||||
MIRT261134 | TRIM8 | tripartite motif containing 8 | ![]() |
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2 | 2 | ||||||
MIRT275561 | ZIC5 | Zic family member 5 | ![]() |
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2 | 4 | ||||||
MIRT275652 | ABHD13 | abhydrolase domain containing 13 | ![]() |
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2 | 2 | ||||||
MIRT288082 | UTP18 | UTP18, small subunit processome component | ![]() |
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2 | 2 | ||||||
MIRT303605 | MTHFD2 | methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase | ![]() |
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2 | 2 | ||||||
MIRT307924 | ARL8B | ADP ribosylation factor like GTPase 8B | ![]() |
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2 | 2 | ||||||
MIRT316787 | FOXC1 | forkhead box C1 | ![]() |
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2 | 2 | ||||||
MIRT326910 | SCML2 | Scm polycomb group protein like 2 | ![]() |
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2 | 2 | ||||||
MIRT327713 | SPIN4 | spindlin family member 4 | ![]() |
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2 | 2 | ||||||
MIRT331632 | AASDHPPT | aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase | ![]() |
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2 | 2 | ||||||
MIRT342506 | TMOD3 | tropomodulin 3 | ![]() |
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2 | 4 | ||||||
MIRT354470 | LRRC58 | leucine rich repeat containing 58 | ![]() |
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2 | 2 | ||||||
MIRT378711 | TRIM24 | tripartite motif containing 24 | ![]() |
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2 | 2 | ||||||
MIRT407462 | YDJC | YdjC chitooligosaccharide deacetylase homolog | ![]() |
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2 | 2 | ||||||
MIRT408226 | SMAD5 | SMAD family member 5 | ![]() |
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2 | 4 | ||||||
MIRT441824 | ALG14 | ALG14, UDP-N-acetylglucosaminyltransferase subunit | ![]() |
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2 | 2 | ||||||
MIRT442783 | CHD8 | chromodomain helicase DNA binding protein 8 | ![]() |
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2 | 2 | ||||||
MIRT443184 | NHS | NHS actin remodeling regulator | ![]() |
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2 | 4 | ||||||
MIRT447615 | CUL3 | cullin 3 | ![]() |
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2 | 2 | ||||||
MIRT450156 | DSEL | dermatan sulfate epimerase-like | ![]() |
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2 | 2 | ||||||
MIRT454801 | NEDD9 | neural precursor cell expressed, developmentally down-regulated 9 | ![]() |
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2 | 2 | ||||||
MIRT463050 | ZNF644 | zinc finger protein 644 | ![]() |
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2 | 2 | ||||||
MIRT467400 | SOCS3 | suppressor of cytokine signaling 3 | ![]() |
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2 | 2 | ||||||
MIRT468174 | SGMS1 | sphingomyelin synthase 1 | ![]() |
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2 | 2 | ||||||
MIRT468949 | RPS14 | ribosomal protein S14 | ![]() |
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2 | 6 | ||||||
MIRT469835 | R3HDM4 | R3H domain containing 4 | ![]() |
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2 | 2 | ||||||
MIRT470724 | POFUT1 | protein O-fucosyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT470902 | PLIN3 | perilipin 3 | ![]() |
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2 | 2 | ||||||
MIRT472467 | NAPG | NSF attachment protein gamma | ![]() |
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2 | 12 | ||||||
MIRT472602 | NAA50 | N(alpha)-acetyltransferase 50, NatE catalytic subunit | ![]() |
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2 | 2 | ||||||
MIRT492350 | SEMA7A | semaphorin 7A (John Milton Hagen blood group) | ![]() |
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2 | 2 | ||||||
MIRT493840 | FOXN3 | forkhead box N3 | ![]() |
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2 | 4 | ||||||
MIRT496318 | DOCK9 | dedicator of cytokinesis 9 | ![]() |
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2 | 2 | ||||||
MIRT500159 | CLEC2D | C-type lectin domain family 2 member D | ![]() |
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2 | 8 | ||||||
MIRT500535 | XPO4 | exportin 4 | ![]() |
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2 | 4 | ||||||
MIRT503916 | FBXL13 | F-box and leucine rich repeat protein 13 | ![]() |
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2 | 4 | ||||||
MIRT504003 | SAT1 | spermidine/spermine N1-acetyltransferase 1 | ![]() |
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2 | 4 | ||||||
MIRT505647 | SHMT1 | serine hydroxymethyltransferase 1 | ![]() |
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2 | 4 | ||||||
MIRT506574 | MIER3 | MIER family member 3 | ![]() |
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2 | 4 | ||||||
MIRT506945 | HS3ST3B1 | heparan sulfate-glucosamine 3-sulfotransferase 3B1 | ![]() |
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2 | 4 | ||||||
MIRT508196 | RPS19 | ribosomal protein S19 | ![]() |
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2 | 6 | ||||||
MIRT511417 | HSPA13 | heat shock protein family A (Hsp70) member 13 | ![]() |
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2 | 4 | ||||||
MIRT512326 | ACTB | actin beta | ![]() |
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2 | 4 | ||||||
MIRT515376 | RPL7 | ribosomal protein L7 | ![]() |
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2 | 2 | ||||||
MIRT520422 | TUBG1 | tubulin gamma 1 | ![]() |
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2 | 4 | ||||||
MIRT524844 | ARPP19 | cAMP regulated phosphoprotein 19 | ![]() |
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2 | 2 | ||||||
MIRT526320 | UGT2A1 | UDP glucuronosyltransferase family 2 member A1 complex locus | ![]() |
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2 | 2 | ||||||
MIRT526561 | UGT2A2 | UDP glucuronosyltransferase family 2 member A2 | ![]() |
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2 | 2 | ||||||
MIRT528027 | FEZ2 | fasciculation and elongation protein zeta 2 | ![]() |
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2 | 2 | ||||||
MIRT529874 | RBM43 | RNA binding motif protein 43 | ![]() |
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2 | 2 | ||||||
MIRT530826 | CLEC4D | C-type lectin domain family 4 member D | ![]() |
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2 | 2 | ||||||
MIRT531334 | GDPD1 | glycerophosphodiester phosphodiesterase domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT532068 | CCNB1 | cyclin B1 | ![]() |
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2 | 4 | ||||||
MIRT532870 | ZNF566 | zinc finger protein 566 | ![]() |
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2 | 2 | ||||||
MIRT535580 | NUP35 | nucleoporin 35 | ![]() |
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2 | 2 | ||||||
MIRT537644 | ERGIC2 | ERGIC and golgi 2 | ![]() |
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2 | 4 | ||||||
MIRT537725 | ELAVL2 | ELAV like RNA binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT538894 | BRI3BP | BRI3 binding protein | ![]() |
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2 | 2 | ||||||
MIRT538945 | BMP2K | BMP2 inducible kinase | ![]() |
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2 | 2 | ||||||
MIRT540703 | PDPK1 | 3-phosphoinositide dependent protein kinase 1 | ![]() |
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2 | 4 | ||||||
MIRT543210 | TMEM117 | transmembrane protein 117 | ![]() |
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2 | 3 | ||||||
MIRT543357 | LYRM2 | LYR motif containing 2 | ![]() |
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2 | 2 | ||||||
MIRT544905 | CLSPN | claspin | ![]() |
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2 | 2 | ||||||
MIRT545532 | ARF3 | ADP ribosylation factor 3 | ![]() |
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2 | 2 | ||||||
MIRT546446 | SMOC1 | SPARC related modular calcium binding 1 | ![]() |
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2 | 2 | ||||||
MIRT546882 | PURB | purine rich element binding protein B | ![]() |
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2 | 4 | ||||||
MIRT547440 | MED13 | mediator complex subunit 13 | ![]() |
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2 | 2 | ||||||
MIRT548027 | GOLIM4 | golgi integral membrane protein 4 | ![]() |
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2 | 2 | ||||||
MIRT548673 | CRNKL1 | crooked neck pre-mRNA splicing factor 1 | ![]() |
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2 | 2 | ||||||
MIRT550435 | LLGL2 | LLGL2, scribble cell polarity complex component | ![]() |
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2 | 2 | ||||||
MIRT551850 | RPS3 | ribosomal protein S3 | ![]() |
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2 | 2 | ||||||
MIRT556072 | MRFAP1 | Morf4 family associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT556554 | LIMS1 | LIM zinc finger domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT557132 | HOXA13 | homeobox A13 | ![]() |
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2 | 2 | ||||||
MIRT557875 | FEM1B | fem-1 homolog B | ![]() |
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2 | 4 | ||||||
MIRT558146 | ELK4 | ELK4, ETS transcription factor | ![]() |
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2 | 2 | ||||||
MIRT558862 | CD2AP | CD2 associated protein | ![]() |
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2 | 2 | ||||||
MIRT558884 | CCNE1 | cyclin E1 | ![]() |
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2 | 4 | ||||||
MIRT558907 | CBX5 | chromobox 5 | ![]() |
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2 | 2 | ||||||
MIRT559175 | BRAP | BRCA1 associated protein | ![]() |
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2 | 2 | ||||||
MIRT560860 | GAL3ST3 | galactose-3-O-sulfotransferase 3 | ![]() |
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2 | 2 | ||||||
MIRT561729 | PPIF | peptidylprolyl isomerase F | ![]() |
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2 | 2 | ||||||
MIRT564024 | CEBPB | CCAAT/enhancer binding protein beta | ![]() |
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2 | 2 | ||||||
MIRT564366 | TRMT5 | tRNA methyltransferase 5 | ![]() |
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2 | 2 | ||||||
MIRT564609 | ZNF703 | zinc finger protein 703 | ![]() |
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2 | 2 | ||||||
MIRT565494 | AZF1 | azoospermia factor 1 | ![]() |
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2 | 2 | ||||||
MIRT565577 | SLC6A8 | solute carrier family 6 member 8 | ![]() |
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2 | 2 | ||||||
MIRT566947 | LEPROT | leptin receptor overlapping transcript | ![]() |
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2 | 2 | ||||||
MIRT567293 | HNRNPA2B1 | heterogeneous nuclear ribonucleoprotein A2/B1 | ![]() |
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2 | 2 | ||||||
MIRT567308 | HMGN2 | high mobility group nucleosomal binding domain 2 | ![]() |
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2 | 2 | ||||||
MIRT568048 | CHSY1 | chondroitin sulfate synthase 1 | ![]() |
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2 | 2 | ||||||
MIRT571807 | PHF19 | PHD finger protein 19 | ![]() |
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2 | 2 | ||||||
MIRT609234 | RBM23 | RNA binding motif protein 23 | ![]() |
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2 | 2 | ||||||
MIRT610328 | SSX5 | SSX family member 5 | ![]() |
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2 | 2 | ||||||
MIRT611428 | UGT8 | UDP glycosyltransferase 8 | ![]() |
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2 | 4 | ||||||
MIRT611709 | SLFN13 | schlafen family member 13 | ![]() |
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2 | 2 | ||||||
MIRT612069 | CEP135 | centrosomal protein 135 | ![]() |
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2 | 4 | ||||||
MIRT617676 | JRKL | JRK like | ![]() |
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2 | 2 | ||||||
MIRT623684 | HNRNPA1 | heterogeneous nuclear ribonucleoprotein A1 | ![]() |
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2 | 2 | ||||||
MIRT635634 | PRR15L | proline rich 15 like | ![]() |
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2 | 2 | ||||||
MIRT636422 | MBOAT2 | membrane bound O-acyltransferase domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT637011 | GPATCH11 | G-patch domain containing 11 | ![]() |
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2 | 2 | ||||||
MIRT644150 | C4orf3 | chromosome 4 open reading frame 3 | ![]() |
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2 | 2 | ||||||
MIRT648562 | MEMO1 | mediator of cell motility 1 | ![]() |
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2 | 2 | ||||||
MIRT650752 | WNT16 | Wnt family member 16 | ![]() |
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2 | 2 | ||||||
MIRT651914 | UEVLD | UEV and lactate/malate dehyrogenase domains | ![]() |
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2 | 2 | ||||||
MIRT653556 | SLC38A7 | solute carrier family 38 member 7 | ![]() |
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2 | 2 | ||||||
MIRT692277 | XRN2 | 5'-3' exoribonuclease 2 | ![]() |
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2 | 2 | ||||||
MIRT697650 | WNK1 | WNK lysine deficient protein kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT703876 | ERCC6 | ERCC excision repair 6, chromatin remodeling factor | ![]() |
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2 | 2 | ||||||
MIRT704615 | CLIP1 | CAP-Gly domain containing linker protein 1 | ![]() |
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2 | 2 | ||||||
MIRT708562 | BBOX1 | gamma-butyrobetaine hydroxylase 1 | ![]() |
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2 | 2 | ||||||
MIRT709614 | KBTBD6 | kelch repeat and BTB domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT712955 | SGCD | sarcoglycan delta | ![]() |
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2 | 2 | ||||||
MIRT713502 | DCAF17 | DDB1 and CUL4 associated factor 17 | ![]() |
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2 | 2 | ||||||
MIRT720239 | GPBP1 | GC-rich promoter binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT724255 | GLUD1 | glutamate dehydrogenase 1 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||
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