pre-miRNA Information | |
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pre-miRNA | hsa-mir-216a |
Genomic Coordinates | chr2: 55988950 - 55989059 |
Description | Homo sapiens miR-216a stem-loop |
Comment | This human miRNA was predicted by computational methods using conservation with mouse and Fugu rubripes sequences . |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||
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Mature miRNA | hsa-miR-216a-5p | ||||||||||||||||||||||||
Sequence | 19| UAAUCUCAGCUGGCAACUGUGA |40 | ||||||||||||||||||||||||
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 |
Biomarker Information |
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Gene Information | |||||||||||||||||||||
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Gene Symbol | PAK4 | ||||||||||||||||||||
Synonyms | - | ||||||||||||||||||||
Description | p21 (RAC1) activated kinase 4 | ||||||||||||||||||||
Transcript | NM_001014831 | ||||||||||||||||||||
Other Transcripts | NM_001014832 , NM_001014834 , NM_001014835 , NM_005884 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on PAK4 | |||||||||||||||||||||
3'UTR of PAK4 (miRNA target sites are highlighted) |
>PAK4|NM_001014831|3'UTR 1 GGCCCAGCGCCCTTCCCCTCAACCAAAGAGCCCCCCGGGTCACCCCCGCCCCACTGAGGCCAGTAGGGGGCCAGGCCTCC 81 CACTCCTCCCAGCCCGGGAGATGCTCCGCGTGGCACCACCCTCCTTGCTGGGGGTAGATGAGACCCTACTACTGAACTCC 161 AGTTTTGATCTCGTGACTTTTAGAAAAACACAGGGACTCGTGGGAGCAAGCGAGGCTCCCAGGACCCCCACCCTCTGGGA 241 CAGGCCCTCCCCCATGTTCTTCTGTCTCCAGGAAGGGCAGCGGCCCTCCCATCACTGGAAGTCTGCAGTGGGGGTCGCTG 321 GGGGTGGAGAGAACACTAAGAGGTGAACATGTATGAGTGTGTGCACGCGTGTGAGTGTGCATGTGTGTGTGTGCAAAGGT 401 CCAGCCACCCCGTCCTCCAGCCTGCAAGGGGTGTCTGGCGCCTTGCCTGACACCCAGCCCCCTCTCCCCCTGAGCCATTG 481 TGGGGGTCGATCATGAATGTCCGAAGAGTGGCCTTTTCCCGTAGCCCTGCGCCCCCTTTCTGTGGCTGGATGGGGAGACA 561 GGTCAGGGCCCCCCACCCTCTCCAGCCCCTGCAGCAAATGACTACTGCACCTGGACAGCCTCCTCTTTTCTAGAAGTCTA 641 TTTATATTGTCATTTTATAACACTCTAGCCCCTGCCCTTATTGGGGGACAGATGGTCCCTGTCCTGCGGGGTGGCCCTGG 721 CAGAACCACTGCCTGAAGAACCAGGTTCCTGCCCGGTCAGCGCAGCCCCAGCCCGCCCACCCCTGCCTCGAGTTAGTTTT 801 ACAATTAAAACATTGTCTTGTTTTGTG 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
HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_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 | ENST00000599386.1 | 3UTR | AUGAGAUUUUUUUUUUUUUUUUGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1084078 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000599386.1 | 3UTR | AUGAGAUUUUUUUUUUUUUUUUGAG |
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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148 hsa-miR-216a-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT000534 | PTEN | phosphatase and tensin homolog | ![]() |
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4 | 3 | ||||
MIRT005018 | SIRT1 | sirtuin 1 | ![]() |
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3 | 1 | |||||
MIRT005964 | CDC42 | cell division cycle 42 | ![]() |
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2 | 1 | ||||||
MIRT005969 | CD44 | CD44 molecule (Indian blood group) | ![]() |
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2 | 1 | ||||||
MIRT007154 | SMAD7 | SMAD family member 7 | ![]() |
1 | 1 | |||||||
MIRT054887 | BECN1 | beclin 1 | ![]() |
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5 | 3 | |||
MIRT067588 | METAP2 | methionyl aminopeptidase 2 | ![]() |
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2 | 6 | ||||||
MIRT099144 | MYLIP | myosin regulatory light chain interacting protein | ![]() |
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2 | 12 | ||||||
MIRT162313 | TGFBR2 | transforming growth factor beta receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT230668 | DFFA | DNA fragmentation factor subunit alpha | ![]() |
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2 | 2 | ||||||
MIRT256274 | PHAX | phosphorylated adaptor for RNA export | ![]() |
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2 | 2 | ||||||
MIRT386817 | RAD51L3-RFFL | RAD51L3-RFFL readthrough | ![]() |
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2 | 2 | ||||||
MIRT386825 | RFFL | ring finger and FYVE like domain containing E3 ubiquitin protein ligase | ![]() |
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2 | 2 | ||||||
MIRT438816 | HNF4A | hepatocyte nuclear factor 4 alpha | ![]() |
1 | 1 | |||||||
MIRT464699 | UBE2V1 | ubiquitin conjugating enzyme E2 V1 | ![]() |
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2 | 2 | ||||||
MIRT465962 | TMEM189-UBE2V1 | TMEM189-UBE2V1 readthrough | ![]() |
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2 | 2 | ||||||
MIRT466046 | TMEM189 | transmembrane protein 189 | ![]() |
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2 | 2 | ||||||
MIRT466482 | TECPR2 | tectonin beta-propeller repeat containing 2 | ![]() |
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2 | 7 | ||||||
MIRT472209 | NGFRAP1 | brain expressed X-linked 3 | ![]() |
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2 | 4 | ||||||
MIRT472562 | NACC1 | nucleus accumbens associated 1 | ![]() |
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2 | 4 | ||||||
MIRT478921 | CPS1 | carbamoyl-phosphate synthase 1 | ![]() |
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2 | 2 | ||||||
MIRT480121 | CALR | calreticulin | ![]() |
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2 | 2 | ||||||
MIRT497754 | OXGR1 | oxoglutarate receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT497967 | TWISTNB | TWIST neighbor | ![]() |
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2 | 2 | ||||||
MIRT502882 | CDK4 | cyclin dependent kinase 4 | ![]() |
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2 | 8 | ||||||
MIRT510191 | MON1B | MON1 homolog B, secretory trafficking associated | ![]() |
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2 | 4 | ||||||
MIRT512407 | CD84 | CD84 molecule | ![]() |
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2 | 2 | ||||||
MIRT513739 | PSD3 | pleckstrin and Sec7 domain containing 3 | ![]() |
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2 | 4 | ||||||
MIRT526257 | DROSHA | drosha ribonuclease III | ![]() |
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2 | 2 | ||||||
MIRT528968 | FAM19A3 | family with sequence similarity 19 member A3, C-C motif chemokine like | ![]() |
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2 | 2 | ||||||
MIRT529599 | C6orf132 | chromosome 6 open reading frame 132 | ![]() |
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2 | 2 | ||||||
MIRT529776 | ZNF486 | zinc finger protein 486 | ![]() |
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2 | 2 | ||||||
MIRT530110 | PSAPL1 | prosaposin like 1 (gene/pseudogene) | ![]() |
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2 | 2 | ||||||
MIRT530504 | FADS6 | fatty acid desaturase 6 | ![]() |
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2 | 2 | ||||||
MIRT531437 | PAK1 | p21 (RAC1) activated kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT534445 | SDR16C5 | short chain dehydrogenase/reductase family 16C member 5 | ![]() |
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2 | 2 | ||||||
MIRT537286 | GABPB1 | GA binding protein transcription factor beta subunit 1 | ![]() |
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2 | 2 | ||||||
MIRT538451 | CNNM2 | cyclin and CBS domain divalent metal cation transport mediator 2 | ![]() |
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2 | 2 | ||||||
MIRT543085 | ACTB | actin beta | ![]() |
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2 | 2 | ||||||
MIRT550982 | ZNF254 | zinc finger protein 254 | ![]() |
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2 | 2 | ||||||
MIRT556259 | MAPRE2 | microtubule associated protein RP/EB family member 2 | ![]() |
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2 | 2 | ||||||
MIRT556639 | LAMC1 | laminin subunit gamma 1 | ![]() |
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2 | 2 | ||||||
MIRT559127 | C11orf57 | chromosome 11 open reading frame 57 | ![]() |
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2 | 2 | ||||||
MIRT561405 | TUBB2A | tubulin beta 2A class IIa | ![]() |
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2 | 2 | ||||||
MIRT569677 | SEC23B | Sec23 homolog B, coat complex II component | ![]() |
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2 | 4 | ||||||
MIRT574660 | KLHL15 | kelch like family member 15 | ![]() |
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2 | 2 | ||||||
MIRT575030 | Tecpr2 | tectonin beta-propeller repeat containing 2 | ![]() |
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2 | 5 | ||||||
MIRT617683 | JRKL | JRK like | ![]() |
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2 | 2 | ||||||
MIRT618540 | SEMA5A | semaphorin 5A | ![]() |
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2 | 2 | ||||||
MIRT620805 | C1orf27 | chromosome 1 open reading frame 27 | ![]() |
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2 | 2 | ||||||
MIRT621569 | ZBTB7A | zinc finger and BTB domain containing 7A | ![]() |
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2 | 2 | ||||||
MIRT622133 | SP4 | Sp4 transcription factor | ![]() |
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2 | 2 | ||||||
MIRT624913 | CTCFL | CCCTC-binding factor like | ![]() |
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2 | 2 | ||||||
MIRT625010 | PAK4 | p21 (RAC1) activated kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT626644 | ZNF551 | zinc finger protein 551 | ![]() |
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2 | 2 | ||||||
MIRT626646 | ATP5A1 | ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle | ![]() |
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2 | 2 | ||||||
MIRT626672 | NOM1 | nucleolar protein with MIF4G domain 1 | ![]() |
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2 | 2 | ||||||
MIRT627945 | NNT | nicotinamide nucleotide transhydrogenase | ![]() |
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2 | 2 | ||||||
MIRT627963 | NLK | nemo like kinase | ![]() |
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2 | 2 | ||||||
MIRT628767 | SRSF7 | serine and arginine rich splicing factor 7 | ![]() |
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2 | 2 | ||||||
MIRT629261 | KDM2B | lysine demethylase 2B | ![]() |
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2 | 2 | ||||||
MIRT629422 | ADM2 | adrenomedullin 2 | ![]() |
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2 | 2 | ||||||
MIRT630238 | SORD | sorbitol dehydrogenase | ![]() |
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2 | 2 | ||||||
MIRT631272 | CENPM | centromere protein M | ![]() |
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2 | 4 | ||||||
MIRT631793 | CLK4 | CDC like kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT632058 | ATF7IP | activating transcription factor 7 interacting protein | ![]() |
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2 | 2 | ||||||
MIRT632485 | RPS15A | ribosomal protein S15a | ![]() |
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2 | 2 | ||||||
MIRT632611 | PDP2 | pyruvate dehyrogenase phosphatase catalytic subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT632708 | MTA3 | metastasis associated 1 family member 3 | ![]() |
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2 | 2 | ||||||
MIRT632815 | INO80 | INO80 complex subunit | ![]() |
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2 | 2 | ||||||
MIRT635956 | PLA2G12A | phospholipase A2 group XIIA | ![]() |
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2 | 2 | ||||||
MIRT636152 | UBXN2A | UBX domain protein 2A | ![]() |
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2 | 2 | ||||||
MIRT636899 | C5orf45 | MRN complex interacting protein | ![]() |
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2 | 4 | ||||||
MIRT636930 | AGAP9 | ArfGAP with GTPase domain, ankyrin repeat and PH domain 9 | ![]() |
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2 | 2 | ||||||
MIRT637457 | ZNF324B | zinc finger protein 324B | ![]() |
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2 | 2 | ||||||
MIRT637900 | SLC19A3 | solute carrier family 19 member 3 | ![]() |
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2 | 2 | ||||||
MIRT639826 | ZNF638 | zinc finger protein 638 | ![]() |
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2 | 2 | ||||||
MIRT640445 | ERVMER34-1 | endogenous retrovirus group MER34 member 1, envelope | ![]() |
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2 | 2 | ||||||
MIRT640681 | ARSK | arylsulfatase family member K | ![]() |
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2 | 2 | ||||||
MIRT641611 | CAPN7 | calpain 7 | ![]() |
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2 | 2 | ||||||
MIRT641676 | AKR7A2 | aldo-keto reductase family 7 member A2 | ![]() |
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2 | 2 | ||||||
MIRT646786 | IL23R | interleukin 23 receptor | ![]() |
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2 | 2 | ||||||
MIRT648352 | A2ML1 | alpha-2-macroglobulin like 1 | ![]() |
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2 | 2 | ||||||
MIRT649144 | SPATA5 | spermatogenesis associated 5 | ![]() |
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2 | 2 | ||||||
MIRT649254 | TRIM65 | tripartite motif containing 65 | ![]() |
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2 | 2 | ||||||
MIRT652491 | TMEM178B | transmembrane protein 178B | ![]() |
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2 | 2 | ||||||
MIRT653308 | SMU1 | DNA replication regulator and spliceosomal factor | ![]() |
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2 | 2 | ||||||
MIRT653945 | SEPSECS | Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase | ![]() |
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2 | 2 | ||||||
MIRT654212 | RNF19B | ring finger protein 19B | ![]() |
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2 | 2 | ||||||
MIRT654839 | PPM1L | protein phosphatase, Mg2+/Mn2+ dependent 1L | ![]() |
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2 | 2 | ||||||
MIRT655159 | PHF21A | PHD finger protein 21A | ![]() |
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2 | 2 | ||||||
MIRT655316 | PDCD11 | programmed cell death 11 | ![]() |
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2 | 2 | ||||||
MIRT655375 | PAX3 | paired box 3 | ![]() |
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2 | 2 | ||||||
MIRT657301 | HOXB5 | homeobox B5 | ![]() |
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2 | 2 | ||||||
MIRT657593 | GRIN2A | glutamate ionotropic receptor NMDA type subunit 2A | ![]() |
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2 | 2 | ||||||
MIRT658460 | FAM117B | family with sequence similarity 117 member B | ![]() |
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2 | 2 | ||||||
MIRT658716 | ELOVL4 | ELOVL fatty acid elongase 4 | ![]() |
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2 | 2 | ||||||
MIRT661640 | UGT2B28 | UDP glucuronosyltransferase family 2 member B28 | ![]() |
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2 | 2 | ||||||
MIRT661712 | MTO1 | mitochondrial tRNA translation optimization 1 | ![]() |
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2 | 4 | ||||||
MIRT661833 | ZNF793 | zinc finger protein 793 | ![]() |
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2 | 2 | ||||||
MIRT663805 | BET1L | Bet1 golgi vesicular membrane trafficking protein like | ![]() |
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2 | 2 | ||||||
MIRT663884 | CXorf56 | chromosome X open reading frame 56 | ![]() |
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2 | 2 | ||||||
MIRT664672 | L2HGDH | L-2-hydroxyglutarate dehydrogenase | ![]() |
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2 | 2 | ||||||
MIRT665814 | TMEM168 | transmembrane protein 168 | ![]() |
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2 | 2 | ||||||
MIRT668159 | GDE1 | glycerophosphodiester phosphodiesterase 1 | ![]() |
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2 | 2 | ||||||
MIRT668430 | FAM20B | FAM20B, glycosaminoglycan xylosylkinase | ![]() |
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2 | 2 | ||||||
MIRT672306 | GP2 | glycoprotein 2 | ![]() |
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2 | 2 | ||||||
MIRT673101 | SYNPO2L | synaptopodin 2 like | ![]() |
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2 | 2 | ||||||
MIRT673437 | APAF1 | apoptotic peptidase activating factor 1 | ![]() |
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2 | 2 | ||||||
MIRT673584 | KDELC2 | KDEL motif containing 2 | ![]() |
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2 | 2 | ||||||
MIRT673718 | SLU7 | SLU7 homolog, splicing factor | ![]() |
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2 | 2 | ||||||
MIRT673777 | MRPL17 | mitochondrial ribosomal protein L17 | ![]() |
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2 | 2 | ||||||
MIRT674316 | IMP4 | IMP4, U3 small nucleolar ribonucleoprotein | ![]() |
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2 | 2 | ||||||
MIRT674820 | FAM229B | family with sequence similarity 229 member B | ![]() |
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2 | 2 | ||||||
MIRT675179 | BPTF | bromodomain PHD finger transcription factor | ![]() |
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2 | 2 | ||||||
MIRT675586 | WWC1 | WW and C2 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT675812 | MED28 | mediator complex subunit 28 | ![]() |
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2 | 2 | ||||||
MIRT677632 | ALG1 | ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase | ![]() |
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2 | 2 | ||||||
MIRT683914 | PSMB9 | proteasome subunit beta 9 | ![]() |
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2 | 2 | ||||||
MIRT687135 | QPCTL | glutaminyl-peptide cyclotransferase like | ![]() |
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2 | 2 | ||||||
MIRT691973 | PLCXD1 | phosphatidylinositol specific phospholipase C X domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT693078 | AS3MT | arsenite methyltransferase | ![]() |
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2 | 2 | ||||||
MIRT694084 | RNASEH2B | ribonuclease H2 subunit B | ![]() |
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2 | 2 | ||||||
MIRT696292 | IER3IP1 | immediate early response 3 interacting protein 1 | ![]() |
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2 | 2 | ||||||
MIRT696541 | C3 | complement C3 | ![]() |
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2 | 2 | ||||||
MIRT701955 | MITF | melanogenesis associated transcription factor | ![]() |
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2 | 2 | ||||||
MIRT703276 | GNG12 | G protein subunit gamma 12 | ![]() |
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2 | 2 | ||||||
MIRT706852 | DNAJB13 | DnaJ heat shock protein family (Hsp40) member B13 | ![]() |
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2 | 2 | ||||||
MIRT706993 | XPO5 | exportin 5 | ![]() |
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2 | 2 | ||||||
MIRT710716 | KRTAP6-1 | keratin associated protein 6-1 | ![]() |
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2 | 2 | ||||||
MIRT711305 | ACOX1 | acyl-CoA oxidase 1 | ![]() |
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2 | 2 | ||||||
MIRT711514 | ESCO1 | establishment of sister chromatid cohesion N-acetyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT711648 | LIPG | lipase G, endothelial type | ![]() |
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2 | 2 | ||||||
MIRT711772 | CCDC59 | coiled-coil domain containing 59 | ![]() |
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2 | 2 | ||||||
MIRT714280 | COQ7 | coenzyme Q7, hydroxylase | ![]() |
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2 | 2 | ||||||
MIRT715048 | PRPF38A | pre-mRNA processing factor 38A | ![]() |
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2 | 2 | ||||||
MIRT716934 | INCENP | inner centromere protein | ![]() |
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2 | 2 | ||||||
MIRT717220 | OTUD3 | OTU deubiquitinase 3 | ![]() |
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2 | 2 | ||||||
MIRT717865 | BICD2 | BICD cargo adaptor 2 | ![]() |
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2 | 2 | ||||||
MIRT718836 | SNX20 | sorting nexin 20 | ![]() |
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2 | 2 | ||||||
MIRT720243 | GPBP1 | GC-rich promoter binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT721969 | MCM8 | minichromosome maintenance 8 homologous recombination repair factor | ![]() |
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2 | 2 | ||||||
MIRT724000 | LMTK2 | lemur tyrosine kinase 2 | ![]() |
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2 | 2 | ||||||
MIRT725193 | SDAD1 | SDA1 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT731669 | CBL | Cbl proto-oncogene | ![]() |
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3 | 1 | |||||
MIRT732776 | AQP4 | aquaporin 4 | ![]() |
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3 | 0 | |||||
MIRT733158 | ITGA5 | integrin subunit alpha 5 | ![]() |
1 | 0 | |||||||
MIRT735623 | TLR4 | toll like receptor 4 | ![]() |
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4 | 0 |
miRNA-Drug Associations | ||||||||||||||||||
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