pre-miRNA Information | |
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pre-miRNA | hsa-mir-3120 |
Genomic Coordinates | chr1: 172138808 - 172138888 |
Description | Homo sapiens miR-3120 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||||||||
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Mature miRNA | hsa-miR-3120-5p | |||||||||||||||||||||
Sequence | 13| CCUGUCUGUGCCUGCUGUACA |33 | |||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||
Editing Events in miRNAs |
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DRVs in miRNA |
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SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | CD300E | ||||||||||||||||||||
Synonyms | CD300LE, CLM-2, CLM2, CMRF35-A5, IREM-2, IREM2, PIgR-2, PIgR2 | ||||||||||||||||||||
Description | CD300e molecule | ||||||||||||||||||||
Transcript | NM_181449 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on CD300E | |||||||||||||||||||||
3'UTR of CD300E (miRNA target sites are highlighted) |
>CD300E|NM_181449|3'UTR 1 AGCCAGGCTGACCCGAAGCCCTGCAGAGCCCCATCCCCAGGAGTGCCCCGTGCAGGGAGTCAACCTTTCAGACTGGATGC 81 GAGAGACCTGTGGACTCTGGAGGGATTTATTGTTCCTGTGCCTCAAAGGAGGGTCCTGGCTCTTAGAGGACACTCCTCTG 161 GAGTCCTCAATGTGCAGCTTGGGGGTCCTCCTTTCTCCTCCCCAGTCCCCTGCCTCCCTGCCCTCATGCCCACTTCCCAA 241 GGGCAAGAATTCCCTGGAAGTTGGCCGGGCACCATAGCGAGTGCCTATAATCCCAGCTCAGGAGGCTGAGGCAGGAGGAT 321 CGGCTGAACGTAAGAGTTCCAGGCCAGCCTGGGCAACATAGAGAGCCCTGTCTCAGAGAGAGAGAGAGAGAGAGAGAGAG 401 AGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAAAAGGACGGAGGAAGGGAGGGAAAAAATT 481 TTCTGGAGGAGCCTGGCCCTTCATTCTTCTTGGCACAAATGCTTCTCAGGCCAGTTTCCCCCAGGGCAATAACTACCTCC 561 TTCCTGCAGACAGGAGTCTCCCTGAGGACACACCCCTCACAGCCCCAGCCTTTAGGCTCACAGAGCTCCATCTCTTCTCT 641 GGGACAACCCCAAGGGAGCTTGGTCCCGGCAGAGCTTGCTCATGCAGTTGCCCAGTGTCCCACATGCTCAGGGCTCCTCT 721 CGTCTTCTGACGCCCCTTGGGTCTCCCTGGCTTTAAGGCCCCTTCTCTCCCTGTAACCAGGCAGTGTGTGGCTGGGCTCA 801 GAACATCTCTGCCTGGGTGGGCCGTGGATGAGCTGCTCCAGGTTAAAGTTCTGGGGCGAGTTGAAACAGTAAAGGGAGAA 881 GGAGCTGGTGGGTGCCCCTGATATCACTCCTGGAATTCCCCCACCTGGAGGTGTCCAATGCACAAGGTCAACAGAGTCAG 961 TTCTGTCCACTTTAGAAGTCTGGCTGAGACCACCTGTTAGCAATTAACCTTTTCCACAGGCAGAGCAGATATCGTTTTTC 1041 AAAGACAGGATGGAGGGCACAGAGGTGAAGGATACTTGTCCACACTTGAAGTGCACAGTGCTATCACCACTACTGGTGAC 1121 CCCTGGCTCGGGAATGAGCTCAGTTGGTTTTCTGAATGTTTGTCAATTACTCTGTTTCCCTAAAGTTTGTGGGGAGGACT 1201 CCCACAGTCTGCCACAAGCAAGCATCACCATCTCCACTTGCTACCTACATCTGGACCAGTGCTCCCCCTCTGCCCCCAGG 1281 CCTGAGCTCATCCTGAGCTAGTGATGCCAGTGTCCAGAGCACATGGAGTGACCCTCTGAGTGCCGAGTGCTTAGGCAGAG 1361 CTGCCGTGCTCTGAACTTGAGCTCTGGTGGGGCTCCCAGCTCCATCATGCATGGTGACTAGGGGAAAGATGGGGCTGGCC 1441 CAGGACTCATGCTGAAAGAGAAATTCAATCTAACAAGGCCCATATTAATTATATTAACCCGGGAAATATGATGATGAGCA 1521 AGAAAGGAGCTTATGATTCATTTTATGAGAAGGATAAGCTCCCAAGTCATTACAGCATAGGAAGAACTCTAGAGCCACAA 1601 GAGATGCTTCCTGATGTCAGGGGGTTGGTGAGGAGAATATCATGCCAAGCTGGCCAGGTCAGGGAAAGAAGGTGACATTC 1681 ATGTTGATGTTGAAGGAGGTATAGGATTTCAGCGGAGCAGGGATGGAGCAACAGGGAGAGAGAGAGGACAGAGAAACAGC 1761 ATAAGTGAAAGCAGAGAGGCGGGAAATAATCTTCATAACAATAGTCACTTATAGAAGACCTATCAGCAAATGGACTGTAC 1841 TGTTCACATACAGATGCTCATGGTAGGATGTGTCTAAGATTCCAATGGAGTGAAATTTTCCTGTGGCAGGCCAGATGGAA 1921 CTAATCTAGAAGAACTCAGGTGGTGGCAGGTTCAGGAGGCTTAGGACTCAACTCTTACTTAAACTTTGATTAGCTATGGT 2001 GGGATGGATTTGAGCAGAACAAGATGGGATTGCAGATGTGCTTTAGGAGGACTTGCCTAGCAGATGTAGCAAAGTCTGAA 2081 AGGAAGAATCTGGGAGTCCGGAGTCTTAAGCCTGGAAAACCAGAGGAATCGGGCATCATTGACAGAAGTAGGAAAGTCAA 2161 GAGCAGGCTTGGATGATGCAGAGCTTAGTTTTCTGTGTGTTTGGAATCATCAGGCAGAGAGGTCTAGCAGATAGCTAGAG 2241 ATGTGGGTTAGCAGAGTGTTGAGGGCTGGAGAGGAATGTGTGTAGAGAGATTAACTGGAACCCAGCAAGAAGTGAAAACA 2321 TGGAGGGAAGAGTTCAGAACCAAGGACAGAGCCCTCGGGGCACCTGCATTTAAAGACAAAGGGTAGGAGGAAGACATTGA 2401 TCAAGGTGCTGGAGCAGAATCAAACAGGTGGAAGATGAGAAGTCAAGAGCCATGAATGTTTCAAGGAGGAGAGCAGAGCT 2481 AGAGAGGTGGAGGAGGACCGGGATTGAGAGGAGGCTATTGAACTTATCATTCACAAGGTCACTAATGAAGTTCAGAAGAG 2561 CAGATCAACAGAGCAATGACAGCAGAAGCCAGAAGAGAAGAGTTAAGAAAGAGTAGACAGATGGCAGACAGCAGGTGCAG 2641 GAGAAACAAACAGTGGCTTCTCCATGCTTTGAATTTTCCCTTCTCCCTTACTCCCTTTTTTTCCCCTATTCTTCCTTTCT 2721 TTTTTCCCTTTATTTACTCATTCATTCAATAAACTTTTATTGTGTGTCTA 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 | HEK293/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 GSM1067869. RNA binding protein: AGO2. Condition:Ago2 IP-seq (asynchronous cells)
HITS-CLIP data was present in GSM1067870. RNA binding protein: AGO2. Condition:Ago2 IP-seq (mitotic cells)
... - Kishore S; Gruber AR; Jedlinski DJ; Syed et al., 2013, Genome biology. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Kishore S; Gruber AR; Jedlinski DJ; Syed et al. - Genome biology, 2013
BACKGROUND: In recent years, a variety of small RNAs derived from other RNAs with well-known functions such as tRNAs and snoRNAs, have been identified. The functional relevance of these RNAs is largely unknown. To gain insight into the complexity of snoRNA processing and the functional relevance of snoRNA-derived small RNAs, we sequence long and short RNAs, small RNAs that co-precipitate with the Argonaute 2 protein and RNA fragments obtained in photoreactive nucleotide-enhanced crosslinking and immunoprecipitation (PAR-CLIP) of core snoRNA-associated proteins. RESULTS: Analysis of these data sets reveals that many loci in the human genome reproducibly give rise to C/D box-like snoRNAs, whose expression and evolutionary conservation are typically less pronounced relative to the snoRNAs that are currently cataloged. We further find that virtually all C/D box snoRNAs are specifically processed inside the regions of terminal complementarity, retaining in the mature form only 4-5 nucleotides upstream of the C box and 2-5 nucleotides downstream of the D box. Sequencing of the total and Argonaute 2-associated populations of small RNAs reveals that despite their cellular abundance, C/D box-derived small RNAs are not efficiently incorporated into the Ago2 protein. CONCLUSIONS: We conclude that the human genome encodes a large number of snoRNAs that are processed along the canonical pathway and expressed at relatively low levels. Generation of snoRNA-derived processing products with alternative, particularly miRNA-like, functions appears to be uncommon.
LinkOut: [PMID: 23706177]
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Experimental Support 2 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 GSM1084044. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep3
HITS-CLIP data was present in GSM1084045. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep3
HITS-CLIP data was present in GSM1084046. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep4
HITS-CLIP data was present in GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4
HITS-CLIP data was present in GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb
HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb
HITS-CLIP data was present in GSM1084066. RNA binding protein: AGO2. Condition:CLIP_noemetine_SantaCruzAb
HITS-CLIP data was present in GSM1084067. RNA binding protein: AGO2. Condition:CLIP_emetine_SantaCruzAb
HITS-CLIP data was present in GSM1084068. RNA binding protein: AGO2. Condition:CLIP_noemetine_SigmaAb
HITS-CLIP data was present in GSM1084069. RNA binding protein: AGO2. Condition:CLIP_emetine_SigmaAb
HITS-CLIP data was present in GSM1084072. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_AbnovaAb
HITS-CLIP data was present in GSM1084073. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_AbnovaAb
HITS-CLIP data was present in GSM1084074. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_SantaCruzAb
HITS-CLIP data was present in GSM1084075. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_SantaCruzAb
HITS-CLIP data was present in GSM1084076. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_SigmaAb
HITS-CLIP data was present in GSM1084077. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_SigmaAb
HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb
HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_AbnovaAb
HITS-CLIP data was present in GSM1084080. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_SantaCruzAb
HITS-CLIP data was present in GSM1084082. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_SigmaAb
HITS-CLIP data was present in GSM1084083. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_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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Experimental Support 3 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | MDA-MB-231 |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
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HITS-CLIP data was present in GSM1395169. RNA binding protein: AGO. Condition:MDA-MB-231 AGO HITS-CLIP Replicate 1
... - Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al., 2014, Breast cancer research and treatment. |
Article |
- Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al. - Breast cancer research and treatment, 2014
miRNAs regulate the expression of genes in both normal physiology and disease. While miRNAs have been demonstrated to play a pivotal role in aspects of cancer biology, these reports have generally focused on the regulation of single genes. Such single-gene approaches have significant limitations, relying on miRNA expression levels and heuristic predictions of mRNA-binding sites. This results in only circumstantial evidence of miRNA-target interaction and typically leads to large numbers of false positive predictions. Here, we used a genome-wide approach (high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation, HITS-CLIP) to define direct miRNA-mRNA interactions in three breast cancer subtypes (estrogen receptor positive, Her2 amplified, and triple negative). Focusing on steroid receptor signaling, we identified two novel regulators of the ER pathway (miR-9-5p and miR-193a/b-3p), which together target multiple genes involved in ER signaling. Moreover, this approach enabled the definition of miR-9-5p as a global regulator of steroid receptor signaling in breast cancer. We show that miRNA targets and networks defined by HITS-CLIP under physiologic conditions are predictive of patient outcomes and provide global insight into miRNA regulation in breast cancer.
LinkOut: [PMID: 24906430]
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Experimental Support 4 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | Cardiac Tissues |
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 GSM2202477. RNA binding protein: AGO2. Condition:S2_LV_25yo_Male_AGO2_bound_RNA
... - Spengler RM; Zhang X; Cheng C; McLendon JM; et al., 2016, Nucleic acids research. |
Article |
Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP.
- Spengler RM; Zhang X; Cheng C; McLendon JM; et al.- Nucleic acids research, 2016
MicroRNAs (miRs) have emerged as key biological effectors in human health and disease. These small noncoding RNAs are incorporated into Argonaute (Ago) proteins, where they direct post-transcriptional gene silencing via base-pairing with target transcripts. Although miRs have become intriguing biological entities and attractive therapeutic targets, the translational impacts of miR research remain limited by a paucity of empirical miR targeting data, particularly in human primary tissues. Here, to improve our understanding of the diverse roles miRs play in cardiovascular function and disease, we applied high-throughput methods to globally profile miR:target interactions in human heart tissues. We deciphered Ago2:RNA interactions using crosslinking immunoprecipitation coupled with high-throughput sequencing (HITS-CLIP) to generate the first transcriptome-wide map of miR targeting events in human myocardium, detecting 4000 cardiac Ago2 binding sites across >2200 target transcripts. Our initial exploration of this interactome revealed an abundance of miR target sites in gene coding regions, including several sites pointing to new miR-29 functions in regulating cardiomyocyte calcium, growth and metabolism. Also, we uncovered several clinically-relevant interactions involving common genetic variants that alter miR targeting events in cardiomyopathy-associated genes. Overall, these data provide a critical resource for bolstering translational miR research in heart, and likely beyond.
LinkOut: [PMID: 27418678]
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CLIP-seq Support 1 for dataset GSM4903835 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_c |
Location of target site | NM_181449 | 3UTR | GAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1067869 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293/HeLa / Ago2 IP-seq (asynchronous cells) |
Location of target site | ENST00000392619.1 | 3UTR | GAGAGAGAGAGAGAGAGAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23706177 / GSE43666 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM1067870 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293/HeLa / Ago2 IP-seq (mitotic cells) |
Location of target site | ENST00000392619.1 | 3UTR | AGAGAGAGAGAGAGAGACAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23706177 / GSE43666 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM1084044 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noarsenite_rep3 |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 5 for dataset GSM1084045 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep3 |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 6 for dataset GSM1084045 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep3 |
Location of target site | ENST00000392619.1 | 3UTR | AGAGAGAGAGAGAGAGAGAGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 7 for dataset GSM1084046 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noarsenite_rep4 |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 8 for dataset GSM1084047 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep4 |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 9 for dataset GSM1084064 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 10 for dataset GSM1084065 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAAAAGGAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 11 for dataset GSM1084066 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_SantaCruzAb |
Location of target site | ENST00000392619.1 | 3UTR | GAGACAGAGAGAGAGAGAGAGAGAGAGCG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 12 for dataset GSM1084067 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_SantaCruzAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 13 for dataset GSM1084068 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGAAAAGGAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 14 for dataset GSM1084069 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | GAGAGCCCUGUCUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 15 for dataset GSM1084072 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep1_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | UCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 16 for dataset GSM1084073 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep1_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAUAGAGAGCCCUGUCUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 17 for dataset GSM1084074 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep1_SantaCruzAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 18 for dataset GSM1084075 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep1_SantaCruzAb |
Location of target site | ENST00000392619.1 | 3UTR | AGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 19 for dataset GSM1084076 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep1_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 20 for dataset GSM1084077 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep1_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | GAGAGAGAGAGAGAGAGAGAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 21 for dataset GSM1084078 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | CUCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 22 for dataset GSM1084079 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 23 for dataset GSM1084082 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 24 for dataset GSM1084083 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_SigmaAb |
Location of target site | ENST00000392619.1 | 3UTR | CAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 25 for dataset GSM1395169 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | MDA-MB-231 / MDA-MB-231 AGO HITS-CLIP Replicate 1 |
Location of target site | ENST00000392619.1 | 3UTR | GAGAGAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGAGAGA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 24906430 / GSE57855 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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134 hsa-miR-3120-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT096972 | BDP1 | B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB | ![]() |
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2 | 2 | ||||||
MIRT442624 | LOX | lysyl oxidase | ![]() |
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2 | 2 | ||||||
MIRT473438 | MDM4 | MDM4, p53 regulator | ![]() |
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2 | 2 | ||||||
MIRT490011 | KIFC2 | kinesin family member C2 | ![]() |
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2 | 2 | ||||||
MIRT496449 | N6AMT1 | N-6 adenine-specific DNA methyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT496752 | TGIF2 | TGFB induced factor homeobox 2 | ![]() |
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2 | 2 | ||||||
MIRT497721 | CYP1A1 | cytochrome P450 family 1 subfamily A member 1 | ![]() |
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2 | 2 | ||||||
MIRT498287 | PADI3 | peptidyl arginine deiminase 3 | ![]() |
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2 | 2 | ||||||
MIRT503195 | ACVR1B | activin A receptor type 1B | ![]() |
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2 | 4 | ||||||
MIRT504760 | TEP1 | telomerase associated protein 1 | ![]() |
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2 | 4 | ||||||
MIRT517810 | UGDH | UDP-glucose 6-dehydrogenase | ![]() |
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2 | 6 | ||||||
MIRT519686 | ZNF622 | zinc finger protein 622 | ![]() |
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2 | 4 | ||||||
MIRT520263 | URGCP | upregulator of cell proliferation | ![]() |
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2 | 2 | ||||||
MIRT523051 | ICMT | isoprenylcysteine carboxyl methyltransferase | ![]() |
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2 | 2 | ||||||
MIRT525601 | OLR1 | oxidized low density lipoprotein receptor 1 | ![]() |
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2 | 4 | ||||||
MIRT526995 | ARL8B | ADP ribosylation factor like GTPase 8B | ![]() |
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2 | 2 | ||||||
MIRT528699 | TRAF3IP2 | TRAF3 interacting protein 2 | ![]() |
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2 | 4 | ||||||
MIRT533142 | WNT10A | Wnt family member 10A | ![]() |
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2 | 2 | ||||||
MIRT537618 | ERI1 | exoribonuclease 1 | ![]() |
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2 | 2 | ||||||
MIRT539707 | EIF3H | eukaryotic translation initiation factor 3 subunit H | ![]() |
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2 | 2 | ||||||
MIRT539752 | CNBP | CCHC-type zinc finger nucleic acid binding protein | ![]() |
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2 | 2 | ||||||
MIRT539808 | GAPVD1 | GTPase activating protein and VPS9 domains 1 | ![]() |
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2 | 2 | ||||||
MIRT539941 | IFNAR2 | interferon alpha and beta receptor subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT540424 | FAM83F | family with sequence similarity 83 member F | ![]() |
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2 | 2 | ||||||
MIRT540509 | CXCL10 | C-X-C motif chemokine ligand 10 | ![]() |
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2 | 2 | ||||||
MIRT540720 | GUF1 | GUF1 homolog, GTPase | ![]() |
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2 | 2 | ||||||
MIRT541630 | PARP2 | poly(ADP-ribose) polymerase 2 | ![]() |
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2 | 2 | ||||||
MIRT542286 | POLR3K | RNA polymerase III subunit K | ![]() |
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2 | 2 | ||||||
MIRT542456 | AKR7A2 | aldo-keto reductase family 7 member A2 | ![]() |
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2 | 2 | ||||||
MIRT542550 | MRPS10 | mitochondrial ribosomal protein S10 | ![]() |
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2 | 2 | ||||||
MIRT542771 | PPAP2B | phospholipid phosphatase 3 | ![]() |
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2 | 2 | ||||||
MIRT550085 | TRAPPC2 | trafficking protein particle complex 2 | ![]() |
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2 | 2 | ||||||
MIRT551458 | CARKD | NAD(P)HX dehydratase | ![]() |
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2 | 2 | ||||||
MIRT555622 | PHLPP2 | PH domain and leucine rich repeat protein phosphatase 2 | ![]() |
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2 | 2 | ||||||
MIRT569136 | KATNAL1 | katanin catalytic subunit A1 like 1 | ![]() |
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2 | 2 | ||||||
MIRT572328 | HSPB6 | heat shock protein family B (small) member 6 | ![]() |
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2 | 2 | ||||||
MIRT574607 | LZIC | leucine zipper and CTNNBIP1 domain containing | ![]() |
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2 | 2 | ||||||
MIRT575583 | Mcm8 | minichromosome maintenance 8 homologous recombination repair factor | ![]() |
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2 | 4 | ||||||
MIRT576125 | Hrk | harakiri, BCL2 interacting protein (contains only BH3 domain) | ![]() |
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2 | 5 | ||||||
MIRT576657 | Fam216a | family with sequence similarity 216, member A | ![]() |
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2 | 2 | ||||||
MIRT607222 | ACSM2A | acyl-CoA synthetase medium chain family member 2A | ![]() |
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2 | 4 | ||||||
MIRT607292 | CD300E | CD300e molecule | ![]() |
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2 | 6 | ||||||
MIRT607746 | ANGPT4 | angiopoietin 4 | ![]() |
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2 | 2 | ||||||
MIRT607905 | SPRYD4 | SPRY domain containing 4 | ![]() |
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2 | 2 | ||||||
MIRT608159 | HRK | harakiri, BCL2 interacting protein | ![]() |
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2 | 7 | ||||||
MIRT608657 | ABCF3 | ATP binding cassette subfamily F member 3 | ![]() |
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2 | 4 | ||||||
MIRT609115 | ZNF703 | zinc finger protein 703 | ![]() |
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2 | 6 | ||||||
MIRT610231 | ACOT9 | acyl-CoA thioesterase 9 | ![]() |
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2 | 2 | ||||||
MIRT610870 | NUDCD3 | NudC domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT611217 | MC2R | melanocortin 2 receptor | ![]() |
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2 | 2 | ||||||
MIRT614858 | PLEKHA6 | pleckstrin homology domain containing A6 | ![]() |
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2 | 2 | ||||||
MIRT616966 | LMX1A | LIM homeobox transcription factor 1 alpha | ![]() |
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2 | 2 | ||||||
MIRT617258 | GLIPR1L2 | GLI pathogenesis related 1 like 2 | ![]() |
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2 | 2 | ||||||
MIRT618009 | SLC9A3R2 | SLC9A3 regulator 2 | ![]() |
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2 | 2 | ||||||
MIRT619067 | BSND | barttin CLCNK type accessory beta subunit | ![]() |
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2 | 4 | ||||||
MIRT619295 | FAM26E | calcium homeostasis modulator family member 5 | ![]() |
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2 | 2 | ||||||
MIRT619348 | GINM1 | glycoprotein integral membrane 1 | ![]() |
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2 | 2 | ||||||
MIRT619362 | CFHR5 | complement factor H related 5 | ![]() |
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2 | 2 | ||||||
MIRT619541 | PIWIL2 | piwi like RNA-mediated gene silencing 2 | ![]() |
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2 | 2 | ||||||
MIRT619782 | NRIP2 | nuclear receptor interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT619994 | NPAP1 | nuclear pore associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT621030 | CDC14B | cell division cycle 14B | ![]() |
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2 | 2 | ||||||
MIRT622033 | STAT5A | signal transducer and activator of transcription 5A | ![]() |
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2 | 2 | ||||||
MIRT622728 | PITPNM3 | PITPNM family member 3 | ![]() |
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2 | 2 | ||||||
MIRT623144 | NAV2 | neuron navigator 2 | ![]() |
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2 | 2 | ||||||
MIRT623600 | IPO9 | importin 9 | ![]() |
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2 | 2 | ||||||
MIRT624608 | B3GALT5 | beta-1,3-galactosyltransferase 5 | ![]() |
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2 | 2 | ||||||
MIRT624905 | CTCFL | CCCTC-binding factor like | ![]() |
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2 | 2 | ||||||
MIRT625030 | SPC24 | SPC24, NDC80 kinetochore complex component | ![]() |
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2 | 2 | ||||||
MIRT625688 | MCM8 | minichromosome maintenance 8 homologous recombination repair factor | ![]() |
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2 | 5 | ||||||
MIRT626531 | EMCN | endomucin | ![]() |
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2 | 2 | ||||||
MIRT627204 | ZDHHC20 | zinc finger DHHC-type containing 20 | ![]() |
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2 | 2 | ||||||
MIRT628033 | LSAMP | limbic system-associated membrane protein | ![]() |
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2 | 2 | ||||||
MIRT628203 | FREM2 | FRAS1 related extracellular matrix protein 2 | ![]() |
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2 | 2 | ||||||
MIRT631012 | LINS | lines homolog 1 | ![]() |
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2 | 2 | ||||||
MIRT633195 | HSPE1-MOB4 | HSPE1-MOB4 readthrough | ![]() |
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2 | 2 | ||||||
MIRT633890 | CACNG8 | calcium voltage-gated channel auxiliary subunit gamma 8 | ![]() |
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2 | 2 | ||||||
MIRT634023 | MOB4 | MOB family member 4, phocein | ![]() |
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2 | 2 | ||||||
MIRT634416 | PLCXD3 | phosphatidylinositol specific phospholipase C X domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT636866 | ARSE | arylsulfatase E (chondrodysplasia punctata 1) | ![]() |
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2 | 2 | ||||||
MIRT642527 | ANKRD9 | ankyrin repeat domain 9 | ![]() |
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2 | 2 | ||||||
MIRT645408 | FAM110A | family with sequence similarity 110 member A | ![]() |
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2 | 2 | ||||||
MIRT645635 | SYTL4 | synaptotagmin like 4 | ![]() |
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2 | 2 | ||||||
MIRT646013 | TNFAIP8L2 | TNF alpha induced protein 8 like 2 | ![]() |
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2 | 2 | ||||||
MIRT646686 | ASGR2 | asialoglycoprotein receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT652838 | TACO1 | translational activator of cytochrome c oxidase I | ![]() |
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2 | 2 | ||||||
MIRT655156 | PHF21B | PHD finger protein 21B | ![]() |
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2 | 2 | ||||||
MIRT658491 | EXOC7 | exocyst complex component 7 | ![]() |
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2 | 2 | ||||||
MIRT659398 | CORO2A | coronin 2A | ![]() |
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2 | 2 | ||||||
MIRT666825 | PRCP | prolylcarboxypeptidase | ![]() |
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2 | 2 | ||||||
MIRT666866 | POU2F2 | POU class 2 homeobox 2 | ![]() |
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2 | 2 | ||||||
MIRT668224 | GABRA1 | gamma-aminobutyric acid type A receptor alpha1 subunit | ![]() |
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2 | 2 | ||||||
MIRT673288 | PDE3A | phosphodiesterase 3A | ![]() |
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2 | 2 | ||||||
MIRT673878 | KLF2 | Kruppel like factor 2 | ![]() |
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2 | 2 | ||||||
MIRT681721 | KCNE4 | potassium voltage-gated channel subfamily E regulatory subunit 4 | ![]() |
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2 | 2 | ||||||
MIRT682406 | PARD6B | par-6 family cell polarity regulator beta | ![]() |
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2 | 2 | ||||||
MIRT684109 | MCM10 | minichromosome maintenance 10 replication initiation factor | ![]() |
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2 | 2 | ||||||
MIRT684423 | TUFT1 | tuftelin 1 | ![]() |
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2 | 2 | ||||||
MIRT684684 | OR7D2 | olfactory receptor family 7 subfamily D member 2 | ![]() |
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2 | 2 | ||||||
MIRT686638 | TMEM184C | transmembrane protein 184C | ![]() |
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2 | 2 | ||||||
MIRT689457 | NXN | nucleoredoxin | ![]() |
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2 | 2 | ||||||
MIRT689627 | NAA30 | N(alpha)-acetyltransferase 30, NatC catalytic subunit | ![]() |
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2 | 2 | ||||||
MIRT690773 | PLA2G2C | phospholipase A2 group IIC | ![]() |
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2 | 2 | ||||||
MIRT690822 | SGSM2 | small G protein signaling modulator 2 | ![]() |
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2 | 2 | ||||||
MIRT693669 | MXRA7 | matrix remodeling associated 7 | ![]() |
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2 | 2 | ||||||
MIRT695553 | CLPB | ClpB homolog, mitochondrial AAA ATPase chaperonin | ![]() |
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2 | 2 | ||||||
MIRT695872 | C19orf52 | translocase of inner mitochondrial membrane 29 | ![]() |
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2 | 2 | ||||||
MIRT698160 | TNFRSF13C | TNF receptor superfamily member 13C | ![]() |
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2 | 2 | ||||||
MIRT699933 | RUFY2 | RUN and FYVE domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT708639 | UBE2W | ubiquitin conjugating enzyme E2 W | ![]() |
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2 | 2 | ||||||
MIRT710816 | RAB11FIP4 | RAB11 family interacting protein 4 | ![]() |
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2 | 2 | ||||||
MIRT711242 | TRAT1 | T-cell receptor associated transmembrane adaptor 1 | ![]() |
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2 | 2 | ||||||
MIRT711542 | MSH3 | mutS homolog 3 | ![]() |
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2 | 2 | ||||||
MIRT711749 | DTX1 | deltex E3 ubiquitin ligase 1 | ![]() |
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2 | 2 | ||||||
MIRT712303 | PGM2L1 | phosphoglucomutase 2 like 1 | ![]() |
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2 | 2 | ||||||
MIRT712922 | RPF2 | ribosome production factor 2 homolog | ![]() |
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2 | 2 | ||||||
MIRT714027 | SYDE2 | synapse defective Rho GTPase homolog 2 | ![]() |
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2 | 2 | ||||||
MIRT714768 | TERF1 | telomeric repeat binding factor 1 | ![]() |
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2 | 2 | ||||||
MIRT714844 | ADAMTS17 | ADAM metallopeptidase with thrombospondin type 1 motif 17 | ![]() |
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2 | 2 | ||||||
MIRT715223 | NPVF | neuropeptide VF precursor | ![]() |
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2 | 2 | ||||||
MIRT716110 | GMPS | guanine monophosphate synthase | ![]() |
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2 | 2 | ||||||
MIRT716174 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT716383 | C6orf223 | chromosome 6 open reading frame 223 | ![]() |
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2 | 2 | ||||||
MIRT716527 | KSR2 | kinase suppressor of ras 2 | ![]() |
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2 | 2 | ||||||
MIRT716962 | P2RY6 | pyrimidinergic receptor P2Y6 | ![]() |
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2 | 2 | ||||||
MIRT717605 | DSTYK | dual serine/threonine and tyrosine protein kinase | ![]() |
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2 | 2 | ||||||
MIRT717696 | PTGS1 | prostaglandin-endoperoxide synthase 1 | ![]() |
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2 | 2 | ||||||
MIRT721360 | ENTHD1 | ENTH domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT721381 | MACC1 | MACC1, MET transcriptional regulator | ![]() |
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2 | 2 | ||||||
MIRT721935 | RASSF2 | Ras association domain family member 2 | ![]() |
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2 | 2 | ||||||
MIRT722094 | SUSD1 | sushi domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT722837 | C17orf102 | chromosome 17 open reading frame 102 | ![]() |
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2 | 2 | ||||||
MIRT722990 | TOR1A | torsin family 1 member A | ![]() |
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2 | 2 | ||||||
MIRT724174 | ABCF2 | ATP binding cassette subfamily F member 2 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||
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