| pre-miRNA Information | |
|---|---|
| pre-miRNA | hsa-mir-3622a |
| Genomic Coordinates | chr8: 27701677 - 27701759 |
| Description | Homo sapiens miR-3622a stem-loop |
| Comment | None |
| RNA Secondary Structure |  |
| Mature miRNA Information | ||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Mature miRNA | hsa-miR-3622a-5p | |||||||||||||||||||||||||||||||||||
| Sequence | 14| CAGGCACGGGAGCUCAGGUGAG |35 | |||||||||||||||||||||||||||||||||||
| Evidence | Experimental | |||||||||||||||||||||||||||||||||||
| Experiments | Illumina | |||||||||||||||||||||||||||||||||||
| Editing Events in miRNAs |
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| SNPs in miRNA |
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| Putative Targets | ||||||||||||||||||||||||||||||||||||
| miRNA Expression profile | |
|---|---|
| Human miRNA Tissue Atlas | |
| miRNAs in Extracellular Vesicles |
|
| Circulating MicroRNA Expression Profiling | |
| Gene Information | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene Symbol | C15orf52 | ||||||||||||||||||||
| Synonyms | - | ||||||||||||||||||||
| Description | chromosome 15 open reading frame 52 | ||||||||||||||||||||
| Transcript | NM_207380 | ||||||||||||||||||||
| Expression | |||||||||||||||||||||
| Putative miRNA Targets on C15orf52 | |||||||||||||||||||||
| 3'UTR of C15orf52 (miRNA target sites are highlighted) |
>C15orf52|NM_207380|3'UTR 1 ACACAGCTCCTGGGAGCTGGGGAGTCCCCGGGGAGAGGAAAAGGGAATCACTCTGTTAAAGGCCCTCCGCGTGATGGCCA 81 TGTGGTTGCCGGTGGCTTGCGCCATTGTCACTGAGCAGTGTGGCAAACTCTCCAGCATGGCGACCTTGTGAGGGCAAGGA 161 GTGGCCTCCCTGCACCTCACACGCTCATCTCTGTGCACATGTGTGTTTTCACGCACGGGCACAGCCCCTGGTGTATTCCT 241 GTACTAGTATCTGGCATCTGAGGCTGGTGCACCCTGACCTGGGCCTACTGCTGCCCAGGCCACAAGCCTTCTCCACTATG 321 ATGAGAGAACAAGGCTTGGTGGCACCCAGCACCTGGCTCTCCTGGCTCCCCGTCACCCCCCCAGGGCCTGGCCTCCCTCT 401 CCAGCTGCAGGCTTTCACCTCTTGCCTGGGCTGGATTCCCCCAGTCCCAGATTCCCAGGATGCCCAACCAGGGGAATCCC 481 AGTAACCATGCGCCAGCCTCCTGCCTCTCCTGAGTGGTGGCTGAGGCCTGGAGGAGGAGAGGCCACACAGCTGGCAGGGT 561 CTGGCCTGGGCAAAGAAGAGTAGAGCTCACGTCTTCTTGGTGAAAAGGAGGATCTCTGGAAAGTCCTCCTCTCTGAAATG 641 GGTTGGGATGGGGAGCGACAACCTCCTCTTCCCACAGCAGGATGGGAGAGCTTACTCCCAGGCCCCCACACCCAGGTCAG 721 ACATCACGTGCACCCTGAATGTAGGCAAGGGCCTGGCCCTGCAGCCCAGGGTCATTTCCTGCTCTTTCCACTTCCTCTTT 801 CCCCACCGTCCTGCACTAGCACCAGGGCCAGGCCAAGGCAAGAATCAGACAGCTACTCCACAGACAGAGAAACAACTTCC 881 AGCTAAGTATGACATCAGGACTTGTCTTTCCTACTAAGCCTCCATCCCCGCCCCTCCCCTGAGGCCCACGTCTGCTGAAT 961 TATCCGGACTCCGCACAAGCTGTGGCTTCCTCTCAGTTCAACAAACATTTCCTGAGCACCCACTACCAGTAATCCAGCCG 1041 GTAGGCGACGGAGACTGCCAGCAGGAGGGAGGGAAGAAAGCCAGTCATCCGGCAGATCTGGGCTGTTCTGGGCGGGAGCT 1121 GTTCTGGGCCACAGGTGCCCTACAGGGCTGGGGGCAGGATGGCGGTAGGAGCCCCAGGGGACCCTCCCACCTCTGCCTGG 1201 CAGAAGCAAGTGCCCTTCTTTCTTGTTATGTGTGCCTTCTGCTCCTGAGCCCTAGTGTGGACCTCACCGCATGGTCCCCT 1281 CTGCCCCCTCCTTCTGGTCCTGCCATGGCTGCTGCTCTCTGCTGAAGGCTGTGGGGCTCTAGGGAGAGTCCAGATCACCC 1361 TGGGATTTCTCCACTGCCCAATGTGAAGCCTAAACTGTGGGGTCCCAGCTCAGCCTTCCTCACTGGCTCTCAACTCCACC 1441 CCACCCCTCTATTCAGGAAGGTGAGGGGCATCTCTTTAGCAGACCAGACTGTTTTGAGAAGTGTCTCTCATACTTTAACT 1521 GAAGAGTCATGCAGATTCTAATGGTCTGGGGAGGGCCTGAGAGTTCGTCTTTTTTTTTTTTTTTTTTTTTTAGTTAGGGT 1601 CCTGCTGTTATCACCTAGGCTGGAGTGCAGTGGCACAATCATGGCTCACTGCAGCCTCGAACCCTCCAGGCTCAGGCGAT 1681 CCTCTCACATCAACCTCTTGAGTAGCCGGGACTACAGGTGTGCCACCACACCTGGCTAATTTTTGTATTTTTTGTAGAGG 1761 CAGGGTTTCACCATGTTGCCCAGGCTGGTCTCCAACTCCTGGGCTCAAGCAATCTGCTCGCCTTGGCCTCCTAAACTGCT 1841 GGGATTACAGGCATGAGCCACCACACCTGGCCGAGAATTCGTATTTCTAAGAGGCTTCAGGTGAAGCCCATGCTGGTTCC 1921 TGGACCATGGTTTTGAGTAGTTAAGGGTTTGGACTAGAATATATGAAGGGCTGGGGGTGAAGACAGACTCTAGACTCTAA 2001 AGGTTGGTGGCTGGCTATGTAGGGGATGGGGGAGTGCTACCCCTGTCAGGTGGTGGGGGCTTCCTGGCTGCAGAGTTGGG 2081 TGGGAGACTTGGGGAAGATGCTTTGGAAGGCAGTGAGTGGGTGGTGTCAACTTCTAGTAGTGCAGTGGGAGAGCTGGTCA 2161 GGGATGGGATGGAGTGAAGGGGGCAGAGGCATTTGGTGTGGGGTTGATCAGAGGAATTTTGGAAAGGCTTGGAAACATTC 2241 CTATGTATGTGAGACACACCTATGCCAGGGCAAAGACTCCAAGCTCAAGTTTTTCTCTTGCCTTCTAGTCACAAGAACAT 2321 GGCTTTGGAGTGTGACACTGGCCTAGGAATCCATGACTCCCAAAGGACGGGGCTAGGGGTAGAGGAGGTTCAGGCAAAGC 2401 CCTTAGATTTTGGAGACATCAGGCAGATGTCTCCAAAAATGATTGTGATCAAGAATCTGAATTATAAGATTCACAGTCTG 2481 CTCCCCAACCCAGTGCTGCCAACTGTACAGCTGCGCCTCCACGAAGGGGCATATGCCAGGCTCGTCTGACCCTGGAATGA 2561 GGATGTAGGAAGCAGGCAGAGCTCGGGTTCAGCCCTCACAATGGGACTGAAGCAGGAGAGAAGGCTGGGCAGAAGGGCTG 2641 TGGGGAAGTAGGGCTTGTCTCCATGGATGACGTCCAGAAGGATGTCAGGAGGAGGAATATCACAGGAGTTATAGACATTG 2721 GAGGGAACAGAGACTGGCACAGGACCTCTTCATTGCAGGAAGATGGTAGTGTAGGCAGGTAACATTGAGCTCTTTTCAAA 2801 AAAGGAGAGCTCTTCTTCAAGATAAGGAAGTGGTAGTTATGGTGGTAACCCCCGGCTATCAGTCCGGATGGTTGCCACCC 2881 CTCCTGCTGTAGGATGGAAGCAGCCATGGAGTGGGAGGGAGGCGCAATAAGACACCCCTCCACAGAGCTTGGCATCATGG 2961 GAAGCTGGTTCTACCTCTTCCTGGCTCCTTTGTTTAAAGGCCTGGCTGGGAGCCTTCCTTTTGGGTGTCTTTCTCTTCTC 3041 CAACCAACAGAAAAGACTGCTCTTCAAAGGTGGAGGGTCTTCATGAAACACAGCTGCCAGGAGCCCAGGCACAGGGCTGG 3121 GGGCCTGGAAAAAGGAGGGCACACAGGAGGAGGGAGGAGCTGGTAGGGAGATGCTGGCTTTACCTAAGGTCTCGAAACAA 3201 GGAGGGCAGAATAGGCAGAGGCCTCTCCGTCCCAGGCCCATTTTTGACAGATGGCGGGACGGAAATGCAATAGACCAGCC 3281 TGCAAGAAAGACATGTGTTTTGATGACAGGCAGTGTGGCCGGGTGGAACAAGCACAGGCCTTGGAATCCAATGGACTGAA 3361 TCAGAACCCTAGGCCTGCCATCTGTCAGCCGGGTGACCTGGGTCAATTTTAGCCTCTAAAAGCCTCAGTCTCCTTATCTG 3441 CAAAATGAGGCTTGTGATACCTGTTTTGAAGGGTTGCTGAGAAAATTAAAGATAAGGGTATCCAAAATAGTCTACGGCCA 3521 TACCACCCTGAACGTGCCTAATCTCGTAAGCTAAGCAGGGTCAGGCCTGGTTAGTACCTGGATGGGGAGAGTATGGAAAA 3601 CATACCTGCCCGCAGTTGGAGTTGGACTCTGTCTTAACAGTAGCGTGGCACACAGAAGGCACTCAGTAAATACTTGTTGA 3681 ATAAATGAAGTAGCGATTTGGTGTGAAAAAAAAAAAAAAAAAA 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 | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | HEK293 |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
PAR-CLIP data was present in GSM545212. RNA binding protein: AGO1. Condition:Control
PAR-CLIP data was present in GSM545213. RNA binding protein: AGO2. Condition:Control
PAR-CLIP data was present in GSM545214. RNA binding protein: AGO3. Condition:Control
PAR-CLIP data was present in GSM545215. RNA binding protein: AGO4. Condition:Control
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
| Article |
- Hafner M; Landthaler M; Burger L; Khorshid et al. - Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
|
| Experimental Support 2 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | C8166 , TZM-bl |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
PAR-CLIP data was present in GSM1462572. RNA binding protein: AGO2. Condition:C8166 NL4-3
PAR-CLIP data was present in GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl BaL
... - Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio. |
| Article |
- Whisnant AW; Bogerd HP; Flores O; Ho P; et al. - mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
|
| Experimental Support 3 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | HCT116 |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
PAR-CLIP data was present in ERX177599. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_1
PAR-CLIP data was present in ERX177611. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_1
PAR-CLIP data was present in ERX177615. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_5
PAR-CLIP data was present in ERX177618. RNA binding protein: AGO2. Condition:KO_V_AGO_CLIP_3_8
PAR-CLIP data was present in ERX177630. RNA binding protein: AGO2. Condition:KO_V_AGO_CLIP_4_8
PAR-CLIP data was present in ERX177623. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_1
PAR-CLIP data was present in ERX177627. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_5
PAR-CLIP data was present in ERX177603. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_5
PAR-CLIP data was present in ERX177606. RNA binding protein: AGO2. Condition:KO_V_AGO_CLIP_2_8
... - Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research. |
| Article |
- Krell J; Stebbing J; Carissimi C; Dabrowska et al. - Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
|
| Experimental Support 4 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | Prostate Tissue |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
PAR-CLIP data was present in SRX1760630. RNA binding protein: AGO2. Condition:AGO-CLIP-22RV1_A
... - Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al., 2016, Neoplasia (New York, N.Y.). |
| Article |
- Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al. - Neoplasia (New York, N.Y.), 2016
MicroRNA (miRNA) deregulation in prostate cancer (PCa) contributes to PCa initiation and metastatic progression. To comprehensively define the cancer-associated changes in miRNA targeting and function in commonly studied models of PCa, we performed photoactivatable ribonucleoside-enhanced cross-linking immunoprecipitation of the Argonaute protein in a panel of PCa cell lines modeling different stages of PCa progression. Using this comprehensive catalogue of miRNA targets, we analyzed miRNA targeting on known drivers of PCa and examined tissue-specific and stage-specific pathway targeting by miRNAs. We found that androgen receptor is the most frequently targeted PCa oncogene and that miR-148a targets the largest number of known PCa drivers. Globally, tissue-specific and stage-specific changes in miRNA targeting are driven by homeostatic response to active oncogenic pathways. Our findings indicate that, even in advanced PCa, the miRNA pool adapts to regulate continuing alterations in the cancer genome to balance oncogenic molecular changes. These findings are important because they are the first to globally characterize miRNA changes in PCa and demonstrate how the miRNA target spectrum responds to staged tumorigenesis.
LinkOut: [PMID: 27292025]
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| CLIP-seq Support 1 for dataset GSM4903833 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | Dermal fibroblasts / CTL_TD_21_a |
| Location of target site | NM_207380 | 3UTR | GUGAUACCUGUUUUGAAGGGUUGCUGAGAAAAUUAAAGAUAAGGGUAUCCAAAAUAGUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUCGUAAGCUAAGCA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE161239 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 2 for dataset GSM4903834 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | Dermal fibroblasts / CTL_TD_21_b |
| Location of target site | NM_207380 | 3UTR | GCCUAAUCUCGUAAGCUAAGCA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE161239 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 3 for dataset GSM4903835 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | Dermal fibroblasts / CTL_TD_21_c |
| Location of target site | NM_207380 | 3UTR | GCCUAAUCUCGUAAGCUAAGCA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE161239 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 4 for dataset GSM4903836 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | Dermal fibroblasts / 124_TD_21_a |
| Location of target site | NM_207380 | 3UTR | AAGAUAAGGGUAUCCAAAAUAGUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUCGUAAGCUAAGCA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE161239 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 5 for dataset GSM4903837 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | Dermal fibroblasts / 124_TD_21_b |
| Location of target site | NM_207380 | 3UTR | CUAAUCUCGUAAGCUAAGCA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE161239 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 6 for dataset GSM545212 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO1 |
| Cell line / Condition | HEK293 / Control |
| Location of target site | ENST00000397536.2 | 3UTR | AUAGUCUACGGCCAUACCACCCUGAACGUGCC |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 20371350 / GSE21578 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 7 for dataset GSM545213 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO2 |
| Cell line / Condition | HEK293 / Control |
| Location of target site | ENST00000397536.2 | 3UTR | GUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUCGUAAGCUAAGCAGGGUCAGGCCUGGUUAG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 20371350 / GSE21578 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 8 for dataset GSM545214 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO3 |
| Cell line / Condition | HEK293 / Control |
| Location of target site | ENST00000397536.2 | 3UTR | AAUAGUCUACGGCCAUACCACCCUGAACGUGCC |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 20371350 / GSE21578 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 9 for dataset GSM545215 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO4 |
| Cell line / Condition | HEK293 / Control |
| Location of target site | ENST00000397536.2 | 3UTR | GUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUCGUAAGCUAAGCAGGGUCAGGCCUGGUUAGUACCUGGAUGGG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 20371350 / GSE21578 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 10 for dataset GSM1462572 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO2 |
| Cell line / Condition | C8166 / C8166 NL4-3 |
| Location of target site | ENST00000397536.2 | 3UTR | GUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUC |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23592263 / GSE59944 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 11 for dataset GSM1462573 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO2 |
| Cell line / Condition | TZM-bl / TZM-bl BaL |
| Location of target site | ENST00000397536.2 | 3UTR | GUCUACGGCCAUACCACCCUGAACGUGCCUAAUCUCGUAAGCUAAGCAGGGUCAGGCCUGGUUAGUACC |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23592263 / GSE59944 |
| CLIP-seq Viewer | Link |
| MiRNA-Target Expression Profile | |||||||
|---|---|---|---|---|---|---|---|
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| MiRNA-Target Expression Profile (TCGA) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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61 hsa-miR-3622a-5p Target Genes:
Functional analysis:
ID |
Target | Description | Validation methods |
 |
 |
|||||||
| Strong evidence | Less strong evidence | |||||||||||
 |
 |
 |
 |
 |
 |
 |
 |
|||||
| MIRT166678 | ZSWIM6 | zinc finger SWIM-type containing 6 |  |
|
2 | 2 | ||||||
| MIRT452081 | ATP6V0B | ATPase H+ transporting V0 subunit b | |
|
2 | 2 | ||||||
| MIRT457039 | S1PR3 | sphingosine-1-phosphate receptor 3 | |
|
2 | 2 | ||||||
| MIRT471975 | NR3C1 | nuclear receptor subfamily 3 group C member 1 | |
|
2 | 2 | ||||||
| MIRT474065 | LMNB2 | lamin B2 | |
|
2 | 2 | ||||||
| MIRT475862 | H6PD | hexose-6-phosphate dehydrogenase/glucose 1-dehydrogenase | |
|
2 | 2 | ||||||
| MIRT476191 | GOLGA8A | golgin A8 family member A | |
|
2 | 2 | ||||||
| MIRT476521 | GABRB1 | gamma-aminobutyric acid type A receptor beta1 subunit | |
|
2 | 2 | ||||||
| MIRT483046 | C15orf52 | chromosome 15 open reading frame 52 | |
|
2 | 4 | ||||||
| MIRT495541 | EIF3H | eukaryotic translation initiation factor 3 subunit H | |
|
2 | 2 | ||||||
| MIRT495892 | CLOCK | clock circadian regulator | |
|
2 | 2 | ||||||
| MIRT495992 | LTBP2 | latent transforming growth factor beta binding protein 2 | |
|
2 | 2 | ||||||
| MIRT496001 | EMP1 | epithelial membrane protein 1 | |
|
2 | 2 | ||||||
| MIRT496208 | PLEKHG2 | pleckstrin homology and RhoGEF domain containing G2 | |
|
2 | 2 | ||||||
| MIRT496427 | ACTRT3 | actin related protein T3 | |
|
2 | 2 | ||||||
| MIRT496438 | ZNF704 | zinc finger protein 704 | |
|
2 | 2 | ||||||
| MIRT496473 | SDE2 | SDE2 telomere maintenance homolog | |
|
2 | 2 | ||||||
| MIRT496555 | TBX15 | T-box 15 | |
|
2 | 2 | ||||||
| MIRT497202 | CECR1 | adenosine deaminase 2 | |
|
2 | 2 | ||||||
| MIRT507632 | CREBZF | CREB/ATF bZIP transcription factor | |
|
2 | 2 | ||||||
| MIRT513377 | MGAT4A | mannosyl (alpha-1,3-)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase, isozyme A | |
|
2 | 2 | ||||||
| MIRT523460 | GOLGA8J | golgin A8 family member J | |
|
2 | 2 | ||||||
| MIRT523465 | GOLGA8I | golgin A8 family member I, pseudogene | |
1 | 1 | |||||||
| MIRT526049 | GMDS | GDP-mannose 4,6-dehydratase | |
|
2 | 2 | ||||||
| MIRT533122 | YIPF4 | Yip1 domain family member 4 | |
|
2 | 2 | ||||||
| MIRT534183 | SLC8A1 | solute carrier family 8 member A1 | |
|
2 | 2 | ||||||
| MIRT556618 | LCOR | ligand dependent nuclear receptor corepressor | |
|
2 | 2 | ||||||
| MIRT563361 | WHSC1 | nuclear receptor binding SET domain protein 2 | |
|
2 | 2 | ||||||
| MIRT563868 | FAM206A | family with sequence similarity 206 member A | |
|
2 | 2 | ||||||
| MIRT564360 | PPWD1 | peptidylprolyl isomerase domain and WD repeat containing 1 | |
|
2 | 2 | ||||||
| MIRT564661 | ZNF449 | zinc finger protein 449 | |
|
2 | 2 | ||||||
| MIRT564805 | ZBTB33 | zinc finger and BTB domain containing 33 | |
|
2 | 2 | ||||||
| MIRT564867 | ZBED3 | zinc finger BED-type containing 3 | |
|
2 | 2 | ||||||
| MIRT565340 | TMEM104 | transmembrane protein 104 | |
|
2 | 2 | ||||||
| MIRT566439 | PHF16 | jade family PHD finger 3 | |
|
2 | 2 | ||||||
| MIRT567587 | FCHSD2 | FCH and double SH3 domains 2 | |
|
2 | 2 | ||||||
| MIRT569597 | C3orf62 | chromosome 3 open reading frame 62 | |
|
2 | 2 | ||||||
| MIRT569700 | FMNL3 | formin like 3 | |
|
2 | 2 | ||||||
| MIRT575957 | Nanos1 | nanos homolog 1 (Drosophila) | |
|
2 | 3 | ||||||
| MIRT576516 | Slc35e2 | solute carrier family 35, member E2 | |
|
2 | 2 | ||||||
| MIRT608480 | RRP36 | ribosomal RNA processing 36 | |
|
2 | 2 | ||||||
| MIRT614335 | NANOS1 | nanos C2HC-type zinc finger 1 | |
|
2 | 3 | ||||||
| MIRT630816 | ATAT1 | alpha tubulin acetyltransferase 1 | |
|
2 | 4 | ||||||
| MIRT631708 | C1QTNF6 | C1q and TNF related 6 | |
|
2 | 2 | ||||||
| MIRT632369 | SRRD | SRR1 domain containing | |
|
2 | 2 | ||||||
| MIRT633471 | DSN1 | DSN1 homolog, MIS12 kinetochore complex component | |
|
2 | 2 | ||||||
| MIRT634478 | PAFAH1B2 | platelet activating factor acetylhydrolase 1b catalytic subunit 2 | |
|
2 | 2 | ||||||
| MIRT667336 | MTHFD1L | methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1 like | |
|
2 | 2 | ||||||
| MIRT667654 | LFNG | LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase | |
|
2 | 2 | ||||||
| MIRT671046 | SS18 | SS18, nBAF chromatin remodeling complex subunit | |
|
2 | 2 | ||||||
| MIRT672823 | VEZT | vezatin, adherens junctions transmembrane protein | |
|
2 | 2 | ||||||
| MIRT673049 | SGPL1 | sphingosine-1-phosphate lyase 1 | |
|
2 | 2 | ||||||
| MIRT673435 | APAF1 | apoptotic peptidase activating factor 1 | |
|
2 | 2 | ||||||
| MIRT676096 | DPP9 | dipeptidyl peptidase 9 | |
|
2 | 2 | ||||||
| MIRT678059 | RPL7L1 | ribosomal protein L7 like 1 | |
|
2 | 2 | ||||||
| MIRT679783 | GOLGA2 | golgin A2 | |
|
2 | 2 | ||||||
| MIRT684219 | C9orf64 | chromosome 9 open reading frame 64 | |
|
2 | 2 | ||||||
| MIRT697642 | WRN | Werner syndrome RecQ like helicase | |
|
2 | 2 | ||||||
| MIRT706595 | C1RL | complement C1r subcomponent like | |
|
2 | 2 | ||||||
| MIRT706603 | CCS | copper chaperone for superoxide dismutase | |
|
2 | 2 | ||||||
| MIRT717647 | HLX | H2.0 like homeobox | |
|
2 | 2 | ||||||
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