pre-miRNA Information | |
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pre-miRNA | mmu-mir-1906-1 |
Genomic Coordinates | chr12: 109544541 - 109544620 |
Description | Mus musculus miR-1906-1 stem-loop |
Comment | None |
RNA Secondary Structure | |
pre-miRNA | mmu-mir-1906-2 |
Genomic Coordinates | chrX: 88759474 - 88759553 |
Synonyms | mmu-mir-1906, Mir1906 |
Description | Mus musculus miR-1906-2 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | |
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Mature miRNA | mmu-miR-1906 |
Sequence | 48| UGCAGCAGCCUGAGGCAGGGCU |69 |
Evidence | Experimental |
Experiments | Microarray |
Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | Cdc14b | ||||||||||||||||||||
Synonyms | 2810432N10Rik, A530086E13Rik, AA472821, CDC14B3, Cdc14B1 | ||||||||||||||||||||
Description | CDC14 cell division cycle 14B | ||||||||||||||||||||
Transcript | NM_001122989 | ||||||||||||||||||||
Other Transcripts | NM_172587 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on Cdc14b | |||||||||||||||||||||
3'UTR of Cdc14b (miRNA target sites are highlighted) |
>Cdc14b|NM_001122989|3'UTR 1 CCATCTGGACCCTTTGACAGATAGTTTGCTGTTCCAGCCATTTCAAGGACTAAGACAGTCTTACGTTAAAGTAAAAAAAC 81 GGTGACCAGCACTCCAGGGAAGACTAGGAACAGAAAACCCAAAAAGGATTTAGCCAATCAATCTGAGAACAAAGCAGACT 161 CTGCAATGGCCTTAGCTTCTTACCACATAAGAAGTTCATTCAATGAAGAAAATGTCACTGGCCTCTCATCCACTCACTGA 241 CTCTGGGGTGTGGTTGAACCATTTGAGGGCCTGACTCTCCCTTTTGTTATCTCAAGTTGGACAAAAGCTGCTGTTGTGAA 321 CTTAGTCTCAGGTGTCAATATCCTGTCCTCTGCCACCAGAGAGTTGTCTGGTGAGTGTGGTACATGTGTGTGTGTCCCTG 401 TGATGGCAATCATGTTTGCTGCTGGCCTCCAGAAGAGTTGAGGATCTGATGGAGATATCTTAGGTATTTATTTTTTGTTC 481 AACCTTGTGACCCTGACTCGCAGTTTATAAAGATGAAAGAGATGAACATCCCACCAGTGGTACCCTCCATCTTCAGGTAT 561 GATTTGGTACAATCAGCTTCACTTTCCTCTTGTTAATCCTGTTGTGATGTTCACTGTGTGAAGTACCCAAGCTGCTTGTT 641 TTTCACCAAAGAGTGCTTTATTAACAACCTGTGAACACTGCATTTAAACACTGTTGTATGTTGTTGTGGTTACTGAAAAC 721 CTGCTAGGAAATGTTGAGAATGTTGGAACCCTTTCTCAGTTACCTGGTTCCTACAAATCCTTCCTTGTGTCATTTTAGGA 801 TGAAGATTTCAGAGCTGGGATGTTGTTGGGTTGCTCAGCCACGTTATAATTGTGTTTACTTCATTACATCAAAACCAAAC 881 ATCAACCCTAGCATTTTCCTTTGGGAAAGCATCCTAAATAATGGTGGCTTTAACAACAAAATTGTGAGCCTTGCTGTATT 961 GGCGCACGCCTTGAATCCCAGCATTGGGAGGCAGAGGCAGGTGGATCTCCAGGTGGAGTTCCAGGCCAGCCAATGATACA 1041 CAAGGAAATCCTGTCTCAAAAATAAAACAAAGCAAAACAAAAAAACCAAACCCAAAATCCCAAAATTGTTAACCCTTTGT 1121 AGAGTCTTTCTCTGTAACGCTGTGGAGTTTTTTCCTTGTGATCCACAGTTTGATTTTAGTGACAATCACTTGCTTCTGGA 1201 GTTAGGCTGTTTGTGTAAGAGATCTCACTGTTGCCTTTGGTTAGGGAATATGACTAGAAACTGTAGTGTGCCTTTTCTCT 1281 TCACCCTGCTGGAAGCCAGCAGCACCCGTGCCATGAAGCAATTGCAAAACCAGAATTTATCTGCTGCCACAAAAAAAAAA 1361 AAAAAAAAAAAGACAGAGCCCATAATTAGAAAATACTCTATAGTTGTCTTGGTTACTTCCACAATTGAGGCTAATGGTTT 1441 TTTGACTCTCCCAGTTTAGAAACTGGAGAAATGCAATATTGAAAGCCATTGACAGCCAATGCCTTCCCAAGACAGGTGAA 1521 TGTGTCAGGTGAGCAGGCAATCCCACTTGAAAAGCTGCCTTCCTTGTAGTTGATATTGACAGGTTAAAGTCTAGTTAATG 1601 TAAAAATATTGAAAGACAATAGGTCCCCCCTTTCAGTGTTTCTATCCTCAAACTGCATTGGTTGGCCTTGGATTGGAGGC 1681 ATGAGGATTCAATGTAAATCCACACAAAGAGCCCCCCTTCCTAGGCAGCACGTAGCTTTCAAACAACGGGAAAAAACAGT 1761 TAAGGTAAAGTTTGTTATCTCTGGATATGAATTGGATTGGATCTAGGTAGGAGGGCAAACGTTTCATTTACCAATCATGC 1841 TCAATCAAACTGCCTAAGTCTAAAATAGAACCTTCCTGGGTGGTTCTTCCTTCCCTGAACAAGCTAGGCCAGGCACCAGG 1921 AGACAGAAGGAGACTCCATTCCATCTGAACTAAGCTAGATTTGTTCGCATGGATCAGAATGAGTTGGTCAGGGCCTGCCC 2001 ACACTGGCTCGTGGTCTGCAAGTTTGGGAGGAAACCACCTGGGCTTCAGAGATGACCACAGTGCTTTTTAAAAGGCACTT 2081 TTTTGTGTTTGCAGCTCCATTCATCTAGAAGTGCTGCCACTGTGGCTCTTCCCTGCATTTAACTCCCTTGCTAAAGTTAC 2161 TTAGGAAACGTGAGTTGGTGAGGACACATTCATTTCTAGGAAAAGCTACTTGATGTTGTCTGGGCAGGACTGCTTAGCAA 2241 CTGACCACCAGTGACATCAGGACCCAGGAAGTCTTTGATCAGACTAATGGAAAGTCCTTCCTGTTGGGAATTAGTGGACA 2321 ACCTCTCCCCAAACTACAACTACCCAGAAACTTCTGGGATAGAAGACCCTGTAGCTATAAAGCATGACTCAGTAGATATG 2401 GGATGGAGGGGCCCCTTTAACTTAAGAACTTTAAATGCCTTTGTAAGTGCATCAAAGCTTCTTCCAGCAGAATGAAAATT 2481 AGAAAAGTATATTTATAGGTGCCCTTGACGCTTTTGGGGAACGCATACTATCCAGAGTCTAAGAGAAGAATGTCTGCATT 2561 AGCTGAGCTGAGGGCTTATAGACAGATTGTCTTAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAATTGGG 2641 GAGGAAAGGGTTTATTCGGCTTGCGCTTCCATGCTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAACAGGTC 2721 AGGGAGCAGGAGCTGATGCAGAGGCCATGGTGGGATGTTCCTTACTGGCTTGCTCAGCTTGCTCTTTTATAGAACCCAAG 2801 ACTACCAGCCCAGGGATGGTTCCACCTACAAGGAGCCTTTCATCCTTGATCACTAATTGAGAAAATGCCTTACAGTTGGA 2881 TCTCATGGAGGCATTTCCTTAACTGAAGCTCCTTTCTCTGTGATAACTCCAGGTGAGTCAAGTTGAAACAAAACTAGGCA 2961 GTACACAGATTAATACAATTCTGAGGCCCAGCTATAACTCTTGATTTGAGGCAAGAAGGACGGACCCTGAGTAGTGCCAC 3041 AATCAAGGGTAGCAGTATTTGTCGAAACTAACATGGCCACATGCTGCTCTTCCTCATTAACTCCCCAGCTTTAATTGGTC 3121 CCCAAAACCTAGTTCTATCCATTGCCCTGCCCTGCCCTACTGCCCCCCTGTCGGGTGGCTTCTACCTCTTGGCTTGGGCC 3201 CTGACAGGTCACAGGGGCTTCCAAGCGTTCTCCTGAGGCTCTTTGAGCACAATCAGGTCTGTCGACCTTTCCAGCTTTCT 3281 GGGTCTGGAATTCCTCAGGCCTTTGTTAGCTTGAATAGCTGTCTGTGACAAGTGAGTATGTGTTCTAGAAACATCAGCTG 3361 TTTTTCCTCACATATTTTTTTTAAAAGTTCTTACTTGCATTTTGGAAAGCAGTTGGTCAGAAACCTTAAAACCTATTTTT 3441 TTTTTTTAAGCTGGGCAATTGTAGCAGGCAGATCTCTTGTGAGTTCAAGACCTACCTGGTCTTCAAAGTGAGTTCCAGTA 3521 TAGTTAGAGCTACACAGAGAATCCCTGTCTCAAACAAAACAAAGCAAAACAAACAAACAAACAAACAAAACAGATAATAC 3601 AAACTATATTTTAAGATTTCTCTCCCACTGAAGTGACCTCTTGAGAATAGCCACTGTTCTTGCATTTCTTCATAAATCTG 3681 AGTGTTCCCCATCTCACTGAGTGGAAATACTACAGATACATTTAAAAGATCGCCTATACTGTGTAAGAAATTACCTCCTG 3761 ATGATCCAGTAGAACTCACTGTGGATAGACACGTCTGTCAGATTACGGTACTGCAGTTTTACATCCATTGTTTGAAGACT 3841 TTATTGTACACTCATGTGCAGATGAAGTTTTAAAATGTTACTGACGAGTCACCATTTGATCAGTCATTGTCTTGATATTT 3921 TATTAAATTGTATATTTCTAATAATATTTTTTAAAGTTGAGAGAACTGGTTGGATGTTTATTCTCCTGAAGGTATTTTTA 4001 AGATAAAGCTTCACCATAGCCTGTAAACTTGGCACATAAGTAGTTTTTGATACTTTTTGTTGCATTTGAAAAATCTTGTG 4081 TATTGTAAAATGGTTTTATACAAAATACTAAATAGTAGAAATTGTATAATTTACAATCGTATAATTAAAAATATTAAACA 4161 GTC 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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Experimental Support 1 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | CD4+ T cells (C57BL/6) |
Disease | MIMAT0007872 |
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 GSM1013576. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013581. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013584. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013588. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013589. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013590. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013594. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013595. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013597. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013598. RNA binding protein: AGO2. Condition:CD4+ T cells
... - Loeb GB; Khan AA; Canner D; Hiatt JB; et al., 2012, Molecular cell. |
Article |
- Loeb GB; Khan AA; Canner D; Hiatt JB; et al. - Molecular cell, 2012
MicroRNAs (miRNAs) are essential components of gene regulation, but identification of miRNA targets remains a major challenge. Most target prediction and discovery relies on perfect complementarity of the miRNA seed to the 3' untranslated region (UTR). However, it is unclear to what extent miRNAs target sites without seed matches. Here, we performed a transcriptome-wide identification of the endogenous targets of a single miRNA-miR-155-in a genetically controlled manner. We found that approximately 40% of miR-155-dependent Argonaute binding occurs at sites without perfect seed matches. The majority of these noncanonical sites feature extensive complementarity to the miRNA seed with one mismatch. These noncanonical sites confer regulation of gene expression, albeit less potently than canonical sites. Thus, noncanonical miRNA binding sites are widespread, often contain seed-like motifs, and can regulate gene expression, generating a continuum of targeting and regulation.
LinkOut: [PMID: 23142080]
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CLIP-seq Support 1 for dataset GSM1013576 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep2 |
Location of target site | NM_001122989 | 3UTR | GCCACAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1013581 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep7 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM1013584 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep10 |
Location of target site | NM_001122989 | 3UTR | CUGCCACAAAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM1013588 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep2 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 5 for dataset GSM1013589 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep3 |
Location of target site | NM_001122989 | 3UTR | CCACAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 6 for dataset GSM1013590 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep4 |
Location of target site | NM_001122989 | 3UTR | GCCACAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 7 for dataset GSM1013594 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep8 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 8 for dataset GSM1013595 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep9 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 9 for dataset GSM1013597 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep11 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
CLIP-seq Support 10 for dataset GSM1013598 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep12 |
Location of target site | NM_001122989 | 3UTR | UGCCACAAAAAAAAAAAAAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
27 mmu-miR-1906 Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT578439 | Irgq | immunity-related GTPase family, Q | 2 | 10 | ||||||||
MIRT578971 | Dhdh | dihydrodiol dehydrogenase (dimeric) | 2 | 4 | ||||||||
MIRT580446 | Tln2 | talin 2 | 2 | 2 | ||||||||
MIRT582494 | Mbtps2 | membrane-bound transcription factor peptidase, site 2 | 2 | 2 | ||||||||
MIRT587588 | Cox15 | cytochrome c oxidase assembly protein 15 | 2 | 2 | ||||||||
MIRT589524 | Mtf1 | metal response element binding transcription factor 1 | 2 | 2 | ||||||||
MIRT591281 | Klc1 | kinesin light chain 1 | 2 | 4 | ||||||||
MIRT591935 | Ddx19b | DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b | 2 | 2 | ||||||||
MIRT592084 | Sorcs2 | sortilin-related VPS10 domain containing receptor 2 | 2 | 2 | ||||||||
MIRT592206 | Mapkap1 | mitogen-activated protein kinase associated protein 1 | 2 | 4 | ||||||||
MIRT592349 | Armcx6 | armadillo repeat containing, X-linked 6 | 2 | 4 | ||||||||
MIRT592351 | Angel1 | angel homolog 1 | 2 | 2 | ||||||||
MIRT592365 | 4930444A02Rik | protein-O-mannose kinase | 2 | 2 | ||||||||
MIRT592427 | Spsb4 | splA/ryanodine receptor domain and SOCS box containing 4 | 2 | 2 | ||||||||
MIRT592671 | Itgav | integrin alpha V | 2 | 2 | ||||||||
MIRT592712 | Fbxo21 | F-box protein 21 | 2 | 4 | ||||||||
MIRT593155 | Itsn1 | intersectin 1 (SH3 domain protein 1A) | 2 | 2 | ||||||||
MIRT593662 | Spen | SPEN homolog, transcriptional regulator (Drosophila) | 2 | 2 | ||||||||
MIRT593976 | Cdc14b | CDC14 cell division cycle 14B | 2 | 2 | ||||||||
MIRT597931 | Pacsin2 | protein kinase C and casein kinase substrate in neurons 2 | 2 | 2 | ||||||||
MIRT597949 | Opa1 | OPA1, mitochondrial dynamin like GTPase | 2 | 2 | ||||||||
MIRT598550 | Isoc1 | isochorismatase domain containing 1 | 2 | 2 | ||||||||
MIRT599017 | Fgd4 | FYVE, RhoGEF and PH domain containing 4 | 2 | 2 | ||||||||
MIRT600307 | Tacc1 | transforming, acidic coiled-coil containing protein 1 | 2 | 2 | ||||||||
MIRT603647 | Otop1 | otopetrin 1 | 2 | 2 | ||||||||
MIRT605000 | Fam168b | family with sequence similarity 168, member B | 2 | 2 | ||||||||
MIRT606275 | Oxsm | 3-oxoacyl-ACP synthase, mitochondrial | 2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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