| pre-miRNA Information | |
|---|---|
| pre-miRNA | mmu-mir-129-1 |
| Genomic Coordinates | chr6: 29022619 - 29022691 |
| Description | Mus musculus miR-129-1 stem-loop |
| Comment | The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies . |
| RNA Secondary Structure |  |
| Mature miRNA Information | |
|---|---|
| Mature miRNA | mmu-miR-129-1-3p |
| Sequence | 49| AAGCCCUUACCCCAAAAAGUAU |70 |
| Evidence | Experimental |
| Experiments | Illumina |
| Putative Targets | |
| Gene Information | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene Symbol | Scn8a | ||||||||||||||||||||
| Synonyms | AI853486, C630029C19Rik, NaCh6, Nav1.6, dmu, med, mnd-2, mnd2, nmf2, nmf335, nmf58, nur14, seal | ||||||||||||||||||||
| Description | sodium channel, voltage-gated, type VIII, alpha | ||||||||||||||||||||
| Transcript | NM_001077499 | ||||||||||||||||||||
| Other Transcripts | NM_011323 | ||||||||||||||||||||
| Expression | |||||||||||||||||||||
| Putative miRNA Targets on Scn8a | |||||||||||||||||||||
| 3'UTR of Scn8a (miRNA target sites are highlighted) |
>Scn8a|NM_001077499|3'UTR
1 AGGAGAGGGTAAGGGAAGCTTACGCTGGCTGAACACGGGCAAGTGAAAGCTTGTTTACAAACTTCCGAATCTCACGGACA
81 CAGAGCAGCTGCGGAGATGCTGTACTGGAAGACCTATACCAAACATAGTCTGCTTACACGTGACACGGTTGCATCCTGAG
161 CGGTGACCTGCTGGGGACAAAGGACCCTGCTCCCTGGACTCACAGATTTTTTCTATCGCTTGGGCAGACGTTACTGCATG
241 TTCCACACTCGGTCAATGCAACTTAGGAGTAAACTTAACAGGATACAAACAGAGGCGGCTGCCAGGACCAGCAGATCGCC
321 GCTGCAGCCAAATGGATTCTATTTTTTTTTTCATTTTGTTGATTCTCAGAAGCAGAAAGCATCACTTTAAAAGTTTGTTT
401 GTTCATGCAAACAATATTTGCATTCTTACATTAGTTAAGCTAAGCAGCAAAAAGAAACACACACACATACAGACACACAA
481 AGACACACACAGACACATACACACACACACACACATTCAGCCTATGTCACTAATCGTCTGTTTCTTTAACATAACAGCAT
561 CTTCTCCACGTGGGTGGCACATGGTTTGGAGACGGTGGGGGAAACAATCAGGGTTTCAGGCTGAGGAGGACTTGCTCAGG
641 CCAATTCCAAATATTGTGCTCGTTCAATGCGTAGAAATGACTTGCATGATGGCATGCTGTGTTCAGAAGTCATGCATGAG
721 GTCCATACACCAACAGACACTAGCAATCCTGTCCCTCGCATTGGCTCAGCCTTCGGACAGGACCCAGCCCTGCACTGTTC
801 ACTGTATTTGGAGAAATGGTAAGAGTTCCATACCGGCTGCAATCCTCTCAGTGTACAAGTCTTTCATACACCTCTGGGTA
881 GGGAGACATAATTAACCAATTGACCACTACCAACAAAAACAACCCAACCAAACAAGCAGATGGATCCGCTGCATATACAT
961 GTTTGACAGACATCTCTGACATACAGCCATTGTCGTACATTTTGCTGCTCTGTCCAATACATGGGGAGACTCTGGCCCCG
1041 AATGGCTTGTACTATTAATGTCACTGTAAAACCAAATCCTAGGGCTAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAAA
1121 AGAAAAATACTAATAGAAAAAAGAGTTCATTTGTATCTTGCAATATCCTGTTGATTGTTTAGCCTTCATCCTGGAGAACT
1201 GACCCTGGGGTAGAGATAAAAGTGCTATGTATTGTAGCATGTTACCTCTAGGGGGCCTTTGGGGGGCTTACAGAAACCTT
1281 GTGGGGGGTTTGGGGTGCTTATTGCATTCAGTGTCATGTCTGTCTGCTTTTCTCCAGGCTCAGGTAGATACGGAAAGGGG
1361 TTCAGATATTCTGAACTGCCCTGTCCTGCAGAGGGGTTGTCACAAGCTCCTGGCTGCACGGTTCTTCCTGCTTCTGCCAT
1441 ATCCCTCCAGCCAGCAGGGCTCCCCTTCCCAGCCGCTCAGGGCTGGCAAGGACAGCAGTGTTGGCTGAGATAAGGCTGTA
1521 GGCTCTTCCATTTGTAGAATAACGCTCTCTAACAGGACCTGATGGAAAGATGGAGCTGCCTCTGGACAGAGCCCACTTGG
1601 TCTTGTTTCTACGACGGCTTTTGTGAGAAAGGGACTCAGTAGTCATTCTTTAGGGTGTCACAGCTTCCCCTGGCCTTTCC
1681 TTTCAGCTCACCTTGCTTTCTGCTTAGTGGCCTGCCCACTGTTGTTGGGGGATGGCTTCTAGAGGGGCGTCATATCTTCC
1761 ATTCCATCCCCCACTTTATAGAAGACAGTTCTTAGTCCAGGGTGTCTCAGCTGACCACAAGGTCTCAAAGCCAAGATGCT
1841 GCACTCGAATGCCAGAAAGTCTCTCTGAACCAAATCAACACAAACTCTCCCTGAGCATAGTATGGAGGGAATCGAGTGGC
1921 CCATCAGTAGACACATCAGATGCACCAGTCCGCCTTGCAGTAGAAGCACTTTGGATGTAATCTCACAGTCCACCTGACTA
2001 GTTTTGCATAGAACAAACCACAGCCAGTCAGTGAGCAGAGCTTTCTATCTTCTTGGACCGGTAGACACTGTCCAACTCTC
2081 CCAGCTCAGAGAGTGTGTCCGTGTCACCACAGCTAGGACAATTCTAGAGCGCCACCTGCAGGCAACATCGCAAACAGCAC
2161 AAAACAGGAGCTGACCTGTGGTTATTCTTTTTAAGAGAATTATAAATACTGTAATATATAATTTTATTTTATTGGCATGC
2241 CTTTTTGTAAATACAAATTACTAACTTATTAAATAGGAAATGGCTTCTGGCTTACGCCATTGTCATGGTTATTTTTATTT
2321 TTTATACTTTCCTTTCTTCTTAGAATTTAGAAGCTGTCAGCCAATGTATACCCCTAACCAGACAGACAGACAAAAAATTT
2401 TTTATTGCTAATGGTATTTTCCAAAACAACAAAATATATATATATTTTTGTTCCAATGTGCAATAAATTCTAACCACTTC
2481 TATGCAAGATTTGGCTAAACTCAATCATTGTTCTTAGATCTTGAGATGGGCAACAGCTATTTGATCCTGCTAGGAACACC
2561 AAGCGCCATGCTAGTAATGTTCAGCGATTAGATCTGACCCTCCTACCCCAGCTCCTGACCCAGCCCAGCAGGCTGTGCCT
2641 CAGTTTCTCACACCCTCCAACAGCCTCGCAGGGAAGAAGCCACCTCCGAGTCTGCTTGCTCTAACTTTCACTCTGATCAG
2721 ACCTCTCCCAGCAATGCCCCTCACCTTCCATCTGTCCACCCAGCCACTCTCTGCCCGCCTCGCTCTCTCTGTCCCACTCC
2801 ATGATCCTTTCTTGTGAACCACACCATCACCAGCAGTTCACACCCGCAGTTAACAGGCATCGAACCTTAAAGAATCAGCT
2881 ACGGCAGGTTTTGGTTGGTTTGGTTTTGTTTTGCGTCCTCATTGCGTGAGCAAGTGGCAGGGCTTTGCCAAATATTCATG
2961 AAGCCTGTCAAAGAGCGGCAGCAGCCAGTACCACTGCACATATATATATAGATATATAAATATAATATAAATATTTATTT
3041 TTTGTAGCCGGGTCCTTGGTGCAGTATTTATATTCCACGATCCTCCTTTAAAAATAATAATAATAATAATAAAAAGGACA
3121 AAAAAGCAAAAAGTCATGTGATGCTGTTCATTTAAAACGCAGAGCCAAAGCCCCTGAGCAGTAGTCGCCATGACTACTGG
3201 TTGTGTGAAAACACTCCCTTCTTCCTTAACTTCCCTGTGGCTTAGGGTGAGAGGCTGGGAGTCACAGGGCAGAGGGTGGG
3281 AGCAGGAAAGCCGAGTCTGAGTGATCTGCTCTCACCATCTGGAAATGAGCCACTTGGGCATCTGAAGCTGCGCACAGAGA
3361 GACAAGCTCCCCCTCAGGGCCCCTGAAGCGACATAGAGTGCCCAAAGGGCTTCTCTCATCACCACAACCCACGTAAACTG
3441 TAAGAGACCCATAGTGTGCTAGTGAGTGCATGGAGCCTGATGCTGCCCTAAACGATACCTGATCTTTAGAAAAGTAAATC
3521 ACTATTAGCCAAAAGGAAACAAAATTTACAAAACAAACAAACAAACAAAAAATACGGCCCTTTTTAACCACACAAGGGAA
3601 GCCCGTCTTGCTGTGTGTCTGTTTGACTTTCCAGTTATTGAGGTCTGGGAACTGGGACCCTGGAGCTTTGGGGAAGGAGA
3681 AAGGAAAACAGAGCCCCCCCCCCCCAATTCTAAGTAGGTACTGCAGAGAAAAGCCAGGTCCTGACCCCCCAGGTCCCTGC
3761 TTACTGATTGCATGTGGCATTACCCCTTAGACTGGACCCCCCTCCCTCACCGTTTCCACCCAGCAGAGCCCCCCAGAGAT
3841 GACTTCAACCAACCTAGCTGGTCTGGCCTTACTTCTGCCTTGTTCATGGTTATGATTTAAGAAAGAAAGAAAAAAAAAAA
3921 ACCTCTCCTGACCCCCCACCTCCCAAGGCTAGCGCAAGCACGCTGCCCGGCAGCTTCCAGTCCACCAGCTCGTGCTGGCC
4001 CTGCCTTCCATCCACTCCCATTATCAGACCGGCAGACTGGGGCTGTCCCCTTCACATTTGTGCAGGGGAGGGGGCATCCC
4081 TTGGGGACATCCCTCTCCAGGCCATGTCTCCTGGTCTAGGAACACTCAGGAGGATCTTGAAGTGCCCACTCTAGTCCACT
4161 CTAGTAGCTGAACTAGAGAGAGTCGGCTGGTAGGTCAGTCCCTGTCCTTGTCCCTCAGCTCCAGCCTCCAGGCCTTCTGT
4241 GGAGGTGAAATTGCCATGGGTCCGGACATGGTGACCTGAACCCTGGGCATCTTCTGGAACGATGCCTCTTTCTTTTCTCA
4321 GATGTTGCCCAAAGTTTTGCAAAAAGCTTCCTTCATTTTCAGGTACTCCCCCGCCCCCTAAAGAATTAGCTGCCGTCAGT
4401 CAGCCAGGGGGGTCAGGAGAAGAGGAAGTCTGGGTTCAGAGGACAAGACTTGCACCCCGGCCTGTGCTTCTTGCCTCTTC
4481 TCAAGACTGCCAAGATTTCCTCCATTAAAACACTCCTGAGGCACCCCTGCCCCTGACCCCACTGCTGTTTGCTGTACATA
4561 GAGGCTAAGTGGGGTGAAGTGGGCAGGTGTGCACATGTATGTGTGTGTGTGTGTGAAGAATGTACATAGGTAAAGGGGAG
4641 CGTGGTCCAGTGGTTCCAGAAGAGGGACAGAACTGTGTTCCATCCCTAGCTTGACCACTGGCTCGCTGTGTGGCCTTGGG
4721 CAAGTCACTTAACCTCTCTGTGCCTCAGTTTCCCCATCTGTAAAATGGGGGTAATAATACTGACCTACCTCACAGGGGTG
4801 TTGTGAGGCTTTAACTAGATGTTTTGTAAAGCGTTCTGAGATACAGAGACAAAGGCGCCAGGGAAGGGCAAAGTATTCTT
4881 TGGACTTGAGGAAGAGGAACTAGTACCATAAACGCTGCTATTCTGAGAGCCATTTTAAACTGCACTGCTCCACCACCCCC
4961 CGCTTCTCATCACCAGGACAGCAGGTCGAGAAATGTCTTTCCTTGCACTTGCTTCTGGGGTTTGTGATTCTTCTGATTTT
5041 TCCCTTTGCTGTATCTCCTTCCTTACCCCTCCACTCGTTCCCTGTTCTGTTAATGCGGAAATGGCAGAAATGCTTGAGAA
5121 ATGAGAATGTATAAGTGGATTGGAAGTTTATAGTCTGGATTTTCAATTTTACTTTGTACTGTACATCTTTTTACTTTAGA
5201 ATTTGCAATAAAGGGTTACGTCAATCTTGTTTTCAACTCTCCTCTTGGAA
Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
|
||||||||||||||||||||
| miRNA-target interactions (Predicted by miRanda) |
|
||||||||||||||||||||
| Experimental Support 1 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | CD4+ T cells (C57BL/6) |
| Disease | MIMAT0016994 |
| 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 GSM1013582. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013583. 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 GSM1013585. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013586. 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 GSM1013592. RNA binding protein: AGO2. Condition:CD4+ T cells
"HITS-CLIP data was present in GSM1013593. 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 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]
|
| Experimental Support 2 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | C2C12 |
| 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 GSM1385342. RNA binding protein: 聽AGO2. Condition:C2C12_GM_Ago2_CLIP-Seq_myoblast
HITS-CLIP data was present in GSM1385343. RNA binding protein: 聽AGO2. Condition:C2C12_DM_Ago2_CLIP-Seq_myotubes
... - Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al., 2014, Cell. |
| Article |
- Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al. - Cell, 2014
MicroRNAs are well known to mediate translational repression and mRNA degradation in the cytoplasm. Various microRNAs have also been detected in membrane-compartmentalized organelles, but the functional significance has remained elusive. Here, we report that miR-1, a microRNA specifically induced during myogenesis, efficiently enters the mitochondria where it unexpectedly stimulates, rather than represses, the translation of specific mitochondrial genome-encoded transcripts. We show that this positive effect requires specific miR:mRNA base-pairing and Ago2, but not its functional partner GW182, which is excluded from the mitochondria. We provide evidence for the direct action of Ago2 in mitochondrial translation by crosslinking immunoprecipitation coupled with deep sequencing (CLIP-seq), functional rescue with mitochondria-targeted Ago2, and selective inhibition of the microRNA machinery in the cytoplasm. These findings unveil a positive function of microRNA in mitochondrial translation and suggest a highly coordinated myogenic program via miR-1-mediated translational stimulation in the mitochondria and repression in the cytoplasm.
LinkOut: [PMID: 25083871]
|
| CLIP-seq Support 1 for dataset GSM4656407 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | mouse liver / e185 |
| Location of target site | NM_001077499 | 3UTR | GCUAAAAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Accession Series | GSE153876 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 2 for dataset GSM1013576 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep2 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAAAA |
| 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 GSM1013581 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep7 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAAAA |
| 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 GSM1013582 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep8 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAAAA |
| 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 GSM1013583 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep9 |
| Location of target site | NM_001077499 | 3UTR | GGGCUAAAAAAAAAAAAAAA |
| 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 GSM1013584 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep10 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAA |
| 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 GSM1013585 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep11 |
| Location of target site | NM_001077499 | 3UTR | GGCUAAAAAAAAAAAAA |
| 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 GSM1013586 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep12 |
| Location of target site | NM_001077499 | 3UTR | GGGCUAAAAAAAAAA |
| 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 GSM1013588 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep2 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAA |
| 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 GSM1013592 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep6 |
| Location of target site | NM_001077499 | 3UTR | GGGCUAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23142080 / GSE41285 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 11 for dataset GSM1013593 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep7 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23142080 / GSE41285 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 12 for dataset GSM1013594 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep8 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23142080 / GSE41285 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 13 for dataset GSM1013595 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep9 |
| Location of target site | NM_001077499 | 3UTR | AGGGCUAAAAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23142080 / GSE41285 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 14 for dataset GSM1013598 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep12 |
| Location of target site | NM_001077499 | 3UTR | GGCUAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23142080 / GSE41285 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 15 for dataset GSM1385342 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | C2C12 / C2C12_GM_Ago2_CLIP-Seq_myoblast |
| Location of target site | NM_001077499 | 3UTR | GGGCUAAAAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 25083871 / GSE57596 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 16 for dataset GSM1385343 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | C2C12 / C2C12_DM_Ago2_CLIP-Seq_myotubes |
| Location of target site | NM_001077499 | 3UTR | GGGCUAAAAAAAAAAAAAAAA |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 25083871 / GSE57596 |
| CLIP-seq Viewer | Link |
154 mmu-miR-129-1-3p Target Genes:
Functional analysis:
ID |
Target | Description | Validation methods |
 |
 |
|||||||
| Strong evidence | Less strong evidence | |||||||||||
 |
 |
 |
 |
 |
 |
 |
 |
|||||
| MIRT577374 | Ybey | ybeY metallopeptidase |  |
|
2 | 4 | ||||||
| MIRT577528 | Tirap | toll-interleukin 1 receptor (TIR) domain-containing adaptor protein | |
|
2 | 4 | ||||||
| MIRT577536 | Timm17b | translocase of inner mitochondrial membrane 17b | |
|
2 | 4 | ||||||
| MIRT577611 | Stxbp4 | syntaxin binding protein 4 | |
|
2 | 2 | ||||||
| MIRT577653 | Smyd4 | SET and MYND domain containing 4 | |
|
2 | 4 | ||||||
| MIRT577661 | Slc6a2 | solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2 | |
|
2 | 4 | ||||||
| MIRT578366 | Lrrc14b | leucine rich repeat containing 14B | |
|
2 | 4 | ||||||
| MIRT579042 | Csf3r | colony stimulating factor 3 receptor (granulocyte) | |
|
2 | 2 | ||||||
| MIRT579177 | Cd3eap | CD3E antigen, epsilon polypeptide associated protein | |
|
2 | 4 | ||||||
| MIRT579526 | 9230110C19Rik | RIKEN cDNA 9230110C19 gene | |
|
2 | 2 | ||||||
| MIRT579583 | Uvssa | UV stimulated scaffold protein A | |
1 | 1 | |||||||
| MIRT579590 | 4930579G24Rik | RIKEN cDNA 4930579G24 gene | |
|
2 | 4 | ||||||
| MIRT579674 | Inip | INTS3 and NABP interacting protein | |
1 | 2 | |||||||
| MIRT579681 | Ccdc167 | coiled-coil domain containing 167 | |
1 | 1 | |||||||
| MIRT579809 | Zfp148 | zinc finger protein 148 | |
|
2 | 4 | ||||||
| MIRT580341 | Tmod1 | tropomodulin 1 | |
|
2 | 2 | ||||||
| MIRT580436 | Tmed5 | transmembrane p24 trafficking protein 5 | |
|
2 | 2 | ||||||
| MIRT580518 | Tet1 | tet methylcytosine dioxygenase 1 | |
|
2 | 2 | ||||||
| MIRT581179 | Scn8a | sodium channel, voltage-gated, type VIII, alpha | |
|
2 | 4 | ||||||
| MIRT581283 | Rp2h | retinitis pigmentosa 2 homolog | |
|
2 | 4 | ||||||
| MIRT582042 | Otud7b | OTU domain containing 7B | |
|
2 | 4 | ||||||
| MIRT582293 | Nav2 | neuron navigator 2 | |
|
2 | 2 | ||||||
| MIRT582403 | Mprip | myosin phosphatase Rho interacting protein | |
|
2 | 2 | ||||||
| MIRT582579 | Lypla1 | lysophospholipase 1 | |
|
2 | 2 | ||||||
| MIRT582607 | Lrrc3 | leucine rich repeat containing 3 | |
|
2 | 4 | ||||||
| MIRT582823 | Iws1 | IWS1, SUPT6 interacting protein | |
|
2 | 4 | ||||||
| MIRT582933 | Il11 | interleukin 11 | |
|
2 | 4 | ||||||
| MIRT583276 | Gm6531 | CDC28 protein kinase 1b, retrogene | |
|
2 | 4 | ||||||
| MIRT583359 | Gad2 | glutamic acid decarboxylase 2 | |
|
2 | 4 | ||||||
| MIRT584153 | Creb1 | cAMP responsive element binding protein 1 | |
|
2 | 2 | ||||||
| MIRT584172 | Cpox | coproporphyrinogen oxidase | |
|
2 | 2 | ||||||
| MIRT584306 | Chic1 | cysteine-rich hydrophobic domain 1 | |
|
2 | 4 | ||||||
| MIRT584544 | Btaf1 | B-TFIID TATA-box binding protein associated factor 1 | |
|
2 | 2 | ||||||
| MIRT584612 | BC030476 | glutamate rich 5 | |
|
2 | 4 | ||||||
| MIRT584770 | Asap3 | ArfGAP with SH3 domain, ankyrin repeat and PH domain 3 | |
|
2 | 2 | ||||||
| MIRT584946 | Adarb1 | adenosine deaminase, RNA-specific, B1 | |
|
2 | 4 | ||||||
| MIRT585126 | Zfp933 | zinc finger protein 933 | |
|
2 | 4 | ||||||
| MIRT585139 | Zfp882 | zinc finger protein 882 | |
|
2 | 4 | ||||||
| MIRT585209 | Zfp553 | zinc finger protein 553 | |
|
2 | 4 | ||||||
| MIRT585374 | Xcr1 | chemokine (C motif) receptor 1 | |
|
2 | 2 | ||||||
| MIRT585439 | Veph1 | ventricular zone expressed PH domain-containing 1 | |
|
2 | 4 | ||||||
| MIRT585463 | Ube2c | ubiquitin-conjugating enzyme E2C | |
|
2 | 4 | ||||||
| MIRT585561 | Tprkb | Tp53rk binding protein | |
|
2 | 2 | ||||||
| MIRT585676 | Tfcp2l1 | transcription factor CP2-like 1 | |
1 | 1 | |||||||
| MIRT585779 | Spc24 | SPC24, NDC80 kinetochore complex component, homolog (S. cerevisiae) | |
|
2 | 2 | ||||||
| MIRT585868 | Slc23a1 | solute carrier family 23 (nucleobase transporters), member 1 | |
|
2 | 2 | ||||||
| MIRT585899 | Slc17a8 | solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 8 | |
|
2 | 4 | ||||||
| MIRT585972 | Sgpp2 | sphingosine-1-phosphate phosphotase 2 | |
|
2 | 4 | ||||||
| MIRT585990 | Sfxn2 | sideroflexin 2 | |
|
2 | 2 | ||||||
| MIRT586068 | Rhobtb1 | Rho-related BTB domain containing 1 | |
|
2 | 2 | ||||||
| MIRT586089 | Rft1 | RFT1 homolog | |
|
2 | 2 | ||||||
| MIRT586161 | Pus7 | pseudouridylate synthase 7 | |
|
2 | 2 | ||||||
| MIRT586201 | Ptpn7 | protein tyrosine phosphatase, non-receptor type 7 | |
|
2 | 2 | ||||||
| MIRT586228 | Psmd9 | proteasome (prosome, macropain) 26S subunit, non-ATPase, 9 | |
|
2 | 2 | ||||||
| MIRT586240 | Psmb11 | proteasome (prosome, macropain) subunit, beta type, 11 | |
|
2 | 2 | ||||||
| MIRT586256 | Prss43 | protease, serine 43 | |
|
2 | 4 | ||||||
| MIRT586361 | Pdk1 | pyruvate dehydrogenase kinase, isoenzyme 1 | |
|
2 | 4 | ||||||
| MIRT586433 | Nwd1 | NACHT and WD repeat domain containing 1 | |
|
2 | 2 | ||||||
| MIRT586522 | Ndor1 | NADPH dependent diflavin oxidoreductase 1 | |
|
2 | 2 | ||||||
| MIRT586601 | Mob3c | MOB kinase activator 3C | |
1 | 1 | |||||||
| MIRT586637 | Mettl2 | methyltransferase like 2 | |
|
2 | 4 | ||||||
| MIRT586649 | Med16 | mediator complex subunit 16 | |
|
2 | 4 | ||||||
| MIRT586712 | Lmbrd1 | LMBR1 domain containing 1 | |
|
2 | 2 | ||||||
| MIRT586754 | Kif1c | kinesin family member 1C | |
|
2 | 4 | ||||||
| MIRT586876 | Hyal1 | hyaluronoglucosaminidase 1 | |
|
2 | 2 | ||||||
| MIRT586894 | Hsbp1l1 | heat shock factor binding protein 1-like 1 | |
|
2 | 4 | ||||||
| MIRT586970 | Gprc5c | G protein-coupled receptor, family C, group 5, member C | |
|
2 | 2 | ||||||
| MIRT587001 | Gpi1 | glucose phosphate isomerase 1 | |
|
2 | 2 | ||||||
| MIRT587030 | Gmip | Gem-interacting protein | |
|
2 | 4 | ||||||
| MIRT587078 | Glt28d2 | glycosyltransferase 28 domain containing 2 | |
|
2 | 2 | ||||||
| MIRT587084 | Glrx2 | glutaredoxin 2 (thioltransferase) | |
|
2 | 2 | ||||||
| MIRT587110 | Gga2 | golgi associated, gamma adaptin ear containing, ARF binding protein 2 | |
|
2 | 4 | ||||||
| MIRT587136 | Gemin8 | gem nuclear organelle associated protein 8 | |
|
2 | 4 | ||||||
| MIRT587209 | Fbxo22 | F-box protein 22 | |
|
2 | 2 | ||||||
| MIRT587288 | F10 | coagulation factor X | |
|
2 | 2 | ||||||
| MIRT587366 | E130311K13Rik | RIKEN cDNA E130311K13 gene | |
|
2 | 4 | ||||||
| MIRT587685 | Cdh1 | cadherin 1 | |
|
2 | 4 | ||||||
| MIRT587831 | Casp8 | caspase 8 | |
|
2 | 2 | ||||||
| MIRT587890 | BC026590 | family with sequence similarity 206, member A | |
|
2 | 2 | ||||||
| MIRT587914 | Bambi | BMP and activin membrane-bound inhibitor | |
|
2 | 2 | ||||||
| MIRT587925 | B4galnt2 | beta-1,4-N-acetyl-galactosaminyl transferase 2 | |
|
2 | 4 | ||||||
| MIRT587936 | Atpbd4 | diphthamine biosynthesis 6 | |
|
2 | 4 | ||||||
| MIRT587999 | Alox12 | arachidonate 12-lipoxygenase | |
|
2 | 4 | ||||||
| MIRT588045 | Aida | axin interactor, dorsalization associated | |
|
2 | 4 | ||||||
| MIRT588085 | Agtrap | angiotensin II, type I receptor-associated protein | |
|
2 | 2 | ||||||
| MIRT588096 | Afg3l1 | AFG3-like AAA ATPase 1 | |
|
2 | 4 | ||||||
| MIRT588129 | Abcd4 | ATP-binding cassette, sub-family D (ALD), member 4 | |
|
2 | 2 | ||||||
| MIRT588170 | Rmi2 | RecQ mediated genome instability 2 | |
1 | 1 | |||||||
| MIRT588242 | Ndufaf7 | NADH dehydrogenase (ubiquinone) 1 alpha subcomplex assembly factor 7 | |
1 | 1 | |||||||
| MIRT588327 | Zfyve27 | zinc finger, FYVE domain containing 27 | |
|
2 | 4 | ||||||
| MIRT588352 | Zfp568 | zinc finger protein 568 | |
|
2 | 2 | ||||||
| MIRT588404 | Zdhhc20 | zinc finger, DHHC domain containing 20 | |
|
2 | 2 | ||||||
| MIRT588707 | Tecpr2 | tectonin beta-propeller repeat containing 2 | |
|
2 | 2 | ||||||
| MIRT589367 | Ogdh | oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide) | |
|
2 | 4 | ||||||
| MIRT589444 | Ncl | nucleolin | |
|
2 | 4 | ||||||
| MIRT589531 | Mob4 | MOB family member 4, phocein | |
1 | 1 | |||||||
| MIRT589565 | Mau2 | MAU2 sister chromatid cohesion factor | |
|
2 | 2 | ||||||
| MIRT589582 | Magt1 | magnesium transporter 1 | |
|
2 | 4 | ||||||
| MIRT589727 | Kif11 | kinesin family member 11 | |
|
2 | 2 | ||||||
| MIRT590244 | Diap2 | diaphanous related formin 2 | |
|
2 | 4 | ||||||
| MIRT590282 | Dcp2 | decapping mRNA 2 | |
|
2 | 2 | ||||||
| MIRT590303 | Cxcl11 | chemokine (C-X-C motif) ligand 11 | |
|
2 | 2 | ||||||
| MIRT590350 | Cntn2 | contactin 2 | |
|
2 | 4 | ||||||
| MIRT590451 | Car5b | carbonic anhydrase 5b, mitochondrial | |
|
2 | 2 | ||||||
| MIRT590775 | 5730455P16Rik | RIKEN cDNA 5730455P16 gene | |
|
2 | 2 | ||||||
| MIRT590785 | Epg5 | ectopic P-granules autophagy protein 5 homolog (C. elegans) | |
1 | 1 | |||||||
| MIRT596490 | Zfp959 | zinc finger protein 959 | |
|
2 | 2 | ||||||
| MIRT596696 | Zbtb8b | zinc finger and BTB domain containing 8b | |
|
2 | 2 | ||||||
| MIRT596734 | Wdfy1 | WD repeat and FYVE domain containing 1 | |
|
2 | 2 | ||||||
| MIRT596782 | Ubxn8 | UBX domain protein 8 | |
|
2 | 2 | ||||||
| MIRT596943 | Tmppe | transmembrane protein with metallophosphoesterase domain | |
|
2 | 2 | ||||||
| MIRT597221 | Slc7a2 | solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 | |
|
2 | 2 | ||||||
| MIRT597371 | Sap18 | Sin3-associated polypeptide 18 | |
|
2 | 2 | ||||||
| MIRT597391 | Rsad1 | radical S-adenosyl methionine domain containing 1 | |
|
2 | 2 | ||||||
| MIRT597748 | Pogk | pogo transposable element with KRAB domain | |
|
2 | 2 | ||||||
| MIRT597819 | Pkd2 | polycystic kidney disease 2 | |
|
2 | 2 | ||||||
| MIRT597872 | Pdxdc1 | pyridoxal-dependent decarboxylase domain containing 1 | |
|
2 | 2 | ||||||
| MIRT597993 | Npy1r | neuropeptide Y receptor Y1 | |
|
2 | 2 | ||||||
| MIRT598186 | Mrpl19 | mitochondrial ribosomal protein L19 | |
|
2 | 2 | ||||||
| MIRT598676 | Hltf | helicase-like transcription factor | |
|
2 | 2 | ||||||
| MIRT598700 | Haus2 | HAUS augmin-like complex, subunit 2 | |
|
2 | 2 | ||||||
| MIRT598897 | Gla | galactosidase, alpha | |
|
2 | 2 | ||||||
| MIRT599113 | Ecd | ecdysoneless homolog (Drosophila) | |
|
2 | 2 | ||||||
| MIRT599289 | Cxcr2 | chemokine (C-X-C motif) receptor 2 | |
|
2 | 2 | ||||||
| MIRT599320 | Comt | catechol-O-methyltransferase | |
|
2 | 2 | ||||||
| MIRT599376 | Cml3 | N-acetyltransferase 8 (GCN5-related) family member 3 | |
|
2 | 2 | ||||||
| MIRT599495 | Ccdc78 | coiled-coil domain containing 78 | |
|
2 | 2 | ||||||
| MIRT599730 | Anapc16 | anaphase promoting complex subunit 16 | |
|
2 | 2 | ||||||
| MIRT600302 | Taf1 | TATA-box binding protein associated factor 1 | |
|
2 | 2 | ||||||
| MIRT600940 | Elk1 | ELK1, member of ETS oncogene family | |
|
2 | 2 | ||||||
| MIRT601239 | Abl2 | v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene) | |
|
2 | 2 | ||||||
| MIRT601595 | Slx1b | SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae) | |
|
2 | 2 | ||||||
| MIRT601758 | Rapgef4 | Rap guanine nucleotide exchange factor (GEF) 4 | |
|
2 | 2 | ||||||
| MIRT601823 | Prpf31 | pre-mRNA processing factor 31 | |
|
2 | 2 | ||||||
| MIRT601838 | Polr3f | polymerase (RNA) III (DNA directed) polypeptide F | |
|
2 | 2 | ||||||
| MIRT601913 | Opa3 | optic atrophy 3 | |
|
2 | 2 | ||||||
| MIRT602113 | Krr1 | KRR1, small subunit (SSU) processome component, homolog (yeast) | |
|
2 | 2 | ||||||
| MIRT602125 | Klhl24 | kelch-like 24 | |
|
2 | 2 | ||||||
| MIRT602173 | Ifngr2 | interferon gamma receptor 2 | |
|
2 | 2 | ||||||
| MIRT602382 | Fam86 | eukaryotic elongation factor 2 lysine methyltransferase | |
|
2 | 2 | ||||||
| MIRT602466 | Dnal1 | dynein, axonemal, light chain 1 | |
1 | 1 | |||||||
| MIRT602570 | Crtc3 | CREB regulated transcription coactivator 3 | |
|
2 | 2 | ||||||
| MIRT603746 | Mpv17 | MpV17 mitochondrial inner membrane protein | |
|
2 | 2 | ||||||
| MIRT604411 | Adam28 | a disintegrin and metallopeptidase domain 28 | |
|
2 | 2 | ||||||
| MIRT604653 | Snx30 | sorting nexin family member 30 | |
|
2 | 2 | ||||||
| MIRT605138 | Clmn | calmin | |
|
2 | 2 | ||||||
| MIRT605173 | Bri3bp | Bri3 binding protein | |
|
2 | 2 | ||||||
| MIRT605632 | Mfsd11 | major facilitator superfamily domain containing 11 | |
|
2 | 2 | ||||||
| MIRT605648 | Mapre1 | microtubule-associated protein, RP/EB family, member 1 | |
|
2 | 2 | ||||||
| MIRT605835 | Cd300a | CD300A molecule | |
|
2 | 2 | ||||||
| MIRT605892 | 2010109I03Rik | RIKEN cDNA 2010109I03 gene | |
|
2 | 2 | ||||||
| MIRT605992 | Lima1 | LIM domain and actin binding 1 | |
|
2 | 2 | ||||||
| MIRT606568 | Tstd3 | thiosulfate sulfurtransferase (rhodanese)-like domain containing 3 | |
1 | 1 | |||||||
| MIRT606612 | Sfn | stratifin | |
|
2 | 2 | ||||||