pre-miRNA Information | |
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pre-miRNA | hsa-mir-1277 |
Genomic Coordinates | chrX: 118386394 - 118386471 |
Synonyms | MIRN1277, hsa-mir-1277, MIR1277 |
Description | Homo sapiens miR-1277 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-1277-5p | |||||||||||||||||||||||||||
Sequence | 8| AAAUAUAUAUAUAUAUGUACGUAU |31 | |||||||||||||||||||||||||||
Evidence | Not_experimental | |||||||||||||||||||||||||||
Experiments | ||||||||||||||||||||||||||||
Editing Events in miRNAs |
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SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Gene Symbol | SLC7A11 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Synonyms | CCBR1, xCT | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Description | solute carrier family 7 member 11 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Transcript | NM_014331 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Expression | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Putative miRNA Targets on SLC7A11 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
3'UTR of SLC7A11 (miRNA target sites are highlighted) |
>SLC7A11|NM_014331|3'UTR 1 ACTAATGGACTTGAGATCTTGGCAATCTGCCCAAGGGGAGACACAAAATAGGGATTTTTACTTCATTTTCTGAAAGTCTA 81 GAGAATTACAACTTTGGTGATAAACAAAAGGAGTCAGTTATTTTTATTCATATATTTTAGCATATTCGAACTAATTTCTA 161 AGAAATTTAGTTATAACTCTATGTAGTTATAGAAAGTGAATATGCAGTTATTCTATGAGTCGCACAATTCTTGAGTCTCT 241 GATACCTACCTATTGGGGTTAGGAGAAAAGACTAGACAATTACTATGTGGTCATTCTCTACAACATATGTTAGCACGGCA 321 AAGAACCTTCAAATTGAAGACTGAGATTTTTCTGTATATATGGGTTTTGTAAAGATGGTTTTACACACTATAGATGTCTA 401 TACTGTGAAAAGTGTTTTCAATTCTGAAAAAAAGCATACATCATGATTATGGCAAAGAGGAGAGAAAGAAATTTATTTTA 481 CATTGACATTGCATTGCTTCCCCTTAGATACCAATTTAGATAACAAACACTCATGCTTTAATGGATTATACCCAGAGCAC 561 TTTGAACAAAGGTCAGTGGGGATTGTTGAATACATTAAAGAAGAGTTTCTAGGGGCTACTGTTTATGAGACACATCCAGG 641 AGTTATGTTTAAGTAAAAATCCTTGAGAATTTATTATGTCAGATGTTTTTTCATTCATTATCAGGAAGTTTTAGTTATCT 721 GTCATTTTTTTTTTTCACATCAGTTTGATCAGGAAAGTGTATAACACATCTTAGAGCAAGAGTTAGTTTGGTATTAAATC 801 CTCATTAGAACAACCACCTGTTTCACTAATAACTTACCCCTGATGAGTCTATCTAAACATATGCATTTTAAGCCTTCAAA 881 TTACATTATCAACATGAGAGAAATCACCAACAAAGAAGATGTTCAAAATAATAGTCCCATATCTGTAATCATATCTACAT 961 GCAATGTTAGTAATTCTGAAGTTTTTTAAATTTATGGCTATTTTTACACGATGATGAATTTTGACAGTTTGTGCATTTTC 1041 TTTATACATTTTATATTCTTCTGTTAAAATATCTCTTCAGATGAAACTGTCCAGATTAATTAGGAAAAGGCATATATTAA 1121 CATAAAAATTGCAAAAGAAATGTCGCTGTAAATAAGATTTACAACTGATGTTTCTAGAAAATTTCCACTTCTATATCTAG 1201 GCTTTGTCAGTAATTTCCACACCTTAATTATCATTCAACTTGCAAAAGAGACAACTGATAAGAAGAAAATTGAAATGAGA 1281 ATCTGTGGATAAGTGTTTGTGTTCAGAAGATGTTGTTTTGCCAGTATTAGAAAATACTGTGAGCCGGGCATGGTGGCTTA 1361 CATCTGTAATCCCAGCACTTTGGGAGGCTGAGGGGGTGGATCACCTGAGGTCGGGAGTTCTAGACCAGCCTGACCAACAT 1441 GGAGAAACCCCATCTCTACTAAAAATACAAAATTAGCTGGGCATGGTGGCACATGCTGGTAATCTCAGCTATTGAGGAGG 1521 CTGAGGCAGGAGAATTGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCAAGATTGCACCACTGTACTCCAGCCTGGGT 1601 GACAAAGTCAGACTCCATCTCCAAAAAAAAAAGATTATATATATATATATATGTGTGTGTATGTGTGTGTGTGTGTGTGT 1681 GTGTATATATATATATATATATATACACACACACACACACACTTTTTATATATATATATATATATATATAGTGGAACTTA 1761 CAAATGAGAGTAATATAATGATGAAATTTTGAACTGTTATTTATAAACATCTAAGGTAAAATGGTTAGTCATGGCCAGAG 1841 TATGTTTCATCCTTTAATTTTTGTCCATTTGAAAATAAGGATTTTTGAAAGAATTATACCAATTAAAATTATTAAAGGCA 1921 AACATAGAATTCATAAAAAATTGTCCAAAGTAGAAATGATGACCTATAATTTGGAGCATTTCCAATTCAGTAATTTCAAT 2001 TTTGCTCTTGAAAACATTTAATATATATCCAAGACTGACATTTCTTTAGCTGAACCTAACGTTTGGGTCTCTGAGTGAAT 2081 TTATAATAACTCCTTCCTTCCTTAGCATAGGGTTTTCAAAATTTGATTTATAATTCCTATTTCCAGTAAATATTGTTCAT 2161 TTGTCCACATCTCTCCCTATGATATGTTGCTGGAGGTAAGAATTTCTTTCATATTCCTATTTTTTTTTTCCCCATAGACT 2241 AGGCTCATAGAATTTAAACAAGCAAATTTTCCTGAGCTTTTTCTTGCCAAATGAAAGAAGACTGGTAAATTCTCATAGAG 2321 AGGTTTGTGTAGTTCTTGGCTCTTCCTGGGGTTAATGTGCTTATATTCACAGTGGCAAATTGGTCTCAGACTTTAATTTA 2401 TTTATTTTTGATTTGAATTTCTCTTTAAAAGTATCAATTTAAAAGGTAACTAGAATTATTCTTTCTCATTTTCAAAAGTG 2481 ATTTTTGCATTATTAAATTTCCCTGCCATTGTAATGCCATTTCACGCAGAAAAAAAGTCAGCCAGTAATTAAGAAAAAAA 2561 GTGATGGAGATTAAGTAGTATTTTGGCTTATTTTTAGGACTCATCATGAGAAGACACAGTTCCTTTAATCAGGAAATTAA 2641 TATCCATAATTTTCACTCAAAATTGCAGTATGTAAAGCAGATTCTCAAAAACTCTCCTGAACACTTATTTATATATATGT 2721 TTTTATATAAGTAAAATTTTTCTCATATTTTTATACGATATGCACACACACACATACATGCACATACTACTTACTACATG 2801 TTCTGTACTTGTACTTTGTACCATGCATATTCAAATGTTTATATACATAAGTTTATTATAACATAAACAGTAAAAGTAAT 2881 GAATACTGTTTAAAATAACTAATATAGTATTTTTTAATTTTTGTGGGGATGGATTCTCAAATACTTGTGATTTTAAAAGA 2961 TTCTAAAGCTAAAACACAACTTGATTTTAAAAAGAATGATTCTCCTTACACAATTATAAATATTTGCAGTAAATATTTTC 3041 CTTATAATACTGTTTTGACCCCATTTAAAAAGTATTAGATTATATTCCTTTGATCCAATGAAAACTGAACCTTATAAATG 3121 GTTAGCTGAAAGTAGACCTTATTCTTGTCCTTCTTTAGAAGAGTAAAGATTTGTCCTAGGGAAGATGGCTGACTTCGGTT 3201 CCCAACATGCGTATGCATTTAGACTGTAGCTCCTCAGCCCTGTGGACACAAAATTTGGACAGCTTATTAGGTTACGTTAG 3281 CAATGCATGACGGTTTCTCCAACACTAAGATATTCACGTTGAAACAGATTTCCTGTTCGTCTTATGTGTCTGGTAAAATT 3361 GTTTCCCCAATTACAATTTGACATATCAATAGAGGGTTAACAAGAGTATAATTACATAACAGAATTCCTCATGAACTGTA 3441 ATCAGTCTACAGGAAAATCATTATTTTATCTTGATTTGCAGATGAATATACTGCTAAGAAAGGGAGCAACTCTGACCTTT 3521 GTTAAAGTTGATCTTTTGTAATTGAGGTATAAGGTATGAAAAGATAAAAAACCGAAGGCCAGAGAATCAGGAAATGAAAG 3601 ATAGTATGGACTGAAGGTAACAATATTTTAATGTTATGCAATATAGTCAGAGAAATATTAAAAATTAGTTGTTTGCTGTG 3681 CATAGGTGGATCTCGCAGGAAGCTAATGAAACCTAAGCTTCAGTGCCTCTCACTTAGACATGTTCCATTCGAGGTCCTGA 3761 ACCTAACTTTGTATTAGGAATTCTGTACTAATTTTGTTGAAGAAGACCAGCAAAGTTGTGTACACTTCTACCCCCACAAA 3841 ATCTGCATTGTCCATGTGAGTAAAGTAAAATAATTCCTGTTATTTTTTTCTGTTAGAAATAAGTATGGAGGATATGTTTT 3921 TAAAAATTTATGAGTTAATTGAAATATCCATATATAACAAGTGACTTTCTCACAATATATATGATGTGATATATAGGGAG 4001 ATAGTTTCACTTTCATCATATTTTATACGTTGATTCTGAACTATAGAAAAATAATAAATGGGATTTTAATTATAGCTCTT 4081 AGTTGGGAAAGAAATATAGAGAGATGTGGGATTTGAATGCCCATGAAAGACATTTTATTTTACTTGAATATATTCTTGCT 4161 TCACTTTACCCTCCATAATATGTTGTACATTAGTGCTGATCAAGTTTACAGAGTTACATTTTGCTTTCCTAACCATTCAG 4241 TCAGGAATTAAAATATGGCATTGTATAACAACTGGGAAGAAGCTCATAGTGGATATAAATTAGAGTAGATAATGGGTCAC 4321 CTTGATAGCCTCTGTTTACATTACTTGTATATGGGCAAAATAATTATTACCTATACGTGTATTTAAGCTTAATTTTCATA 4401 TAAACAGTATTTTTAATCTATGTTAAAATAGATAATATCTAAAAGTGTGATCTCTAGGTAGTCCTTAGTTTATTAGTACT 4481 GTACTTCAAAAAGATTTTTAAATAGGTCCGGCACGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGG 4561 CGAATCACCTGAGGTCAGGAGTTCGAGATCAGCCTGGCCAACATGGTGAAACCCTGTCTCAACTAAAAATATAAAAATTA 4641 GCCGGGCGTGGTGGCAGGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCAAGGGGCAG 4721 AAGCTGCAGTTAGCCAAGATCGCATCATTGCACTCCAGCCTAGGGGACAAGAGCGCGAGACTTCATCTCAAAAAAAAAAA 4801 AAAAAAAAAAAAAAGATTTTTAAATAATAGCTAAAGGTATGCTCTCTAGGTCATCCTTAGTTTATTAGTACTGTACTTAA 4881 AAATTATTTTTTAATAGTCAATTTTGGGAGATAATTATTTCTTTCCTTATATTTTCCAATTAGTTGGTGTCTAAAAATAA 4961 ATGTTTTGTCTAATTTTAGATCAGGTATACATTCACAAAAGCATAAATCATAGTCTCACAGGAAATTCACCAATTTTCCA 5041 TATGTCGTGAGATAACTGTCCTTTCTACAACCTCATAACAATGAATTTATATAATTACCTAGATTTTCTTAGTGTGAATC 5121 TACCCATTAGTTTTATTTTCTTGGTAGTTATTTTTTTCCCTCCTCTCTGTTACTATTGGCCTTAAAATACACAGAGGACG 5201 GTTACAGTGTCCTAATAGCTGTTACATGTGTGTGTTTCAGCGTACTTGAATCAAGTGTACATTTATAGTACCAATAACCG 5281 CCTTTACAGCTTTACAGTTAACAATTCTCTCACAAAACTGTAGAGCATTAGGCATCTGAGAGCCATAGAGGGCCAACTTT 5361 GTTCCAGAGTGAACATGCTTTTTTTCCTCAACATATACACTACTGATTTTTTTTAAAAGTATGACTTTCAAGTGAATTAA 5441 TGTATTGGTTAGGAGAACTGCTTGCTAAGTCCTTATTACCTCTTGTTAAAGCCTCAGAAGGCCGTGCTGAAAGCCAGAGG 5521 GGAAAAAAAGAGTAATGCACAGGTATCTCTTTTGCAGTGGTGACTGTATTTTGAGTACCTTGTGTGACAGGGTATTATTA 5601 CAGCATCTTGTGGGAAAACCTATTAGGCCTTTGCATGTTAAAGCTGTATAATTTGTTGGGTTGTGAGTGGTCTGACTTAA 5681 ATGTGTATTATAAAATTTAGACATCAAATTTTCCTACTAACTAACTTTATTAGATGCATACTTGGAAGCACAGTCATATC 5761 ACACTGGGAGGCAATGCAATGTGGTTACCTGGTCCTAGGTTTGAACTGTCTTATTTCAAAAGATTTCTGAATTAATTTTT 5841 CCCTAGAATTTCTCCTTCATTCCAAAGTACAAACATACTTTGAAGAATGAAACAGATTGTTCCCATGAATGTATGCTCAT 5921 ACTCGACTAGAAACGATCTATGTTAAATGACTGTGTATATGAATTATTTCAAGTACTACCCCAAATAACTTTCTTATTGC 6001 TCTGAAAGAAGAAAAGCAATGTAAATCACTATGATTATTGCACAAACAACCAGAATTCTCCAACAATTTTAAGTAATCTG 6081 ATCCTCTTCTTGGAGAAAATTGTTACCTAATAGTTTTTCCTTATGAATGTTATTACTACTGGTATAAATCAAATTTCTAT 6161 AAATTTCCTACTTAAGTCTTAAGAACTGGGTTCTTCCTTTGATGTTATTCATGTTCAGAAAGGAAACAACACTTTACTCT 6241 TTTAGGACAATTCCTAGAATCTATAGTAGTATCAGGATATATTTTGCTTTAAAATATATTTTGGTTATTTTGAATACAGA 6321 CATTGGCTCCAAATTTTCATCTTTGCACAATAGTATGACTTTTCACTAGAACTTCTCAACATTTGGGAACTTTGCAAATA 6401 TGAGCATCATATGTGTTAAGGCTGTATCATTTAATGCTATGAGATACATTGTTTTCTCCCTATGCCAAACAGGTGAACAA 6481 ACGTAGTTGTTTTTTACTGATACTAAATGTTGGCTACCTGTGATTTTATAGTATGCACATGTCAGAAAAAGGCAAGACAA 6561 ATGGCCTCTTGTACTGAATACTTCGGCAAACTTATTGGGTCTTCATTTTCTGACAGACAGGATTTGACTCAATATTTGTA 6641 GAGCTTGCGTAGAATGGATTACATGGTAGTGATGCACTGGTAGAAATGGTTTTTAGTTATTGACTCAGAATTCATCTCAG 6721 GATGAATCTTTTATGTCTTTTTATTGTAAGCATATCTGAATTTACTTTATAAAGATGGTTTTAGAAAGCTTTGTCTAAAA 6801 ATTTGGCCTAGGAATGGTAACTTCATTTTCAGTTGCCAAGGGGTAGAAAAATAATATGTGTGTTGTTATGTTTATGTTAA 6881 CATATTATTAGGTACTATCTATGAATGTATTTAAATATTTTTCATATTCTGTGACAAGCATTTATAATTTGCAACAAGTG 6961 GAGTCCATTTAGCCCAGTGGGAAAGTCTTGGAACTCAGGTTACCCTTGAAGGATATGCTGGCAGCCATCTCTTTGATCTG 7041 TGCTTAAACTGTAATTTATAGACCAGCTAAATCCCTAACTTGGATCTGGAATGCATTAGTTATGACCTTGTACCATTCCC 7121 AGAATTTCAGGGGCATCGTGGGTTTGGTCTAGTGATTGAAAACACAAGAACAGAGAGATCCAGCTGAAAAAGAGTGATCC 7201 TCAATATCCTAACTAACTGGTCCTCAACTCAAGCAGAGTTTCTTCACTCTGGCACTGTGATCATGAAACTTAGTAGAGGG 7281 GATTGTGTGTATTTTATACAAATTTAATACAATGTCTTACATTGATAAAATTCTTAAAGAGCAAAACTGCATTTTATTTC 7361 TGCATCCACATTCCAATCATATTAGAACTAAGATATTTATCTATGAAGATATAAATGGTGCAGAGAGACTTTCATCTGTG 7441 GATTGCGTTGTTTCTTAGGGTTCCTAGCACTGATGCCTGCACAAGCATGTGATATGTGAAATAAAATGGATTCTTCTATA 7521 GCTAAATGAGTTCCCTCTGGGGAGAGTTCTGGTACTGCAATCACAATGCCAGATGGTGTTTATGGGCTATTTGTGTAAGT 7601 AAGTGGTAAGATGCTATGAAGTAAGTGTGTTTGTTTTCATCTTATGGAAACTCTTGATGCATGTGCTTTTGTATGGAATA 7681 AATTTTGGTGCAATATGATGTCATTCAACTTTGCATTGAATTGAATTTTGGTTGTATTTATATGTATTATACCTGTCACG 7761 CTTCTAGTTGCTTCAACCATTTTATAACCATTTTTGTACATATTTTACTTGAAAATATTTTAAATGGAAATTTAAATAAA 7841 CATTTGATAGTTTACATAATAA 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 |
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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
... - 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 | HEK293 |
Disease | 23657.0 |
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 GSM714642. RNA binding protein: AGO2. Condition:completeT1
"HITS-CLIP data was present in GSM714643. RNA binding protein: AGO2. Condition:completeT1
"PAR-CLIP data was present in GSM714644. RNA binding protein: AGO2. Condition:completeT1
... - Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods. |
Article |
- Kishore S; Jaskiewicz L; Burger L; Hausser et al. - Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
|
Experimental Support 3 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
Conditions | hESCs (WA-09) |
Disease | 23657.0 |
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine
... - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development. |
Article |
- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al. - Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
|
Experimental Support 4 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
Conditions | 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 GSM1048188. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_ptb_knockdown
... - Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al., 2013, Cell. |
Article |
- Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al. - Cell, 2013
The induction of pluripotency or trans-differentiation of one cell type to another can be accomplished with cell-lineage-specific transcription factors. Here, we report that repression of a single RNA binding polypyrimidine-tract-binding (PTB) protein, which occurs during normal brain development via the action of miR-124, is sufficient to induce trans-differentiation of fibroblasts into functional neurons. Besides its traditional role in regulated splicing, we show that PTB has a previously undocumented function in the regulation of microRNA functions, suppressing or enhancing microRNA targeting by competitive binding on target mRNA or altering local RNA secondary structure. A key event during neuronal induction is the relief of PTB-mediated blockage of microRNA action on multiple components of the REST complex, thereby derepressing a large array of neuronal genes, including miR-124 and multiple neuronal-specific transcription factors, in nonneuronal cells. This converts a negative feedback loop to a positive one to elicit cellular reprogramming to the neuronal lineage.
LinkOut: [PMID: 23313552]
|
Experimental Support 5 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
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 GSM1084042. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep2
HITS-CLIP data was present in GSM1084045. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep3
HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_AbnovaAb
HITS-CLIP data was present in GSM1084082. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_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]
|
Experimental Support 6 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
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
HITS-CLIP data was present in GSM2202481. RNA binding protein: AGO2. Condition:S6_LV_61yo_Male_AGO2_bound_RNA
HITS-CLIP data was present in GSM2202480. RNA binding protein: AGO2. Condition:S5_LV_36yo_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]
|
CLIP-seq Support 1 for dataset GSM714642 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repA |
Location of target site | ENST00000280612.5 | 3UTR | AAGAUUAUAUAUAUAUAUA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM714643 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repB |
Location of target site | ENST00000280612.5 | 3UTR | GUGUAUAUAUAUAUAUAUAUAUAUACACAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM1048188 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | Hela / Hela_AGO2_CLIP_ptb_knockdown |
Location of target site | ENST00000280612.5 | 3UTR | GUGUAUAUAUAUAUAUAUAUAUAUAC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23313552 / GSE42701 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM1084042 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noarsenite_rep2 |
Location of target site | ENST00000280612.5 | 3UTR | UAUAUGUGUGUGUAUGUGUGUGUGUGU |
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 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep3 |
Location of target site | ENST00000280612.5 | 3UTR | AUGUGUGUGUGUGUGUGUGUGUGUAU |
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 GSM1084079 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000280612.5 | 3UTR | GUAUGUGUGUGUGUGUGUGUGUGUGUAU |
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 GSM1084082 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_SigmaAb |
Location of target site | ENST00000280612.5 | 3UTR | GUAUGUGUGUGUGUGUGUGUGUGUGUAUAUAUA |
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 GSM545212 | |
---|---|
Method / RBP | PAR-CLIP / AGO1 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000280612.5 | 3UTR | UAUACACACACACACACACACUUUUU |
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 GSM714644 | |
---|---|
Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repA |
Location of target site | ENST00000280612.5 | 3UTR | UUUUUAUAUAUAUAUAUAUAUAUAUA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
CLIP-seq Support 10 for dataset SRR359787 | |
---|---|
Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | hESCs (WA-09) / 4-thiouridine, RNase T1 |
Location of target site | ENST00000280612.5 | 3UTR | UAUACACACACACACACACACUUUUU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 22012620 / SRX103431 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT056754 | ARID5B | AT-rich interaction domain 5B | 2 | 4 | ||||||||
MIRT061744 | ATP2B4 | ATPase plasma membrane Ca2+ transporting 4 | 2 | 2 | ||||||||
MIRT061749 | PPP1R15B | protein phosphatase 1 regulatory subunit 15B | 2 | 2 | ||||||||
MIRT064112 | ERGIC2 | ERGIC and golgi 2 | 2 | 2 | ||||||||
MIRT064651 | YAF2 | YY1 associated factor 2 | 2 | 4 | ||||||||
MIRT064836 | ZBTB18 | zinc finger and BTB domain containing 18 | 2 | 4 | ||||||||
MIRT067662 | ZIC5 | Zic family member 5 | 2 | 6 | ||||||||
MIRT069282 | HSP90AA1 | heat shock protein 90 alpha family class A member 1 | 2 | 6 | ||||||||
MIRT070956 | ZFP36L1 | ZFP36 ring finger protein like 1 | 2 | 2 | ||||||||
MIRT071145 | NUMB | NUMB, endocytic adaptor protein | 2 | 2 | ||||||||
MIRT074785 | PAPD5 | poly(A) RNA polymerase D5, non-canonical | 2 | 6 | ||||||||
MIRT075264 | SNTB2 | syntrophin beta 2 | 2 | 4 | ||||||||
MIRT075446 | PSMD7 | proteasome 26S subunit, non-ATPase 7 | 2 | 6 | ||||||||
MIRT076212 | ALKBH5 | alkB homolog 5, RNA demethylase | 2 | 2 | ||||||||
MIRT084669 | BTG3 | BTG anti-proliferation factor 3 | 2 | 6 | ||||||||
MIRT087151 | HIC2 | HIC ZBTB transcriptional repressor 2 | 2 | 6 | ||||||||
MIRT088873 | FOXN2 | forkhead box N2 | 2 | 12 | ||||||||
MIRT093119 | SLC7A11 | solute carrier family 7 member 11 | 2 | 10 | ||||||||
MIRT096246 | CANX | calnexin | 2 | 2 | ||||||||
MIRT097122 | TNPO1 | transportin 1 | 2 | 2 | ||||||||
MIRT097389 | LHFPL2 | LHFPL tetraspan subfamily member 2 | 2 | 2 | ||||||||
MIRT100756 | VEGFA | vascular endothelial growth factor A | 2 | 4 | ||||||||
MIRT100865 | CD2AP | CD2 associated protein | 2 | 4 | ||||||||
MIRT101318 | FAM135A | family with sequence similarity 135 member A | 2 | 2 | ||||||||
MIRT103531 | HOXA9 | homeobox A9 | 2 | 2 | ||||||||
MIRT105845 | DDHD2 | DDHD domain containing 2 | 2 | 2 | ||||||||
MIRT111511 | ASH1L | ASH1 like histone lysine methyltransferase | 2 | 2 | ||||||||
MIRT113092 | CCND2 | cyclin D2 | 2 | 4 | ||||||||
MIRT116209 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | 2 | 6 | ||||||||
MIRT117356 | TGIF1 | TGFB induced factor homeobox 1 | 2 | 4 | ||||||||
MIRT122389 | RGMB | repulsive guidance molecule family member b | 2 | 4 | ||||||||
MIRT126100 | USP6NL | USP6 N-terminal like | 2 | 10 | ||||||||
MIRT163363 | PRKCD | protein kinase C delta | 2 | 4 | ||||||||
MIRT163466 | WNT5A | Wnt family member 5A | 2 | 4 | ||||||||
MIRT164377 | CPEB2 | cytoplasmic polyadenylation element binding protein 2 | 2 | 2 | ||||||||
MIRT181785 | UHMK1 | U2AF homology motif kinase 1 | 2 | 4 | ||||||||
MIRT182290 | POU2F1 | POU class 2 homeobox 1 | 2 | 2 | ||||||||
MIRT193652 | RORA | RAR related orphan receptor A | 2 | 4 | ||||||||
MIRT198842 | C18ORF25 | chromosome 18 open reading frame 25 | 2 | 2 | ||||||||
MIRT201466 | SNRPB2 | small nuclear ribonucleoprotein polypeptide B2 | 2 | 8 | ||||||||
MIRT214454 | SAR1B | secretion associated Ras related GTPase 1B | 2 | 2 | ||||||||
MIRT223276 | TRIM4 | tripartite motif containing 4 |