pre-miRNA Information | |
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pre-miRNA | hsa-mir-6871 |
Genomic Coordinates | chr20: 41169023 - 41169078 |
Description | Homo sapiens miR-6871 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-6871-3p | |||||||||||||||||||||||||||
Sequence | 35| CAGCACCCUGUGGCUCCCACAG |56 | |||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||
Experiments | Meta-analysis | DRVs in miRNA |
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SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SLC26A9 | ||||||||||||||||||||
Synonyms | - | ||||||||||||||||||||
Description | solute carrier family 26 member 9 | ||||||||||||||||||||
Transcript | NM_052934 | ||||||||||||||||||||
Other Transcripts | NM_134325 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SLC26A9 | |||||||||||||||||||||
3'UTR of SLC26A9 (miRNA target sites are highlighted) |
>SLC26A9|NM_052934|3'UTR 1 GGGCTCAGCCAGTCCTCATGCTGCCTACAGAGTGCCTGGCACTTGGGACTTCCATAAAGGATGAGCCTGGGGTCACAGGG 81 GGTGTCGGGCGGAGGAAAGTGCATCCCCCAGAGCTTGGGTTCCTCTCTCCTCTCCCCCTCTCTCCTCCCTTCCTTCCCTC 161 CCCGCATCTCCAGAGAGAGCCTCTCAGCAGCAGGGGGGTGCTACCCTTACAGGAGTGAGAGTCTGGTGAGCCCACTCTTC 241 ACCCGTCAGGCCCTGGCCGCAATGGACAAGCCTCCTGCTCACTCCACCCCACCCACCTCTGCCCTGTCCTTGGCAGCTGA 321 AGGACACCTTGACTTCCAGCTTTTACGAGTGAGCCAAAAACAGAAGGACAAGTACAACTGTGCTGGCCTGCTGTACAAGC 401 TTCAAAAAGTGTCCCAGAGCCCACACGGCTCGGTGTCAGATGGTGTCAGGCTGTCACGGACATAGGGATAAACTTGGTTA 481 GGACTCTGGCTTGCCTTCCCCAGCTGCCTCAACTCTGTCTCTGGCAGCTCTGCACCCAGGGACCATGTGCTCTCCACACC 561 CAGGAGTCTAGGCCTTGGTAACTATGCGCCCCCCCTCCATCATCCCCAAGGCTGCCCAAACCACCACTGCTGTCAGCAAG 641 CACATCAGACTCTAGCCTGGACAGTGGCCAGGACCGTCGAGACCACCAGAGCTACCTCCCCGGGGACAGCCCACTAAGGT 721 TCTGCCTCAGCCTCCTGAAACATCACTGCCCTCAGAGGCTGCTCCCTTCCCCTGGAGGCTGGCTAGAAACCCCAAAGAGG 801 GGGATGGGTAGCTGGCAGAATCATCTGGCATCCTAGTAATAGATACCAGTTATTCTGCACAAAACTTTTGGGAATTCCTC 881 TTTGCACCCAGAGACTCAGAGGGGAAGAGGGTGCTAGTACCAACACAGGGAAAACGGATGGGACCTGGGCCCAGACAGTC 961 CCCCTTGACCCCAGGGCCCATCAGGGAAATGCCTCCCTTTGGTAAATCTGCCTTATCCTTCTTTACCTGGCAAAGAGCCA 1041 ATCATGTTAACTCTTCCTTATCAGCCTGTGGCCCAGAGACACAATGGGGTCCTTCTGTAGGCAAAGGTGGAAGTCCTCCA 1121 GGGATCCGCTACATCCCCTAACTGCATGCAGATGTGGAAAGGGGCTGATCCAGATTGGGTCTTCCTGCACAGGAAGACTC 1201 TTTAACACCCTTAGGACCTCAGGCCATCTTCTCCTATGAAGATGAAAATAGGGGTTAAGTTTTCCATATGTACAAGGAGG 1281 TATTGAGAGGAACCCTACTGTTGACTTGAAAATAAATAGGTTCCATGTGTAAGTGTTTTGTAAAATTTCAGTGGAAATGC 1361 ACAGAAAATCTTCTGGCCTCTCATCACTGCTTTTCTCAAGCTTCTTCAGCTTAACAACCCCTTCCCTAACAGGTTGGGCT 1441 GGCCCAGCCTAGGAAAACATCCCCATTTCTAACTTCAGCCAGACCTGCGTTGTGTGTCTGTGTGTTGAGTGAGCTGGTCA 1521 GCTAACAAGTCTTCTTAGAGTTAAAGGAGGGGGTGCTGGCCAAGAGCCAACACATTCTTGGCCCAGGAGCATTGCTTTTC 1601 TGTGAATTCATTATGCCATCTGGCTGCCAATGGAACTCAAAACTTGGAAGGCGAAGGACAATGTTATCTGGGATTCACCG 1681 TGCCCAGCACCCGAAGTGCCAAATTCCAGGAGGACAAGAGCCTTAGCCAATGACAACTCACTCTCCCCTACTCCACCTCC 1761 TTCCAAGTCCAGCTCAGGCCCAGGAGGTGGGAGAAGGTCACAGAGCCTCAGGAATTTCCAAGTCAGAGTCCCCTTTGAAC 1841 CAAGTATCTAGATCCCCTGAGGACTTGATGAAGTGATCCTTAACCCCCAAGTAATCATTAACCCCCAGACCAGCCTCAGA 1921 ACTGAAGGAGATTGTTGACCCAGTGACCTGGAGTTGAGGCTCAGGGAGAGATCTGCCACATGTCTGAGGGTTGCAGAGCC 2001 CGCTGTGGAGGTAAGATTGGAAACACATGAGGCAGAGGGAAGACATTGAAGAAAACATCTCTGCTGGAATATTTGGAAAA 2081 GAACACTCTTCTGGACCTGGTTGAAGCAGGAAAGATGGAGGCAAAGTAGTGAAATAATCCAGAATTTCAATGCTTTTGAA 2161 TGTTCTTAGTGATACTGACCTGTGATAATATAATTCCCAGGGAGGACTGGGAACCTTATCTCTTGAGATATTTGCATAAT 2241 TTATTTAATTTAAGCCTCATTCTCCTTTTGTTCATTTTGGTAATAAACTGGATTTGAATTGTGAACAAAAAAAAAAAAAA 2321 AAAAA Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
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miRNA:Target | ---- | ||||||
Validation Method |
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Conditions | 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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Karginov FV; Hannon GJ - Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
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CLIP-seq Support 1 for dataset GSM1084065 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_AbnovaAb |
Location of target site | ENST00000367135.3 | 3UTR | UAAAGGAGGGGGUGCUGGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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88 hsa-miR-6871-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT061678 | BTG2 | BTG anti-proliferation factor 2 | ![]() |
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2 | 4 | ||||||
MIRT116181 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT150139 | MIDN | midnolin | ![]() |
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2 | 2 | ||||||
MIRT197058 | NKIRAS2 | NFKB inhibitor interacting Ras like 2 | ![]() |
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2 | 2 | ||||||
MIRT225108 | GOLGA7 | golgin A7 | ![]() |
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2 | 2 | ||||||
MIRT376288 | CALM3 | calmodulin 3 | ![]() |
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2 | 2 | ||||||
MIRT454810 | NEDD9 | neural precursor cell expressed, developmentally down-regulated 9 | ![]() |
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2 | 2 | ||||||
MIRT464228 | VEGFA | vascular endothelial growth factor A | ![]() |
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2 | 6 | ||||||
MIRT466961 | STAT3 | signal transducer and activator of transcription 3 | ![]() |
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2 | 2 | ||||||
MIRT468219 | SGK1 | serum/glucocorticoid regulated kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT472460 | NASP | nuclear autoantigenic sperm protein | ![]() |
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2 | 2 | ||||||
MIRT474203 | LEPRE1 | prolyl 3-hydroxylase 1 | ![]() |
1 | 1 | |||||||
MIRT475836 | HDGF | heparin binding growth factor | ![]() |
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2 | 4 | ||||||
MIRT478667 | CTC1 | CST telomere replication complex component 1 | ![]() |
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2 | 14 | ||||||
MIRT478707 | CSRNP2 | cysteine and serine rich nuclear protein 2 | ![]() |
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2 | 2 | ||||||
MIRT478982 | COMMD2 | COMM domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT479693 | CCNT2 | cyclin T2 | ![]() |
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2 | 6 | ||||||
MIRT488440 | ULBP2 | UL16 binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT492511 | RAET1L | retinoic acid early transcript 1L | ![]() |
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2 | 2 | ||||||
MIRT492975 | NCS1 | neuronal calcium sensor 1 | ![]() |
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2 | 2 | ||||||
MIRT494158 | COL4A1 | collagen type IV alpha 1 chain | ![]() |
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2 | 6 | ||||||
MIRT495934 | SLC7A5P2 | solute carrier family 7 member 5 pseudogene 2 | ![]() |
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2 | 2 | ||||||
MIRT496210 | PLEKHG2 | pleckstrin homology and RhoGEF domain containing G2 | ![]() |
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2 | 2 | ||||||
MIRT496356 | PPY | pancreatic polypeptide | ![]() |
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2 | 2 | ||||||
MIRT496385 | ZC3H6 | zinc finger CCCH-type containing 6 | ![]() |
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2 | 2 | ||||||
MIRT496463 | DCTN5 | dynactin subunit 5 | ![]() |
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2 | 2 | ||||||
MIRT497642 | GLDN | gliomedin | ![]() |
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2 | 2 | ||||||
MIRT498496 | FRK | fyn related Src family tyrosine kinase | ![]() |
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2 | 2 | ||||||
MIRT501928 | MCL1 | MCL1, BCL2 family apoptosis regulator | ![]() |
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2 | 8 | ||||||
MIRT513286 | PDPK1 | 3-phosphoinositide dependent protein kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT514767 | RBM4B | RNA binding motif protein 4B | ![]() |
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2 | 2 | ||||||
MIRT514916 | MDM2 | MDM2 proto-oncogene | ![]() |
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2 | 6 | ||||||
MIRT515669 | LRRC27 | leucine rich repeat containing 27 | ![]() |
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2 | 2 | ||||||
MIRT520367 | UBE2G2 | ubiquitin conjugating enzyme E2 G2 | ![]() |
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2 | 2 | ||||||
MIRT523960 | DYNLT1 | dynein light chain Tctex-type 1 | ![]() |
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2 | 4 | ||||||
MIRT526859 | KIFC1 | kinesin family member C1 | ![]() |
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2 | 2 | ||||||
MIRT527673 | CASP8 | caspase 8 | ![]() |
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2 | 2 | ||||||
MIRT527828 | TMEM74B | transmembrane protein 74B | ![]() |
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2 | 2 | ||||||
MIRT529553 | EI24 | EI24, autophagy associated transmembrane protein | ![]() |
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2 | 2 | ||||||
MIRT530547 | SYNPO | synaptopodin | ![]() |
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2 | 2 | ||||||
MIRT531725 | TARS | threonyl-tRNA synthetase | ![]() |
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2 | 2 | ||||||
MIRT533340 | UNC119B | unc-119 lipid binding chaperone B | ![]() |
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2 | 2 | ||||||
MIRT533620 | TNFRSF13C | TNF receptor superfamily member 13C | ![]() |
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2 | 2 | ||||||
MIRT537226 | GAN | gigaxonin | ![]() |
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2 | 2 | ||||||
MIRT544430 | ZNF460 | zinc finger protein 460 | ![]() |
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2 | 4 | ||||||
MIRT546905 | PTP4A1 | protein tyrosine phosphatase type IVA, member 1 | ![]() |
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2 | 2 | ||||||
MIRT547102 | PLAG1 | PLAG1 zinc finger | ![]() |
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2 | 2 | ||||||
MIRT547820 | ISG20L2 | interferon stimulated exonuclease gene 20 like 2 | ![]() |
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2 | 2 | ||||||
MIRT548236 | FEM1B | fem-1 homolog B | ![]() |
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2 | 2 | ||||||
MIRT550034 | WWTR1 | WW domain containing transcription regulator 1 | ![]() |
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2 | 2 | ||||||
MIRT554337 | SH3GLB1 | SH3 domain containing GRB2 like, endophilin B1 | ![]() |
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2 | 4 | ||||||
MIRT565483 | SPRTN | SprT-like N-terminal domain | ![]() |
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2 | 2 | ||||||
MIRT568200 | CBX6 | chromobox 6 | ![]() |
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2 | 2 | ||||||
MIRT569754 | C2orf71 | chromosome 2 open reading frame 71 | ![]() |
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2 | 2 | ||||||
MIRT571369 | ZNF45 | zinc finger protein 45 | ![]() |
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2 | 2 | ||||||
MIRT609886 | CLASP1 | cytoplasmic linker associated protein 1 | ![]() |
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2 | 4 | ||||||
MIRT640543 | C3orf36 | chromosome 3 open reading frame 36 | ![]() |
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2 | 2 | ||||||
MIRT640885 | ENTPD1 | ectonucleoside triphosphate diphosphohydrolase 1 | ![]() |
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2 | 2 | ||||||
MIRT643494 | LRCH3 | leucine rich repeats and calponin homology domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT643627 | YY2 | YY2 transcription factor | ![]() |
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2 | 2 | ||||||
MIRT644384 | ZNF286A | zinc finger protein 286A | ![]() |
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2 | 2 | ||||||
MIRT646126 | SLC26A9 | solute carrier family 26 member 9 | ![]() |
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2 | 2 | ||||||
MIRT655939 | NDUFA4P1 | NDUFA4, mitochondrial complex associated pseudogene 1 | ![]() |
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2 | 2 | ||||||
MIRT656057 | MYLK4 | myosin light chain kinase family member 4 | ![]() |
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2 | 2 | ||||||
MIRT658767 | EIF4EBP2 | eukaryotic translation initiation factor 4E binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT661583 | EPHX2 | epoxide hydrolase 2 | ![]() |
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2 | 2 | ||||||
MIRT664285 | RNMTL1 | mitochondrial rRNA methyltransferase 3 | ![]() |
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2 | 2 | ||||||
MIRT689391 | ZNF850 | zinc finger protein 850 | ![]() |
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2 | 2 | ||||||
MIRT694530 | TRIM72 | tripartite motif containing 72 | ![]() |
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2 | 2 | ||||||
MIRT694626 | ZFPM1 | zinc finger protein, FOG family member 1 | ![]() |
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2 | 2 | ||||||
MIRT695133 | PRY2 | PTPN13-like, Y-linked 2 | ![]() |
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2 | 2 | ||||||
MIRT695150 | PRY | PTPN13-like, Y-linked | ![]() |
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2 | 2 | ||||||
MIRT697468 | ZC3H4 | zinc finger CCCH-type containing 4 | ![]() |
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2 | 2 | ||||||
MIRT701919 | MLXIP | MLX interacting protein | ![]() |
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2 | 2 | ||||||
MIRT704548 | CNBP | CCHC-type zinc finger nucleic acid binding protein | ![]() |
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2 | 2 | ||||||
MIRT704791 | CDK6 | cyclin dependent kinase 6 | ![]() |
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2 | 2 | ||||||
MIRT705696 | ANKRD13A | ankyrin repeat domain 13A | ![]() |
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2 | 2 | ||||||
MIRT707992 | OTUD4 | OTU deubiquitinase 4 | ![]() |
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2 | 2 | ||||||
MIRT708739 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT713401 | FAM179A | TOG array regulator of axonemal microtubules 2 | ![]() |
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2 | 2 | ||||||
MIRT713846 | FAM3D | family with sequence similarity 3 member D | ![]() |
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2 | 2 | ||||||
MIRT716998 | ARL6IP4 | ADP ribosylation factor like GTPase 6 interacting protein 4 | ![]() |
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2 | 2 | ||||||
MIRT718511 | DIRAS1 | DIRAS family GTPase 1 | ![]() |
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2 | 2 | ||||||
MIRT718698 | BTBD9 | BTB domain containing 9 | ![]() |
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2 | 2 | ||||||
MIRT719578 | TYRO3 | TYRO3 protein tyrosine kinase | ![]() |
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2 | 2 | ||||||
MIRT720892 | CSGALNACT1 | chondroitin sulfate N-acetylgalactosaminyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT722633 | C8A | complement C8 alpha chain | ![]() |
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2 | 2 | ||||||
MIRT723333 | DGAT1 | diacylglycerol O-acyltransferase 1 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||
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