pre-miRNA Information | |
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pre-miRNA | hsa-mir-6511b-1 |
Genomic Coordinates | chr16: 2106669 - 2106753 |
Description | Homo sapiens miR-6511b-1 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
pre-miRNA | hsa-mir-6511b-2 |
Genomic Coordinates | chr16: 15134075 - 15134145 |
Description | Homo sapiens miR-6511b-2 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-6511b-3p | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sequence | 53| CCUCACCACCCCUUCUGCCUGCA |75 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Experiments | Illumina | DRVs in miRNA |
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SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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Human miRNA Tissue Atlas | |
miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SLC27A4 | ||||||||||||||||||||
Synonyms | ACSVL4, FATP4, IPS | ||||||||||||||||||||
Description | solute carrier family 27 member 4 | ||||||||||||||||||||
Transcript | NM_005094 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SLC27A4 | |||||||||||||||||||||
3'UTR of SLC27A4 (miRNA target sites are highlighted) |
>SLC27A4|NM_005094|3'UTR 1 TTCCCCCCATCCCTCTGAGGGCCGGCGGATGCTGGATCCGGAGCCCCAGGTTCCGCCCCAGAGCGGTCCTGGACAAGGCC 81 AGACCAAAGCAAGCAGGGCCTGGCACCTCCATCCTGAGGTGCTGCCCCTCCATCCAAAACTGCCAAGTGACTCATTGCCT 161 TCCCAACCCTTCCAGAGGCTTTCTGTGAAAGTCTCATGTCCAAGTTCCGTCTTCTGGGCTGGGCAGGCCCTCTGGTTCCC 241 AGGCTGAGACTGACGGGTTTTCTCAGGATGATGTCTTGGGTGAGGGTAGGGAGAGGACAAGGGGTCACCGAGCCCTTCCC 321 AGAGAGCAGGGAGCTTATAAATGGAACCAGAGCAGAAGTCCCCAGACTCAGGAAGTCAACAGAGTGGGCAGGGACAGTGG 401 TAGCATCCATCTGGTGGCCAAAGAGAATCGTAGCCCCAGAGCTGCCCAAGTTCACTGGGCTCCACCCCCACCTCCAGGAG 481 GGGAGGAGAGGACCTGACATCTGTAGGTGGCCCCTGATGCCCCATCTACAGCAGGAGGTCAGGACCACGCCCCTGGCCTC 561 TCCCCACTCCCCCATCCTCCTCCCTGGGTGGCTGCCTGATTATCCCTCAGGCAGGGCCTCTCAGTCCTTGTGGGTCTGTG 641 TCACCTCCATCTCAGTCTTGGCCTGGCTATGAGGGGAGGAGGAATGGGAGAGGGGGCTCAGGGGCCAATAAACTCTGCCT 721 TGAGTCCTCCTAGCCTGTGTGCAAACCACCCAAGCCCACCCTGACCCCAGAACCCCACAGCCCCACTGTGGCCGCTTGAT 801 CCCCCACGCCAACCCCCTGGCCCATTGACCCGCCTCATCTGTTCATTCACTTATCTAAGCTGAGGGTGTAGCAGGTAAGA 881 TGCCGCAGCCCCTGCCTCCAATGTGCTGGTTCAGCCGGGGGCAGTGCCCATGTGAATCTGGCAAGGTGTTTAACAGTGTG 961 GGCTTGAAAGTCCAAACCAAAAAAAAA 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 | ENST00000300456.4 | 3UTR | GAGGGGGAUGGUGAGUAAAGAAGCAAAGGCUGUGUGCUU |
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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69 hsa-miR-6511b-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT059269 | CELF1 | CUGBP Elav-like family member 1 | ![]() |
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2 | 2 | ||||||
MIRT061287 | IPO7 | importin 7 | ![]() |
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2 | 2 | ||||||
MIRT115533 | MAZ | MYC associated zinc finger protein | ![]() |
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2 | 2 | ||||||
MIRT345986 | BIRC5 | baculoviral IAP repeat containing 5 | ![]() |
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2 | 8 | ||||||
MIRT379536 | HNRNPK | heterogeneous nuclear ribonucleoprotein K | ![]() |
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2 | 2 | ||||||
MIRT442491 | RBBP5 | RB binding protein 5, histone lysine methyltransferase complex subunit | ![]() |
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2 | 8 | ||||||
MIRT443701 | HUNK | hormonally up-regulated Neu-associated kinase | ![]() |
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2 | 4 | ||||||
MIRT459167 | HSPA6 | heat shock protein family A (Hsp70) member 6 | ![]() |
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2 | 21 | ||||||
MIRT497179 | ZBTB40 | zinc finger and BTB domain containing 40 | ![]() |
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2 | 2 | ||||||
MIRT497846 | GATA6 | GATA binding protein 6 | ![]() |
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2 | 4 | ||||||
MIRT519625 | ZNF781 | zinc finger protein 781 | ![]() |
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2 | 2 | ||||||
MIRT519838 | ZFP69B | ZFP69 zinc finger protein B | ![]() |
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2 | 4 | ||||||
MIRT528560 | DNAAF3 | dynein axonemal assembly factor 3 | ![]() |
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2 | 2 | ||||||
MIRT530718 | ORMDL3 | ORMDL sphingolipid biosynthesis regulator 3 | ![]() |
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2 | 2 | ||||||
MIRT530810 | GPR182 | G protein-coupled receptor 182 | ![]() |
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2 | 2 | ||||||
MIRT533265 | VAV3 | vav guanine nucleotide exchange factor 3 | ![]() |
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2 | 4 | ||||||
MIRT533726 | TMEM246 | transmembrane protein 246 | ![]() |
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2 | 2 | ||||||
MIRT535547 | P2RY2 | purinergic receptor P2Y2 | ![]() |
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2 | 2 | ||||||
MIRT536019 | MCUR1 | mitochondrial calcium uniporter regulator 1 | ![]() |
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2 | 2 | ||||||
MIRT539494 | ACTN4 | actinin alpha 4 | ![]() |
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2 | 2 | ||||||
MIRT541793 | MGAT5 | mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase | ![]() |
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2 | 8 | ||||||
MIRT554509 | RUNX1T1 | RUNX1 translocation partner 1 | ![]() |
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2 | 2 | ||||||
MIRT558784 | CEP55 | centrosomal protein 55 | ![]() |
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2 | 2 | ||||||
MIRT560013 | ZNF525 | zinc finger protein 525 | ![]() |
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2 | 2 | ||||||
MIRT560078 | ZNF195 | zinc finger protein 195 | ![]() |
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2 | 2 | ||||||
MIRT570135 | IL1RL2 | interleukin 1 receptor like 2 | ![]() |
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2 | 2 | ||||||
MIRT570890 | ZNF780A | zinc finger protein 780A | ![]() |
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2 | 2 | ||||||
MIRT607972 | SNX22 | sorting nexin 22 | ![]() |
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2 | 2 | ||||||
MIRT608104 | CRISPLD2 | cysteine rich secretory protein LCCL domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT610471 | ADAMTS13 | ADAM metallopeptidase with thrombospondin type 1 motif 13 | ![]() |
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2 | 4 | ||||||
MIRT611134 | GGT7 | gamma-glutamyltransferase 7 | ![]() |
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2 | 2 | ||||||
MIRT611448 | NRIP3 | nuclear receptor interacting protein 3 | ![]() |
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2 | 2 | ||||||
MIRT613019 | GABPB1 | GA binding protein transcription factor beta subunit 1 | ![]() |
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2 | 4 | ||||||
MIRT615753 | C6 | complement C6 | ![]() |
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2 | 2 | ||||||
MIRT620464 | CERS6 | ceramide synthase 6 | ![]() |
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2 | 2 | ||||||
MIRT632248 | VPS41 | VPS41, HOPS complex subunit | ![]() |
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2 | 2 | ||||||
MIRT636099 | ZDHHC22 | zinc finger DHHC-type containing 22 | ![]() |
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2 | 2 | ||||||
MIRT637452 | ZNF324B | zinc finger protein 324B | ![]() |
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2 | 2 | ||||||
MIRT638927 | CALCOCO2 | calcium binding and coiled-coil domain 2 | ![]() |
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2 | 2 | ||||||
MIRT646768 | WDR3 | WD repeat domain 3 | ![]() |
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2 | 2 | ||||||
MIRT652610 | TIMM8A | translocase of inner mitochondrial membrane 8A | ![]() |
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2 | 2 | ||||||
MIRT652868 | TAB1 | TGF-beta activated kinase 1 (MAP3K7) binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT653655 | SLC27A4 | solute carrier family 27 member 4 | ![]() |
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2 | 2 | ||||||
MIRT657089 | JMY | junction mediating and regulatory protein, p53 cofactor | ![]() |
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2 | 2 | ||||||
MIRT657884 | GFPT1 | glutamine--fructose-6-phosphate transaminase 1 | ![]() |
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2 | 2 | ||||||
MIRT662919 | MED18 | mediator complex subunit 18 | ![]() |
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2 | 2 | ||||||
MIRT685622 | C12orf49 | chromosome 12 open reading frame 49 | ![]() |
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2 | 2 | ||||||
MIRT687427 | NRIP1 | nuclear receptor interacting protein 1 | ![]() |
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2 | 2 | ||||||
MIRT692304 | CNNM3 | cyclin and CBS domain divalent metal cation transport mediator 3 | ![]() |
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2 | 2 | ||||||
MIRT695127 | PRY2 | PTPN13-like, Y-linked 2 | ![]() |
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2 | 2 | ||||||
MIRT695144 | PRY | PTPN13-like, Y-linked | ![]() |
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2 | 2 | ||||||
MIRT696286 | IER3IP1 | immediate early response 3 interacting protein 1 | ![]() |
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2 | 2 | ||||||
MIRT699350 | SLC35E1 | solute carrier family 35 member E1 | ![]() |
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2 | 2 | ||||||
MIRT709901 | AGO1 | argonaute 1, RISC catalytic component | ![]() |
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2 | 2 | ||||||
MIRT710877 | SLC25A42 | solute carrier family 25 member 42 | ![]() |
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2 | 2 | ||||||
MIRT711365 | MED7 | mediator complex subunit 7 | ![]() |
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2 | 2 | ||||||
MIRT711444 | FRMPD3 | FERM and PDZ domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT713221 | RCAN2 | regulator of calcineurin 2 | ![]() |
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2 | 2 | ||||||
MIRT713281 | LAIR1 | leukocyte associated immunoglobulin like receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT714195 | TRAF7 | TNF receptor associated factor 7 | ![]() |
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2 | 2 | ||||||
MIRT715152 | IL12B | interleukin 12B | ![]() |
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2 | 2 | ||||||
MIRT719197 | CASP10 | caspase 10 | ![]() |
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2 | 2 | ||||||
MIRT719469 | SRF | serum response factor | ![]() |
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2 | 2 | ||||||
MIRT720197 | MPP6 | membrane palmitoylated protein 6 | ![]() |
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2 | 2 | ||||||
MIRT720449 | SLC16A5 | solute carrier family 16 member 5 | ![]() |
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2 | 2 | ||||||
MIRT720461 | RAB31 | RAB31, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT721646 | ZNF207 | zinc finger protein 207 | ![]() |
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2 | 2 | ||||||
MIRT722001 | CLLU1OS | chronic lymphocytic leukemia up-regulated 1 opposite strand | ![]() |
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2 | 2 | ||||||
MIRT725521 | FAM229B | family with sequence similarity 229 member B | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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