pre-miRNA Information | |
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pre-miRNA | hsa-mir-3921 |
Genomic Coordinates | chr3: 99964314 - 99964398 |
Description | Homo sapiens miR-3921 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||
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Mature miRNA | hsa-miR-3921 | |||||||||||||||
Sequence | 52| UCUCUGAGUACCAUAUGCCUUGU |74 | |||||||||||||||
Evidence | Experimental | |||||||||||||||
Experiments | Illumina | DRVs in miRNA |
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SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SPATS2 | ||||||||||||||||||||
Synonyms | Nbla00526, P59SCR, SCR59, SPATA10 | ||||||||||||||||||||
Description | spermatogenesis associated serine rich 2 | ||||||||||||||||||||
Transcript | NM_023071 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SPATS2 | |||||||||||||||||||||
3'UTR of SPATS2 (miRNA target sites are highlighted) |
>SPATS2|NM_023071|3'UTR 1 GAGAAAATCCAGTTGGCCTCTCTCCTCTATCCACACAATTCAACTTGATAACTGGACTTTAGGAAACTTACAGTTAGATG 81 TAATAACAAAAAGAAGTTTATGCGTATCACTTTTTGTGCCATTCTAAGTATTTTTGGTTTCTTGTCTCCTTATTTCCTCT 161 TTACCATTTTTGGAGGGGAAGCTATTTTTTTTCCTTGATCTTTCCCAGTGATATGGATTGAATCTGGTTGGTCATTTCCA 241 CCAGGAATCAGAGGCAGCTGTTACCAGGTTTCGGCCTTCCAGTTGATCCCTCCACTGTCCAGGCTGTCTCAGGAGGAGGT 321 GAATCAGAGCTAGTCTGTCACCTTTCCAATCTAAGCCGAAGCCACAGGTGCCTGACAGGTTCCCTTCTAACAACTATTTG 401 ACCAAGAGAGGCAATCAGGGGGTTGTATACTGCACTGGATTCGCCAGAGAAGGGAAAATTTAATTAGTGAAAAGGAAAGA 481 ACACTAGGAAACATTTGAGAACCTGCCTCTATCCCAGAATGTGCTGGAGATTTGACACTCAAATCAGTGTTTAGTCTTCT 561 GCTTGGCACCATAGCTTAACCTGCAGTTTCTTCAAAATGCCCAATGCCTTGTTTCCTATTACCTTAGATTGCAAACCAGT 641 CTAGGGAAGTCTATGAGAAAGTAGCATTTAATTAAAGTTTAAAAAAAAAAAGGTTGGGCGTTGTGGCTCATGCCTGTAAT 721 CCCAGCACTTTGGGAGGCTGAGGCGGGTGGATCACTAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCT 801 GTCTGTACTAAAAATACAAAAATTAGCTGAGCATGGTGGCGTGTGCCTGTAATCTCAGCTACTCAGGAGGCTGAGGCAGG 881 AGAATCGCTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCTGAGATTGTGCCACTGCACTCCAGCCTGGGAGACAGAGCAA 961 GACTCAGTCTCAAAAAAAAAAAAAAAAGCATTTTTCTGTTTTAATGTTTGGAGACTTTTTTTTTTGTTCTCTCCCTTTCC 1041 TGAACCCTATTCTGATCCTGAACCAAATTTATAGCAATATAATTAGTGTTAATCTAAGGCATTACTCATCAAAAAAATTG 1121 CTGCAGTCTTTACAGTTGAATAAATAAAAACAACTGCATAAATATGCCC 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 GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb
HITS-CLIP data was present in GSM1084066. RNA binding protein: AGO2. Condition:CLIP_noemetine_SantaCruzAb
HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_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 GSM1084064 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_AbnovaAb |
Location of target site | ENST00000553127.1 | 3UTR | CAGAGAGAGUGUGUGUGUCU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1084066 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noemetine_SantaCruzAb |
Location of target site | ENST00000553127.1 | 3UTR | AGAGAGAGUGUGUGUGU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM1084079 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000553127.1 | 3UTR | UUCAGAGAGAGUGUGUGU |
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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77 hsa-miR-3921 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT118184 | ZNF544 | zinc finger protein 544 | ![]() |
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2 | 2 | ||||||
MIRT332934 | PRKAB2 | protein kinase AMP-activated non-catalytic subunit beta 2 | ![]() |
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2 | 2 | ||||||
MIRT442165 | ARL10 | ADP ribosylation factor like GTPase 10 | ![]() |
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2 | 2 | ||||||
MIRT442388 | CLVS2 | clavesin 2 | ![]() |
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2 | 2 | ||||||
MIRT442594 | SIX1 | SIX homeobox 1 | ![]() |
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2 | 2 | ||||||
MIRT448015 | HLA-DOA | major histocompatibility complex, class II, DO alpha | ![]() |
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2 | 2 | ||||||
MIRT448062 | MMP15 | matrix metallopeptidase 15 | ![]() |
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2 | 2 | ||||||
MIRT489018 | C1QTNF6 | C1q and TNF related 6 | ![]() |
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2 | 2 | ||||||
MIRT494457 | BTG2 | BTG anti-proliferation factor 2 | ![]() |
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2 | 2 | ||||||
MIRT495651 | SLC35B2 | solute carrier family 35 member B2 | ![]() |
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2 | 2 | ||||||
MIRT504018 | ACSL6 | acyl-CoA synthetase long chain family member 6 | ![]() |
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2 | 2 | ||||||
MIRT506778 | KLHL15 | kelch like family member 15 | ![]() |
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2 | 4 | ||||||
MIRT507230 | FOXN2 | forkhead box N2 | ![]() |
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2 | 4 | ||||||
MIRT512551 | MFN2 | mitofusin 2 | ![]() |
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2 | 6 | ||||||
MIRT512843 | A1CF | APOBEC1 complementation factor | ![]() |
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2 | 6 | ||||||
MIRT513943 | DDX3X | DEAD-box helicase 3, X-linked | ![]() |
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2 | 8 | ||||||
MIRT516104 | GADL1 | glutamate decarboxylase like 1 | ![]() |
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2 | 4 | ||||||
MIRT519832 | ZFP69B | ZFP69 zinc finger protein B | ![]() |
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2 | 4 | ||||||
MIRT523209 | HIST1H3E | histone cluster 1 H3 family member e | ![]() |
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2 | 2 | ||||||
MIRT525007 | ACTN4 | actinin alpha 4 | ![]() |
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2 | 6 | ||||||
MIRT528859 | PKP1 | plakophilin 1 | ![]() |
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2 | 2 | ||||||
MIRT529061 | ZNF675 | zinc finger protein 675 | ![]() |
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2 | 2 | ||||||
MIRT531720 | TARS | threonyl-tRNA synthetase | ![]() |
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2 | 2 | ||||||
MIRT534038 | STK4 | serine/threonine kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT543849 | APIP | APAF1 interacting protein | ![]() |
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2 | 2 | ||||||
MIRT545865 | ZNF264 | zinc finger protein 264 | ![]() |
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2 | 4 | ||||||
MIRT556038 | MXD1 | MAX dimerization protein 1 | ![]() |
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2 | 2 | ||||||
MIRT561346 | ZBTB18 | zinc finger and BTB domain containing 18 | ![]() |
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2 | 2 | ||||||
MIRT562706 | ZNF415 | zinc finger protein 415 | ![]() |
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2 | 2 | ||||||
MIRT563224 | ZNF286A | zinc finger protein 286A | ![]() |
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2 | 2 | ||||||
MIRT563861 | ZNF616 | zinc finger protein 616 | ![]() |
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2 | 4 | ||||||
MIRT563880 | PAGR1 | PAXIP1 associated glutamate rich protein 1 | ![]() |
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2 | 2 | ||||||
MIRT564653 | ZNF487P | zinc finger protein 487 | ![]() |
1 | 1 | |||||||
MIRT566596 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT570879 | ZFP1 | ZFP1 zinc finger protein | ![]() |
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2 | 2 | ||||||
MIRT573069 | TRIB1 | tribbles pseudokinase 1 | ![]() |
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2 | 2 | ||||||
MIRT573940 | ZNF708 | zinc finger protein 708 | ![]() |
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2 | 2 | ||||||
MIRT575967 | Slfn5 | schlafen 5 | ![]() |
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2 | 5 | ||||||
MIRT607294 | CD300E | CD300e molecule | ![]() |
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2 | 4 | ||||||
MIRT608188 | ERBB2 | erb-b2 receptor tyrosine kinase 2 | ![]() |
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2 | 2 | ||||||
MIRT609538 | ADPRH | ADP-ribosylarginine hydrolase | ![]() |
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2 | 2 | ||||||
MIRT610153 | PRMT8 | protein arginine methyltransferase 8 | ![]() |
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2 | 4 | ||||||
MIRT611572 | SLFN5 | schlafen family member 5 | ![]() |
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2 | 7 | ||||||
MIRT613336 | AGO2 | argonaute 2, RISC catalytic component | ![]() |
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2 | 4 | ||||||
MIRT616561 | ZNF512B | zinc finger protein 512B | ![]() |
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2 | 2 | ||||||
MIRT617239 | SPATS2 | spermatogenesis associated serine rich 2 | ![]() |
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2 | 2 | ||||||
MIRT618012 | SLC9A3R2 | SLC9A3 regulator 2 | ![]() |
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2 | 2 | ||||||
MIRT618479 | IL17REL | interleukin 17 receptor E like | ![]() |
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2 | 2 | ||||||
MIRT619100 | IFI44L | interferon induced protein 44 like | ![]() |
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2 | 2 | ||||||
MIRT622266 | SH3TC2 | SH3 domain and tetratricopeptide repeats 2 | ![]() |
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2 | 2 | ||||||
MIRT623081 | NME6 | NME/NM23 nucleoside diphosphate kinase 6 | ![]() |
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2 | 2 | ||||||
MIRT625622 | LILRB2 | leukocyte immunoglobulin like receptor B2 | ![]() |
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2 | 2 | ||||||
MIRT627845 | PLEKHA6 | pleckstrin homology domain containing A6 | ![]() |
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2 | 2 | ||||||
MIRT630460 | GMPS | guanine monophosphate synthase | ![]() |
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2 | 2 | ||||||
MIRT630525 | BAZ2A | bromodomain adjacent to zinc finger domain 2A | ![]() |
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2 | 4 | ||||||
MIRT631503 | TAF8 | TATA-box binding protein associated factor 8 | ![]() |
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2 | 2 | ||||||
MIRT634538 | MRPS17 | mitochondrial ribosomal protein S17 | ![]() |
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2 | 2 | ||||||
MIRT638808 | DCTN3 | dynactin subunit 3 | ![]() |
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2 | 2 | ||||||
MIRT641304 | SLAMF1 | signaling lymphocytic activation molecule family member 1 | ![]() |
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2 | 2 | ||||||
MIRT648348 | PPP1R16B | protein phosphatase 1 regulatory subunit 16B | ![]() |
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2 | 2 | ||||||
MIRT649706 | ZNF175 | zinc finger protein 175 | ![]() |
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2 | 2 | ||||||
MIRT652555 | TLX1 | T-cell leukemia homeobox 1 | ![]() |
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2 | 2 | ||||||
MIRT655563 | P2RX7 | purinergic receptor P2X 7 | ![]() |
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2 | 2 | ||||||
MIRT659066 | DEPTOR | DEP domain containing MTOR interacting protein | ![]() |
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2 | 2 | ||||||
MIRT660342 | BCAT1 | branched chain amino acid transaminase 1 | ![]() |
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2 | 2 | ||||||
MIRT664331 | RAB8A | RAB8A, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT688935 | ATXN7L3B | ataxin 7 like 3B | ![]() |
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2 | 2 | ||||||
MIRT689972 | ZNF185 | zinc finger protein 185 with LIM domain | ![]() |
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2 | 2 | ||||||
MIRT699515 | SKIL | SKI like proto-oncogene | ![]() |
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2 | 2 | ||||||
MIRT699976 | RREB1 | ras responsive element binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT702675 | IRS2 | insulin receptor substrate 2 | ![]() |
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2 | 2 | ||||||
MIRT709358 | ULK2 | unc-51 like autophagy activating kinase 2 | ![]() |
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2 | 2 | ||||||
MIRT709838 | PAQR7 | progestin and adipoQ receptor family member 7 | ![]() |
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2 | 2 | ||||||
MIRT718717 | ANKRD18A | ankyrin repeat domain 18A | ![]() |
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2 | 2 | ||||||
MIRT718880 | PDIA3 | protein disulfide isomerase family A member 3 | ![]() |
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2 | 2 | ||||||
MIRT724106 | TMEM199 | transmembrane protein 199 | ![]() |
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2 | 2 | ||||||
MIRT724764 | PSG4 | pregnancy specific beta-1-glycoprotein 4 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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