pre-miRNA Information | |
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pre-miRNA | hsa-mir-921 |
Genomic Coordinates | chr1: 166154743 - 166154798 |
Synonyms | MIRN921, hsa-mir-921, MIR921 |
Description | Homo sapiens miR-921 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
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Mature miRNA | hsa-miR-921 | ||||||||||||
Sequence | 2| CUAGUGAGGGACAGAACCAGGAUUC |26 | ||||||||||||
Evidence | Experimental | ||||||||||||
Experiments | Cloned | 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 | |
Circulating MicroRNA Expression Profiling |
Gene Information | ||||||||||||||||
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Gene Symbol | PTCHD3 | |||||||||||||||
Synonyms | PTR | |||||||||||||||
Description | patched domain containing 3 | |||||||||||||||
Transcript | NM_001034842 | |||||||||||||||
Expression | ||||||||||||||||
Putative miRNA Targets on PTCHD3 | ||||||||||||||||
3'UTR of PTCHD3 (miRNA target sites are highlighted) |
>PTCHD3|NM_001034842|3'UTR 1 TTACGACGCATAGCTGAAGACTGTCAAATTCCCCTAATGGTGTATAACCAGGCATTTATATATTTTGATCAGTATGCTGC 81 AATATTAGAAGACACTGTTAGAAATG 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
HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb
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 GSM1084065 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_AbnovaAb |
Location of target site | ENST00000438700.3 | 3UTR | CUAAGGCUGGAGUGCAGUGGUGCGAU |
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 GSM1084078 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb |
Location of target site | ENST00000438700.3 | 3UTR | CUAAGGCUGGAGUGCAGUGGUGC |
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 | ENST00000438700.3 | 3UTR | UAAGGCUGGAGUGCAGUGGUGC |
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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63 hsa-miR-921 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT054764 | ANGPTL1 | angiopoietin like 1 | ![]() |
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3 | 1 | |||||
MIRT066171 | PIP4K2C | phosphatidylinositol-5-phosphate 4-kinase type 2 gamma | ![]() |
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2 | 2 | ||||||
MIRT069409 | ZFYVE21 | zinc finger FYVE-type containing 21 | ![]() |
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2 | 8 | ||||||
MIRT102284 | DNAJB9 | DnaJ heat shock protein family (Hsp40) member B9 | ![]() |
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2 | 4 | ||||||
MIRT107595 | DNAJA1 | DnaJ heat shock protein family (Hsp40) member A1 | ![]() |
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2 | 6 | ||||||
MIRT178618 | HIAT1 | major facilitator superfamily domain containing 14A | ![]() |
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2 | 2 | ||||||
MIRT182407 | TIPRL | TOR signaling pathway regulator | ![]() |
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2 | 4 | ||||||
MIRT186552 | ZBTB18 | zinc finger and BTB domain containing 18 | ![]() |
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2 | 2 | ||||||
MIRT273662 | HOXC8 | homeobox C8 | ![]() |
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2 | 2 | ||||||
MIRT283191 | C16ORF52 | chromosome 16 open reading frame 52 | ![]() |
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2 | 2 | ||||||
MIRT284890 | NFAT5 | nuclear factor of activated T-cells 5 | ![]() |
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2 | 2 | ||||||
MIRT347670 | LSM14A | LSM14A, mRNA processing body assembly factor | ![]() |
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2 | 2 | ||||||
MIRT400222 | SLC35F6 | solute carrier family 35 member F6 | ![]() |
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2 | 2 | ||||||
MIRT403517 | ASPH | aspartate beta-hydroxylase | ![]() |
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2 | 2 | ||||||
MIRT442251 | DCTN5 | dynactin subunit 5 | ![]() |
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2 | 2 | ||||||
MIRT443023 | SDR39U1 | short chain dehydrogenase/reductase family 39U member 1 | ![]() |
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2 | 2 | ||||||
MIRT443097 | RNF20 | ring finger protein 20 | ![]() |
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2 | 2 | ||||||
MIRT444560 | TRA2B | transformer 2 beta homolog | ![]() |
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2 | 2 | ||||||
MIRT445696 | PRKG1 | protein kinase, cGMP-dependent, type I | ![]() |
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2 | 2 | ||||||
MIRT454084 | TMEM209 | transmembrane protein 209 | ![]() |
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2 | 2 | ||||||
MIRT455463 | LYPLA2 | lysophospholipase II | ![]() |
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2 | 2 | ||||||
MIRT456653 | TIFA | TRAF interacting protein with forkhead associated domain | ![]() |
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2 | 2 | ||||||
MIRT458147 | LYRM4 | LYR motif containing 4 | ![]() |
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2 | 6 | ||||||
MIRT467073 | SRRD | SRR1 domain containing | ![]() |
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2 | 4 | ||||||
MIRT467245 | SPPL2A | signal peptide peptidase like 2A | ![]() |
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2 | 2 | ||||||
MIRT468246 | SFXN4 | sideroflexin 4 | ![]() |
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2 | 2 | ||||||
MIRT471589 | PAQR5 | progestin and adipoQ receptor family member 5 | ![]() |
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2 | 19 | ||||||
MIRT476639 | G2E3 | G2/M-phase specific E3 ubiquitin protein ligase | ![]() |
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2 | 2 | ||||||
MIRT482433 | ADM | adrenomedullin | ![]() |
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2 | 10 | ||||||
MIRT486848 | PERP | PERP, TP53 apoptosis effector | ![]() |
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2 | 6 | ||||||
MIRT489656 | SHMT1 | serine hydroxymethyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT493441 | KANSL1 | KAT8 regulatory NSL complex subunit 1 | ![]() |
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2 | 6 | ||||||
MIRT493841 | FOXN3 | forkhead box N3 | ![]() |
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2 | 4 | ||||||
MIRT501378 | RBFOX2 | RNA binding protein, fox-1 homolog 2 | ![]() |
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2 | 10 | ||||||
MIRT509679 | ATAD5 | ATPase family, AAA domain containing 5 | ![]() |
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2 | 4 | ||||||
MIRT510280 | MED28 | mediator complex subunit 28 | ![]() |
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2 | 2 | ||||||
MIRT512221 | ATXN3 | ataxin 3 | ![]() |
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2 | 6 | ||||||
MIRT514030 | BNIP2 | BCL2 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT521375 | RDX | radixin | ![]() |
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2 | 4 | ||||||
MIRT521444 | RAD51 | RAD51 recombinase | ![]() |
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2 | 2 | ||||||
MIRT526055 | CBR1 | carbonyl reductase 1 | ![]() |
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2 | 2 | ||||||
MIRT528658 | FUNDC2 | FUN14 domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT529975 | TNFAIP8L1 | TNF alpha induced protein 8 like 1 | ![]() |
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2 | 2 | ||||||
MIRT544098 | IPMK | inositol polyphosphate multikinase | ![]() |
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2 | 2 | ||||||
MIRT545579 | SNRPA1 | small nuclear ribonucleoprotein polypeptide A' | ![]() |
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2 | 2 | ||||||
MIRT547424 | MED4 | mediator complex subunit 4 | ![]() |
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2 | 2 | ||||||
MIRT548955 | CD2AP | CD2 associated protein | ![]() |
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2 | 2 | ||||||
MIRT549537 | NDUFA6 | NADH:ubiquinone oxidoreductase subunit A6 | ![]() |
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2 | 4 | ||||||
MIRT552550 | ZFP36L2 | ZFP36 ring finger protein like 2 | ![]() |
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2 | 4 | ||||||
MIRT554640 | ROBO1 | roundabout guidance receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT564904 | YTHDF1 | YTH N6-methyladenosine RNA binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT565578 | SLC6A8 | solute carrier family 6 member 8 | ![]() |
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2 | 2 | ||||||
MIRT568312 | BAG4 | BCL2 associated athanogene 4 | ![]() |
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2 | 2 | ||||||
MIRT617891 | PTCHD3 | patched domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT621892 | TAF13 | TATA-box binding protein associated factor 13 | ![]() |
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2 | 2 | ||||||
MIRT642850 | RNF135 | ring finger protein 135 | ![]() |
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2 | 2 | ||||||
MIRT665395 | WEE1 | WEE1 G2 checkpoint kinase | ![]() |
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2 | 2 | ||||||
MIRT697879 | UBE2B | ubiquitin conjugating enzyme E2 B | ![]() |
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2 | 2 | ||||||
MIRT698492 | THOC2 | THO complex 2 | ![]() |
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2 | 2 | ||||||
MIRT701227 | OCRL | OCRL, inositol polyphosphate-5-phosphatase | ![]() |
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2 | 2 | ||||||
MIRT701872 | MPLKIP | M-phase specific PLK1 interacting protein | ![]() |
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2 | 2 | ||||||
MIRT707045 | TRPV2 | transient receptor potential cation channel subfamily V member 2 | ![]() |
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2 | 2 | ||||||
MIRT715216 | NPVF | neuropeptide VF precursor | ![]() |
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2 | 2 |
miRNA-Drug Associations | |||||||||||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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