pre-miRNA Information | |
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pre-miRNA | hsa-mir-1245a |
Genomic Coordinates | chr2: 188978092 - 188978161 |
Description | Homo sapiens miR-1245a stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | ||||||||||||||||||||||
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Mature miRNA | hsa-miR-1245a | |||||||||||||||||||||
Sequence | 45| AAGUGAUCUAAAGGCCUACAU |65 | |||||||||||||||||||||
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 | SEC24D | ||||||||||||||||||||
Synonyms | CLCRP2 | ||||||||||||||||||||
Description | SEC24 homolog D, COPII coat complex component | ||||||||||||||||||||
Transcript | NM_014822 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SEC24D | |||||||||||||||||||||
3'UTR of SEC24D (miRNA target sites are highlighted) |
>SEC24D|NM_014822|3'UTR 1 TTGAAACTTCTCTGTCATTGATGTTGCATTTCCAAGGAGATAATCTCCTTCTTGGTGCCTAATTTTCTAGATGATAATAG 81 GCTAGTTTTGATTTCTTGCTCATTTTCAGAATAACTTTCCAGGAAGAGATGGCATTTAGAACTTCAGCTTTGGTGCTCAG 161 GTATAAAGCCAATTAAGGTACAATTGTACCATAAAGGGAACAATCTGTTTCTGATTGCACAGTTTCTAATTTTTAAAACT 241 GATGTGGTTTGCATTTCATAAAAGGCAAAGTTTACAGAACCATAAACATTCTCAATTTTCTTTATGCTAGACATATAAAT 321 TATTTTTCAAACTGTATAGATTTGGGGTAAAAAGTTGTCTCAGTTCCTCTCCCAATTGCAATGAGAAAAAAAAGCTTAAT 401 TTTTACATTATACTTAATTTTCTAAAACCATGTAACTCCATTGAACACATTTTTCAACTTAAGGTCTGCATAGCAGACTT 481 TTAATAACCTTGGGATTTATCTGGTAGAACAATATGTGTTCTACATTTTTTTCATAATTATATATTGTGTATGTTAAAAC 561 TATTTTCCAGTTGTTTTGTCTGTAAAACTGTCTTTATCAATATGCTTAATGGTTCTTTGTACAATTTTGAAAGTTTCTAC 641 CTGTATATAATGGATGTTAACCAGTATCAATAAATCACTTCGTATAATCTTAAAAAAAAAAAAAAA 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 GSM1084042. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep2
HITS-CLIP data was present in GSM1084043. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep2
... - 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 GSM1084042 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noarsenite_rep2 |
Location of target site | ENST00000429811.2 | 3UTR | GCAGGUGGAUCACUUGAGGUCAGGAGUUCAAGACCA |
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 GSM1084043 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep2 |
Location of target site | ENST00000429811.2 | 3UTR | CCAAGGCAGGUGGAUCACUUGAGGUCAGGAGUUCAA |
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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109 hsa-miR-1245a Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT006574 | BRCA2 | BRCA2, DNA repair associated | ![]() |
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2 | 1 | ||||||
MIRT055432 | SHOC2 | SHOC2, leucine rich repeat scaffold protein | ![]() |
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2 | 2 | ||||||
MIRT063879 | RASSF8 | Ras association domain family member 8 | ![]() |
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2 | 6 | ||||||
MIRT077025 | WIPF2 | WAS/WASL interacting protein family member 2 | ![]() |
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2 | 2 | ||||||
MIRT095775 | GRPEL2 | GrpE like 2, mitochondrial | ![]() |
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2 | 10 | ||||||
MIRT099172 | MAP3K4 | mitogen-activated protein kinase kinase kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT175616 | OCRL | OCRL, inositol polyphosphate-5-phosphatase | ![]() |
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2 | 2 | ||||||
MIRT456518 | LYPLAL1 | lysophospholipase like 1 | ![]() |
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2 | 2 | ||||||
MIRT464457 | UGCG | UDP-glucose ceramide glucosyltransferase | ![]() |
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2 | 2 | ||||||
MIRT465747 | TMPPE | transmembrane protein with metallophosphoesterase domain | ![]() |
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2 | 2 | ||||||
MIRT468257 | SFXN4 | sideroflexin 4 | ![]() |
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2 | 2 | ||||||
MIRT469216 | RICTOR | RPTOR independent companion of MTOR complex 2 | ![]() |
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2 | 2 | ||||||
MIRT472045 | NPAT | nuclear protein, coactivator of histone transcription | ![]() |
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2 | 2 | ||||||
MIRT481795 | APEX1 | apurinic/apyrimidinic endodeoxyribonuclease 1 | ![]() |
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2 | 2 | ||||||
MIRT500154 | CREBBP | CREB binding protein | ![]() |
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2 | 2 | ||||||
MIRT506514 | MSANTD4 | Myb/SANT DNA binding domain containing 4 with coiled-coils | ![]() |
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2 | 4 | ||||||
MIRT506915 | KBTBD8 | kelch repeat and BTB domain containing 8 | ![]() |
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2 | 6 | ||||||
MIRT513901 | GRB10 | growth factor receptor bound protein 10 | ![]() |
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2 | 6 | ||||||
MIRT519128 | ALDH2 | aldehyde dehydrogenase 2 family (mitochondrial) | ![]() |
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2 | 2 | ||||||
MIRT528121 | FOXH1 | forkhead box H1 | ![]() |
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2 | 2 | ||||||
MIRT528942 | SFMBT2 | Scm like with four mbt domains 2 | ![]() |
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2 | 2 | ||||||
MIRT540580 | CEP89 | centrosomal protein 89 | ![]() |
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2 | 2 | ||||||
MIRT545858 | ZNF264 | zinc finger protein 264 | ![]() |
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2 | 4 | ||||||
MIRT547147 | PGM3 | phosphoglucomutase 3 | ![]() |
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2 | 2 | ||||||
MIRT547434 | MED4 | mediator complex subunit 4 | ![]() |
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2 | 2 | ||||||
MIRT554650 | ROBO1 | roundabout guidance receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT558524 | CSRNP3 | cysteine and serine rich nuclear protein 3 | ![]() |
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2 | 2 | ||||||
MIRT559762 | ABHD5 | abhydrolase domain containing 5 | ![]() |
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2 | 2 | ||||||
MIRT560438 | GOLGA7B | golgin A7 family member B | ![]() |
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2 | 2 | ||||||
MIRT561974 | LRRC59 | leucine rich repeat containing 59 | ![]() |
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2 | 2 | ||||||
MIRT562442 | DDIT4 | DNA damage inducible transcript 4 | ![]() |
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2 | 2 | ||||||
MIRT563489 | ZWINT | ZW10 interacting kinetochore protein | ![]() |
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2 | 2 | ||||||
MIRT568265 | BMP2K | BMP2 inducible kinase | ![]() |
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2 | 2 | ||||||
MIRT572522 | KIAA0232 | KIAA0232 | ![]() |
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2 | 2 | ||||||
MIRT612801 | LSM14A | LSM14A, mRNA processing body assembly factor | ![]() |
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2 | 2 | ||||||
MIRT621533 | ZNF507 | zinc finger protein 507 | ![]() |
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2 | 2 | ||||||
MIRT625205 | GSTCD | glutathione S-transferase C-terminal domain containing | ![]() |
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2 | 2 | ||||||
MIRT625615 | ZNF84 | zinc finger protein 84 | ![]() |
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2 | 2 | ||||||
MIRT629215 | C12orf66 | chromosome 12 open reading frame 66 | ![]() |
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2 | 2 | ||||||
MIRT629509 | AS3MT | arsenite methyltransferase | ![]() |
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2 | 2 | ||||||
MIRT629769 | STK25 | serine/threonine kinase 25 | ![]() |
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2 | 2 | ||||||
MIRT630908 | GATAD1 | GATA zinc finger domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT632508 | RAB13 | RAB13, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT636871 | ARSE | arylsulfatase E (chondrodysplasia punctata 1) | ![]() |
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2 | 2 | ||||||
MIRT637106 | CXorf23 | BCLAF1 and THRAP3 family member 3 | ![]() |
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2 | 2 | ||||||
MIRT637332 | FAM9B | family with sequence similarity 9 member B | ![]() |
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2 | 2 | ||||||
MIRT637553 | CHST6 | carbohydrate sulfotransferase 6 | ![]() |
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2 | 2 | ||||||
MIRT637639 | ZNF431 | zinc finger protein 431 | ![]() |
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2 | 2 | ||||||
MIRT637836 | CACNG8 | calcium voltage-gated channel auxiliary subunit gamma 8 | ![]() |
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2 | 2 | ||||||
MIRT638326 | RNF11 | ring finger protein 11 | ![]() |
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2 | 2 | ||||||
MIRT638393 | RAB11FIP1 | RAB11 family interacting protein 1 | ![]() |
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2 | 2 | ||||||
MIRT642450 | CLUAP1 | clusterin associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT642616 | APOPT1 | apoptogenic 1, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT643133 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT644324 | NFKBID | NFKB inhibitor delta | ![]() |
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2 | 2 | ||||||
MIRT645150 | DIS3 | DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease | ![]() |
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2 | 2 | ||||||
MIRT645673 | ADK | adenosine kinase | ![]() |
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2 | 2 | ||||||
MIRT646091 | MGST3 | microsomal glutathione S-transferase 3 | ![]() |
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2 | 2 | ||||||
MIRT646858 | SLC35E4 | solute carrier family 35 member E4 | ![]() |
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2 | 2 | ||||||
MIRT650153 | ZNF426 | zinc finger protein 426 | ![]() |
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2 | 2 | ||||||
MIRT652483 | TMEM181 | transmembrane protein 181 | ![]() |
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2 | 2 | ||||||
MIRT653790 | SIRPA | signal regulatory protein alpha | ![]() |
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2 | 2 | ||||||
MIRT655526 | PAG1 | phosphoprotein membrane anchor with glycosphingolipid microdomains 1 | ![]() |
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2 | 2 | ||||||
MIRT657077 | JPH2 | junctophilin 2 | ![]() |
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2 | 2 | ||||||
MIRT657322 | HOOK3 | hook microtubule tethering protein 3 | ![]() |
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2 | 2 | ||||||
MIRT662036 | FUT2 | fucosyltransferase 2 | ![]() |
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2 | 2 | ||||||
MIRT662322 | ADM2 | adrenomedullin 2 | ![]() |
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2 | 2 | ||||||
MIRT663211 | DARS2 | aspartyl-tRNA synthetase 2, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT663559 | CCR6 | C-C motif chemokine receptor 6 | ![]() |
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2 | 2 | ||||||
MIRT663937 | ZNF554 | zinc finger protein 554 | ![]() |
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2 | 2 | ||||||
MIRT664689 | EIF2B2 | eukaryotic translation initiation factor 2B subunit beta | ![]() |
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2 | 2 | ||||||
MIRT664709 | PAICS | phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase | ![]() |
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2 | 2 | ||||||
MIRT665291 | ZFP14 | ZFP14 zinc finger protein | ![]() |
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2 | 2 | ||||||
MIRT665572 | TXNL1 | thioredoxin like 1 | ![]() |
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2 | 2 | ||||||
MIRT667068 | PAOX | polyamine oxidase | ![]() |
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2 | 2 | ||||||
MIRT667304 | MYO5A | myosin VA | ![]() |
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2 | 2 | ||||||
MIRT667442 | METTL14 | methyltransferase like 14 | ![]() |
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2 | 2 | ||||||
MIRT668048 | GTPBP10 | GTP binding protein 10 | ![]() |
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2 | 2 | ||||||
MIRT669604 | AGO3 | argonaute 3, RISC catalytic component | ![]() |
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2 | 2 | ||||||
MIRT671088 | ABL2 | ABL proto-oncogene 2, non-receptor tyrosine kinase | ![]() |
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2 | 2 | ||||||
MIRT674361 | SLC35E3 | solute carrier family 35 member E3 | ![]() |
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2 | 2 | ||||||
MIRT674962 | ORAI2 | ORAI calcium release-activated calcium modulator 2 | ![]() |
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2 | 2 | ||||||
MIRT676394 | SEC24D | SEC24 homolog D, COPII coat complex component | ![]() |
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2 | 2 | ||||||
MIRT676819 | AGMAT | agmatinase | ![]() |
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2 | 2 | ||||||
MIRT676891 | ENSA | endosulfine alpha | ![]() |
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2 | 2 | ||||||
MIRT677059 | ZNF34 | zinc finger protein 34 | ![]() |
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2 | 2 | ||||||
MIRT678424 | ANKRD36 | ankyrin repeat domain 36 | ![]() |
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2 | 2 | ||||||
MIRT678735 | SRCAP | Snf2 related CREBBP activator protein | ![]() |
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2 | 2 | ||||||
MIRT678930 | XPOT | exportin for tRNA | ![]() |
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2 | 2 | ||||||
MIRT678954 | MYADM | myeloid associated differentiation marker | ![]() |
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2 | 2 | ||||||
MIRT679228 | MAN2A2 | mannosidase alpha class 2A member 2 | ![]() |
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2 | 2 | ||||||
MIRT679765 | TLR6 | toll like receptor 6 | ![]() |
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2 | 2 | ||||||
MIRT681992 | HRH4 | histamine receptor H4 | ![]() |
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2 | 2 | ||||||
MIRT687405 | NSUN4 | NOP2/Sun RNA methyltransferase family member 4 | ![]() |
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2 | 2 | ||||||
MIRT694570 | RBMXL1 | RNA binding motif protein, X-linked like 1 | ![]() |
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2 | 2 | ||||||
MIRT698449 | TM4SF1 | transmembrane 4 L six family member 1 | ![]() |
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2 | 2 | ||||||
MIRT706406 | HAS2 | hyaluronan synthase 2 | ![]() |
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2 | 2 | ||||||
MIRT706582 | ZNF432 | zinc finger protein 432 | ![]() |
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2 | 2 | ||||||
MIRT706838 | VHLL | VHL like | ![]() |
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2 | 2 | ||||||
MIRT706909 | DVL3 | dishevelled segment polarity protein 3 | ![]() |
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2 | 2 | ||||||
MIRT707052 | TRPV2 | transient receptor potential cation channel subfamily V member 2 | ![]() |
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2 | 2 | ||||||
MIRT708583 | C11orf54 | chromosome 11 open reading frame 54 | ![]() |
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2 | 2 | ||||||
MIRT708988 | CABP4 | calcium binding protein 4 | ![]() |
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2 | 2 | ||||||
MIRT713041 | ADRA2B | adrenoceptor alpha 2B | ![]() |
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2 | 2 | ||||||
MIRT713731 | SUCO | SUN domain containing ossification factor | ![]() |
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2 | 2 | ||||||
MIRT714968 | RAB21 | RAB21, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT717485 | PDE4DIP | phosphodiesterase 4D interacting protein | ![]() |
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2 | 2 | ||||||
MIRT722826 | KLK2 | kallikrein related peptidase 2 | ![]() |
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2 | 2 | ||||||
MIRT723305 | MOGAT1 | monoacylglycerol O-acyltransferase 1 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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