pre-miRNA Information | |
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pre-miRNA | hsa-mir-190b |
Genomic Coordinates | chr1: 154193665 - 154193743 |
Description | Homo sapiens miR-190b stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | |
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Mature miRNA | hsa-miR-190b |
Sequence | 11| UGAUAUGUUUGAUAUUGGGUU |31 |
Evidence | Not_experimental |
Experiments | |
Putative Targets |
miRNA Expression profile | |
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miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | TATDN2 | ||||||||||||||||||||
Synonyms | - | ||||||||||||||||||||
Description | TatD DNase domain containing 2 | ||||||||||||||||||||
Transcript | NM_014760 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on TATDN2 | |||||||||||||||||||||
3'UTR of TATDN2 (miRNA target sites are highlighted) |
>TATDN2|NM_014760|3'UTR 1 GCAGAGAAGGTACAGTCCTCGGGAGTCTCCTAGAAAAGGGCGACCAGCAGCCTGACAGAACACAGGCTGGCTTGAAGTCT 81 GTGTCTCAGGTCGAGGATGTGTTTAGAGAGCTGATTGGAACACAGAAAACCAGGACAGGATGTTTTCCTCCAAGCGGGTC 161 ATAAGGCTTCAGCTTCTGGGTGGTGGGTGGGGTGGGGTGGGCATGGAATGAGGGGTATGGGGACTGCCTGTAATAGCACT 241 GGGATTTTGCCTCCCAGCCAAAATGCTCCAGGGTAGGCAGCAAAGAAGAAAGAGTGCGATATGAGGGTACAGTGAGTTTG 321 GCAGTCCAAATTCTGTTCTCTGCAGCCTGTTTTTGAGTAGTTGGTGAATAAAGTCACCCGCCTACTTGTCTAAGCACATG 401 TGGGTGTGTAACTCAGTTCCTGGTTCTCGGTTCTAAAAACAGACTTCCAACTGGGAAACTTTTTGGGGGAAATTAACTGG 481 ACACCTATCTCGGAGGTTTATTTTCTTGCAACCAGTGAAGTCGTCCTCCTCCCTTCCCTGGATAACTCTTCAGTTTGACT 561 GTCACTGTTCTGGTGTCAACTCCAGCGTCGGCACAGGCAGAAGGACTTCAGCTGCTGGTCTCATTGGTTCCACTGCCATT 641 GATATGGGGGGGTGCAGAGGAGCACTCATTGTCCATGATGGAGATCCAGGACAGACTGGGGGACTCCGGGAAGAGGCTTT 721 CTTGGGGAAGAGGACCCCAAAGGAGGTACTTCCTCCTCACTGATGCCCTCAGGGCTGCTGTGTGGGTGTGTTAAGCTGAT 801 AAGGTTCAGTTTGCGGCGGAAACTACCTGCTAGTCTTGTGTCAGGGGCTGCCAGCCTCCTTTTGTTTCACTTTTGCCCCC 881 TTCTTGGGAACATTTGACCAAAAATAATCCTCATTTCATCTTGTGTACAGTCCTTTGTGTACCCCGCCCAGGTTGAGAGG 961 TGAATCAGCGTAATTCTCCGAAGCTCTGCTGGGCAGCTCAGCCATGTTACATTGTCTATGCAGAATAAGCAGGCCTGGTG 1041 TCTGCAAATGTACCAGTCCTTCTCCCGCATCTCCTGGGTGCCCCCTTGGCTTTGCCTCTCCTGTGTCCTGTCTTTCTGCG 1121 TTTTAGAAGTGAGAGCCTCTCCTTCACCTTTTGAGCAACTGAGTCATCTCAAGTCCTGAGCTCTGCTCTGCCGCCTGCTG 1201 GTGCCTTGTAAAGGTATACTCGTTACAGGCCCTAGAGGTTCTAATGGTCCAGGGTTAAGTGAGAGGAGACTGTACTTTGT 1281 TTCAAAGGATCCTTCACCCTGATCTGCAGTGAGGTGGATAGATCACCTGGAGTCCCTCGTCTGTGGTCTTGGAGGCTTAA 1361 ATTGTAAAATACATCCCTTATGGAATCCTAAATTCCTCTAGGTGTTTTTGGAAGGCGCATTTGAGCCTTGTGAGCTAAAA 1441 TGGAATGGATTTAATATTTCCTATCTGGCATTTCCATCTTGCCCCTGGTACACAAGTCACTGGCCTGGAACTCAGCCTTG 1521 ATTCACTGTCCGTCTTCACGGATTAGCTGTGCTGTTATGTTGTCTGTGCTGCAGATTGGCCCATGTGGGAAGTCGGGGGG 1601 GACCTGATTTCCTGCTTGGAAGACTTGGGGGACTGCCGAGCATATCAAAGTGTTTATAGTCACCAAGTGAACTGCAGCAC 1681 AACCATCTCCTCTCCAGCAAGCCCTGAAGTCAGTAGTGCCTGCAGGTGAAACCAACCAGCCCTGTGTTAGAGGAGGAAAA 1761 GCGGAGATGACATGGAAGTCTCCAAGCCTGTGCCATCCACCTGCCAAGGAAAAGCACAAGGTGCTATCTACTTTTCTCTC 1841 TAGGATTTAGATTATCATTTATGTGCTGTTGCACAGTGAAACCTCACCTGTGTGGGCGTGAAAGCTGATTGGCATTGTTT 1921 TTGATTCAGCTTTTTGGATGGCTAATTGTTTTCACTGTGCTGTGGGAATGCCTCTGTATTTTTTCCCCTCTTTGGCCATC 2001 TTTTTCTGAAAATAAAGTGATGGATCCTCTAGCCAACCCAAA 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 | hESCs (WA-09) |
Disease | 9797.0 |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
...
"PAR-CLIP data was present in SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine
... - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development. |
Article |
- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al. - Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
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CLIP-seq Support 1 for dataset GSM4903834 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_b |
Location of target site | NM_014760 | 3UTR | ACUUGGGGGACUGCCGAGCAUAUCAAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset SRR359787 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | hESCs (WA-09) / 4-thiouridine, RNase T1 |
Location of target site | ENST00000448281.2 | 3UTR | CAAAGUGUUUAUAGUC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 22012620 / SRX103431 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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MiRNA-Target Expression Profile (TCGA) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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60 hsa-miR-190b Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT054581 | IGF1 | insulin like growth factor 1 | ![]() |
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4 | 1 | ||||
MIRT066966 | ATXN7L3B | ataxin 7 like 3B | ![]() |
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2 | 2 | ||||||
MIRT192449 | SPRED1 | sprouty related EVH1 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT250414 | TNRC6A | trinucleotide repeat containing 6A | ![]() |
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2 | 2 | ||||||
MIRT306294 | KLHL24 | kelch like family member 24 | ![]() |
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2 | 2 | ||||||
MIRT355845 | SGMS2 | sphingomyelin synthase 2 | ![]() |
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2 | 4 | ||||||
MIRT437770 | MTMR6 | myotubularin related protein 6 | ![]() |
1 | 1 | |||||||
MIRT437771 | MTMR6 | myotubularin related protein 6 | ![]() |
1 | 1 | |||||||
MIRT437772 | Mtmr6 | myotubularin related protein 6 | ![]() |
1 | 1 | |||||||
MIRT444672 | CDKL2 | cyclin dependent kinase like 2 | ![]() |
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2 | 2 | ||||||
MIRT446389 | PCDHB11 | protocadherin beta 11 | ![]() |
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2 | 2 | ||||||
MIRT446634 | SDC3 | syndecan 3 | ![]() |
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2 | 2 | ||||||
MIRT449410 | TRIM5 | tripartite motif containing 5 | ![]() |
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2 | 2 | ||||||
MIRT449560 | GPC5 | glypican 5 | ![]() |
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2 | 2 | ||||||
MIRT469928 | PTPRJ | protein tyrosine phosphatase, receptor type J | ![]() |
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2 | 6 | ||||||
MIRT473736 | MAP3K9 | mitogen-activated protein kinase kinase kinase 9 | ![]() |
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2 | 2 | ||||||
MIRT474210 | LDHA | lactate dehydrogenase A | ![]() |
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2 | 2 | ||||||
MIRT474583 | KLF6 | Kruppel like factor 6 | ![]() |
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2 | 2 | ||||||
MIRT476732 | FOXN2 | forkhead box N2 | ![]() |
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2 | 2 | ||||||
MIRT478455 | DAB2 | DAB2, clathrin adaptor protein | ![]() |
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2 | 2 | ||||||
MIRT495327 | ADAMTS8 | ADAM metallopeptidase with thrombospondin type 1 motif 8 | ![]() |
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2 | 4 | ||||||
MIRT498615 | MTRNR2L10 | MT-RNR2-like 10 | ![]() |
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2 | 12 | ||||||
MIRT501734 | OVOL1 | ovo like transcriptional repressor 1 | ![]() |
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2 | 2 | ||||||
MIRT501849 | MTRNR2L8 | MT-RNR2-like 8 | ![]() |
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2 | 14 | ||||||
MIRT504678 | CYGB | cytoglobin | ![]() |
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2 | 4 | ||||||
MIRT506517 | MSANTD4 | Myb/SANT DNA binding domain containing 4 with coiled-coils | ![]() |
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2 | 6 | ||||||
MIRT507984 | BCL2L13 | BCL2 like 13 | ![]() |
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2 | 4 | ||||||
MIRT508444 | ZNF608 | zinc finger protein 608 | ![]() |
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2 | 4 | ||||||
MIRT511366 | IL6ST | interleukin 6 signal transducer | ![]() |
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2 | 4 | ||||||
MIRT520515 | TRA2B | transformer 2 beta homolog | ![]() |
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2 | 2 | ||||||
MIRT524571 | CALML4 | calmodulin like 4 | ![]() |
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2 | 4 | ||||||
MIRT531896 | INVS | inversin | ![]() |
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2 | 4 | ||||||
MIRT533916 | TATDN2 | TatD DNase domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT537503 | FAM13B | family with sequence similarity 13 member B | ![]() |
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2 | 2 | ||||||
MIRT541689 | CCDC160 | coiled-coil domain containing 160 | ![]() |
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2 | 8 | ||||||
MIRT544419 | ZNF460 | zinc finger protein 460 | ![]() |
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2 | 4 | ||||||
MIRT544615 | CSDE1 | cold shock domain containing E1 | ![]() |
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2 | 2 | ||||||
MIRT545076 | IL7R | interleukin 7 receptor | ![]() |
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2 | 2 | ||||||
MIRT545849 | ZNF264 | zinc finger protein 264 | ![]() |
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2 | 4 | ||||||
MIRT547436 | MED4 | mediator complex subunit 4 | ![]() |
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2 | 2 | ||||||
MIRT550157 | ZNF223 | zinc finger protein 223 | ![]() |
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2 | 4 | ||||||
MIRT553948 | STAMBP | STAM binding protein | ![]() |
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2 | 2 | ||||||
MIRT554395 | SERP1 | stress associated endoplasmic reticulum protein 1 | ![]() |
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2 | 2 | ||||||
MIRT555667 | PGAM4 | phosphoglycerate mutase family member 4 | ![]() |
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2 | 4 | ||||||
MIRT564193 | PM20D2 | peptidase M20 domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT566792 | MKL2 | MKL1/myocardin like 2 | ![]() |
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2 | 2 | ||||||
MIRT566843 | LRRC58 | leucine rich repeat containing 58 | ![]() |
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2 | 2 | ||||||
MIRT572516 | KIAA0232 | KIAA0232 | ![]() |
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2 | 2 | ||||||
MIRT607428 | NOTCH2NL | notch 2 N-terminal like | ![]() |
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2 | 10 | ||||||
MIRT627779 | RAB30 | RAB30, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT635159 | ENO4 | enolase family member 4 | ![]() |
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2 | 2 | ||||||
MIRT642159 | ADCYAP1R1 | ADCYAP receptor type I | ![]() |
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3 | 2 | |||||
MIRT646205 | DUSP10 | dual specificity phosphatase 10 | ![]() |
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2 | 2 | ||||||
MIRT657007 | KCNMB4 | potassium calcium-activated channel subfamily M regulatory beta subunit 4 | ![]() |
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2 | 2 | ||||||
MIRT665817 | TMEM161B | transmembrane protein 161B | ![]() |
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2 | 2 | ||||||
MIRT667488 | MAP3K2 | mitogen-activated protein kinase kinase kinase 2 | ![]() |
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2 | 2 | ||||||
MIRT707098 | ZNF850 | zinc finger protein 850 | ![]() |
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2 | 2 | ||||||
MIRT708719 | PTPLAD2 | 3-hydroxyacyl-CoA dehydratase 4 | ![]() |
1 | 1 | |||||||
MIRT735521 | HUS1 | HUS1 checkpoint clamp component | ![]() |
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3 | 0 | |||||
MIRT736644 | AGPAT3 | 1-acylglycerol-3-phosphate O-acyltransferase 3 | ![]() |
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2 | 0 |
miRNA-Drug Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||
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