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 | FAM13B | ||||||||||||||||||||
Synonyms | ARHGAP49, C5orf5, FAM13B1, KHCHP, N61 | ||||||||||||||||||||
Description | family with sequence similarity 13 member B | ||||||||||||||||||||
Transcript | NM_001101800 | ||||||||||||||||||||
Other Transcripts | NM_001101801 , NM_016603 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on FAM13B | |||||||||||||||||||||
3'UTR of FAM13B (miRNA target sites are highlighted) |
>FAM13B|NM_001101800|3'UTR 1 GATACGTTCCTTGAAAATTCATATCATAAAGTCAGTTGTATTCCTTGAAGCTATCATCGTGTGTACTTGGCTGGTACTTA 81 AATTCGTTTTGTCAGGCACTCAGAGAATCTCATTTTGTACTTGGTTGTGGTGCCACTAAACAAAACAAATGATGGGAGAG 161 TAAGTAGGCCCTCTCAAGGGAGCGTAAGTGATGTTCCATATTAACCACAGACTGTCCTCTCCACCTTTAGCAAACATATG 241 GTTTACTTCATTGTTTTGTACTACAGATACATCCTTTTAGCAAAAGACTGGAATTTTATCCTTTCAACTTCAAGAACTTT 321 GGAAATGCAAGCTTTTTGTTATTACCAACTTTTTGTTTCTCATTACTGAAGAAAATTGGAGGAAAATCTTCATACTGAAT 401 TCTTCTGTTGCCTTTTTCTTACAGAATGACTGAAAATTTGAAAGAAAAGCCTATAAAAGTGCACATACGCAACTGTGTTC 481 TCTGTTTTCCTAGAAAACCAAAATCAAACTGAGATTTCAAGTCGTACTATGGAACACCTTTCTGTTTAATTCCCAAAGTG 561 ACATCTTCTCACAGGTAGTATGTTAGTAAAATTTTGCAATTCGCTGGTCACACAGCTCCCGGATGAAGATAACAGTTGGT 641 AGACCAAAAGGTGACCTCGCTTAGTATATTGAAAACACACACCACACATCACACACAGAACTGAATCATACCACATGCTG 721 CCTATGGGACTTCAGTTACTGTTTCCTGAGTTACTGTTTATCCGCTGGCAATGGTGTGATTTGTCTGGATCAGATCCGCG 801 CTATTCCCCAACCCACCTCCAGATAATGTGAGAAAATAGCCATGTCAGTATGTAGGAACTCTGATGGTGCTCAGATTTGT 881 GTGTTCAATCAATGGGCTTAAATCAGCAAAATATTATGCCTAAAGTAAATCTGTTCTTAACAAGGGCTCTACCACTGCAT 961 TTTCACATGTACCTTCAGGGGGTTATCTTTTTTTTTTTCCCCTCCTATTTTAATCAGCAAAATCCATACCAAAACAACGA 1041 CAACAACGCCCTCTTAAGGGACCACCCTTTGGTCAATCATAACATGCTGTTTAAAGCAGCTGTTTACAGGATGTGTAGTG 1121 GTATGCCCCTTGTCATATACTCTTAGCATATCTTTTTTTCCTTTGGCTTTGCATGGCTTTTCTTCAGGTACTGTCTCGGT 1201 ATCATTCTGCTAATCATTGTTACAGAATGGTGACTTCATTTGTGCTAACAGTACAACAGCAGATTTGGGTCAGGCTTAAT 1281 CTAAGTGTTAACTTTTTTTTCTGGTGCTTTTTTGGATTGATGACTGTCTCACTTTGACTATACCCATGTTTTGCATGCAA 1361 TGACTCATGCATGGTTTTCTTAACTAGCTAATATTAACAATTTATTCCATATAAAAATGGAATTTTGCAACATCCTTTAA 1441 TAAGGTGAGGGAAGCATGAACCTCAGACTTCTGGCACTATTACATAGTAAGCACATGAAGTAGTTTGATAATAAATAGCA 1521 GTTCTAGTACTTCACATTTCACCCGTGTGTGCAATGCCTTTTTCTGGGGGGTGGGGGGTGAGGGAAAACCTGGTAGTGAA 1601 TGTGTAGTTGGGGAATAAAGAAAAGCACTAAATCCTGCCCTTTTTGTGTGGTTTCCTTTTGATACAACTAGGTTATTCAT 1681 AATGTATACCTAGAAAAGTGAAATTGAAAATACCAAAAGATGTATCATTTTTATTTGAATCCATCATGCAGTGTACATTT 1761 CAGATAATTTCCTTCAGTCTCCAGATAGGAGTGTATCCAAACATCTAATTTTATGTGCACTGTGTATCTTATATGAATGT 1841 TTTATTTTATATACCACATGCAAAAATGTCCATATGCACTATTTAAATGTTTTAAATAATATATTCCTTCTTTATAATGC 1921 TAAATCTATATGAGTACCATATTTTTATAAGTCAGTGGTCTGACTGGTTTCATTTTAGAATTAACAGCTGCTTCAATATG 2001 TTATTCAATGTTAATGTTTGGCTGTGAGTAGAATATGTAAAAGTGGCATGGCAGCACTTATGCTCTGTGACAGTATTGTG 2081 TGTCATAGTTGAGCAGTAGCTGGTAGAATTAGGCAGTTGGTGATAGTTTTACTTTGGTACAAATAAAAACTGTATATCTA 2161 TATACAAATAATATATAGATATATATGTCCACCAGTATAATGGCATTGCTGTGTCTGGCACTTCATTGTACAGACTTTTA 2241 TAATAAAAGAACTTGAAAGTTCTAAGTCATTGTAAATGTATGTTTGTTTTTCCACTGGGCTTAAAAAAAAAAAAAAAAAA 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 | 51306.0 | ||||||
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. |
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miRNA-target interactions (Provided by authors) |
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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 SRR359787 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | hESCs (WA-09) / 4-thiouridine, RNase T1 |
Location of target site | ENST00000033079.3 | 3UTR | AAUUCAUAUCAUAAAGUCAGUUGUAU |
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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