pre-miRNA Information | |
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pre-miRNA | hsa-mir-3622b |
Genomic Coordinates | chr8: 27701673 - 27701767 |
Description | Homo sapiens miR-3622b stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-3622b-3p | |||||||||||||||||||||||||||
Sequence | 58| UCACCUGAGCUCCCGUGCCUG |78 | |||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||||||||
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 | GTPBP3 | ||||||||||||||||||||
Synonyms | COXPD23, GTPBG3, MSS1, MTGP1, THDF1 | ||||||||||||||||||||
Description | GTP binding protein 3, mitochondrial | ||||||||||||||||||||
Transcript | NM_001128855 | ||||||||||||||||||||
Other Transcripts | NM_032620 , NM_133644 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on GTPBP3 | |||||||||||||||||||||
3'UTR of GTPBP3 (miRNA target sites are highlighted) |
>GTPBP3|NM_001128855|3'UTR 1 CGGGATCCAGGGAAGTCGCACCCAAGCTGCGTGGAGACCCAGGAGCCTCGGGGGATCTGGAAACAGTTTAGGCCAATTGG 81 GATTCTCATTCGCCTGGGAAAGAACTTGATTCTCAAATAGTGAAGCAACACAGCTGAGAGGTAGTGAGATCCCTGCAGGG 161 ACTCCCTGGAGATTCAGGCCCTGGAATGGGGCTGAATGGAGGTCCCGTTCGACCCTTGATGCTGGGGCATCCGGGTTGGG 241 ATGGAGATAGGAGGATCTCAGTATATTTGTTTCGTAGTTTTTTATTTATTTTGCAAATACCAAAGGAATGTAAAAAAAAC 321 TCAGGTGATCTAGAAGTGTTTATTTTCTTCCCTTCCCTTCCCTTCCCTTTCCTTTTCCCTTTCCCTTTCCCCTTCCCCTT 401 CCCCTTCCCCTTCCCCTACCCTTCCCTCCTCTGTCTATTGCCCAGGCTGGAGTGCAGTGGTGCGACCTTGGCTCACTGCA 481 ACCTCCATCTCCGGGGCTCAAGCGCTTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCATGTGCCAGCATGCC 561 CGGCTAATTTTTTTCTTTTTTTGAGACAGAGTCTCGCTCTGTCACCCAGGCTGGAGTTCAGTGGTGCGACCTCGGCTTAC 641 TGCAACCTCCACCTCCCGGGTTCAAGTGATTCTCCTGCCTCAGCCTCTTGAGTAGCTGGGACTACAGGCGCACACCACCA 721 CGCCAGGCTAATTTTTGTATTTTTAGTAGAGACAAGGTTTCACCATGTTGACCAGGCTGGTCTTGAACTCCTTGACCTCA 801 GGTAATCTGCCTACCTTGGCCTCCCAAAGTGCTGGGATCACAGGCGTGAGCTATCACACCTGGCCCCAGAAGTGTTTCAA 881 CATGGAAATTTTCCTTAGCCCTTCTGTGGTTGTCATGGCTTAATGTGTGTCTTTCCAGAACTTTGAATGTTTGCATACTT 961 GTGGATGTACCTTTCAAATATGTTTGTCTTGTGTATCATATATAAATGGTATTGTGTTCATTGCTCTAAAAAAAAAAA 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 | HEK293 | ||||||
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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Hafner M; Landthaler M; Burger L; Khorshid et al. - Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
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CLIP-seq Support 1 for dataset GSM545216 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / miR-124 transfection |
Location of target site | ENST00000324894.8 | 3UTR | AUGUAAAAAAAACUCAGGUGAUCU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||||||||||||||||||||||||||||||||||||||||||||
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102 hsa-miR-3622b-3p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT076713 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | 2 | 2 | ||||||||
MIRT080212 | PRKACB | protein kinase cAMP-activated catalytic subunit beta | 2 | 2 | ||||||||
MIRT081398 | GTPBP3 | GTP binding protein 3, mitochondrial | 2 | 2 | ||||||||
MIRT107158 | ZBTB43 | zinc finger and BTB domain containing 43 | 2 | 2 | ||||||||
MIRT254071 | BACH1 | BTB domain and CNC homolog 1 | 2 | 2 | ||||||||
MIRT409790 | FOXO3 | forkhead box O3 | 2 | 2 | ||||||||
MIRT448679 | MAPK9 | mitogen-activated protein kinase 9 | 2 | 2 | ||||||||
MIRT450206 | ABHD15 | abhydrolase domain containing 15 | 2 | 2 | ||||||||
MIRT486621 | PDK3 | pyruvate dehydrogenase kinase 3 | 2 | 2 | ||||||||
MIRT489267 | TTLL1 | tubulin tyrosine ligase like 1 | 2 | 2 | ||||||||
MIRT493117 | MKNK2 | MAP kinase interacting serine/threonine kinase 2 | 2 | 4 | ||||||||
MIRT494570 | BAK1 | BCL2 antagonist/killer 1 | 2 | 2 | ||||||||
MIRT497395 | RALY | RALY heterogeneous nuclear ribonucleoprotein | 2 | 2 | ||||||||
MIRT504900 | CCDC86 | coiled-coil domain containing 86 | 2 | 2 | ||||||||
MIRT505192 | USP46 | ubiquitin specific peptidase 46 | 2 | 4 | ||||||||
MIRT506522 | MSANTD4 | Myb/SANT DNA binding domain containing 4 with coiled-coils | 2 | 6 | ||||||||
MIRT508162 | ABCC5 | ATP binding cassette subfamily C member 5 | 2 | 8 | ||||||||
MIRT508545 | PARVG | parvin gamma | 2 | 4 | ||||||||
MIRT509850 | BIRC5 | baculoviral IAP repeat containing 5 | 2 | 6 | ||||||||
MIRT510088 | PPWD1 | peptidylprolyl isomerase domain and WD repeat containing 1 | 2 | 8 | ||||||||
MIRT512094 | CRK | CRK proto-oncogene, adaptor protein | 2 | 4 | ||||||||
MIRT515381 | RPL7 | ribosomal protein L7 | 2 | 2 | ||||||||
MIRT519176 | SCO1 | SCO1, cytochrome c oxidase assembly protein | 2 | 2 | ||||||||
MIRT519964 | ZCCHC8 | zinc finger CCHC-type containing 8 | 2 | 2 | ||||||||
MIRT522292 | NKAP | NFKB activating protein | 2 | 2 | ||||||||
MIRT523160 | HMGB2 | high mobility group box 2 | 2 | 4 | ||||||||
MIRT525314 | FANCA | Fanconi anemia complementation group A | 2 | 2 | ||||||||
MIRT528194 | PLEKHM2 | pleckstrin homology and RUN domain containing M2 | 2 | 2 | ||||||||
MIRT532885 | ZNF451 | zinc finger protein 451 | 2 | 2 | ||||||||
MIRT538209 | CYR61 | cysteine rich angiogenic inducer 61 | 2 | 2 | ||||||||
MIRT539497 | ACTN4 | actinin alpha 4 | 2 | 2 | ||||||||
MIRT554600 | RRAGC | Ras related GTP binding C | 2 | 2 | ||||||||
MIRT562444 | DCTN6 | dynactin subunit 6 | 2 | 2 | ||||||||
MIRT562748 | AOC3 | amine oxidase, copper containing 3 | 2 | 2 | ||||||||
MIRT565798 | SEC14L5 | SEC14 like lipid binding 5 | 2 | 2 | ||||||||
MIRT565838 | SCML2 | Scm polycomb group protein like 2 | 2 | 2 | ||||||||
MIRT566072 | RCC2 | regulator of chromosome condensation 2 | 2 | 2 | ||||||||
MIRT566104 | RBPJ | recombination signal binding protein for immunoglobulin kappa J region | 2 | 2 | ||||||||
MIRT572407 | MRPS14 | mitochondrial ribosomal protein S14 | 2 | 2 | ||||||||
MIRT576198 | Vsig2 | V-set and immunoglobulin domain containing 2 | 2 | 2 | ||||||||
MIRT576313 | Acbd7 | acyl-Coenzyme A binding domain containing 7 | 2 | 2 | ||||||||
MIRT576651 | Mill2 | MHC I like leukocyte 2 | 1 | 1 | ||||||||
MIRT576859 | Socs6 | suppressor of cytokine signaling 6 | 2 | 2 | ||||||||
MIRT606819 | BICD2 | BICD cargo adaptor 2 | 2 | 2 | ||||||||
MIRT610738 | NUDT16 | nudix hydrolase 16 | 2 | 4 | ||||||||
MIRT614798 | RORA | RAR related orphan receptor A | 2 | 2 | ||||||||
MIRT619006 | NTMT1 | N-terminal Xaa-Pro-Lys N-methyltransferase 1 | 2 | 2 | ||||||||
MIRT619420 | NOS1AP | nitric oxide synthase 1 adaptor protein | 2 | 2 | ||||||||
MIRT620405 | MYO1H | myosin IH | 2 | 2 | ||||||||
MIRT624869 | ABHD13 | abhydrolase domain containing 13 | 2 | 2 | ||||||||
MIRT633527 | ZFP30 | ZFP30 zinc finger protein | 2 | 2 | ||||||||
MIRT633927 | DNAH9 | dynein axonemal heavy chain 9 | 2 | 2 | ||||||||
MIRT636611 | CLIC5 | chloride intracellular channel 5 | 2 | 2 | ||||||||
MIRT640616 | MIOX | myo-inositol oxygenase | 2 | 2 | ||||||||
MIRT642605 | C14orf180 | chromosome 14 open reading frame 180 | 2 | 2 | ||||||||
MIRT644624 | SRSF2 | serine and arginine rich splicing factor 2 | 2 | 2 | ||||||||
MIRT655113 | PHLDA3 | pleckstrin homology like domain family A member 3 | 2 | 2 | ||||||||
MIRT658976 | DNAJB5 | DnaJ heat shock protein family (Hsp40) member B5 | 2 | 4 | ||||||||
MIRT661495 | CHMP1B | charged multivesicular body protein 1B | 2 | 2 | ||||||||
MIRT662996 | TMEM59 | transmembrane protein 59 | 2 | 2 | ||||||||
MIRT663075 | SFR1 | SWI5 dependent homologous recombination repair protein 1 | 2 | 2 | ||||||||
MIRT665405 | WEE1 | WEE1 G2 checkpoint kinase | 2 | 2 | ||||||||
MIRT666106 | SSR1 | signal sequence receptor subunit 1 | 2 | 2 | ||||||||
MIRT669562 | ALDOA | aldolase, fructose-bisphosphate A | 2 | 2 | ||||||||
MIRT670070 | ZNF783 | zinc finger family member 783 | 2 | 2 | ||||||||
MIRT671192 | ZNF891 | zinc finger protein 891 | 2 | 2 | ||||||||
MIRT675361 | KLHL26 | kelch like family member 26 | 2 | 2 | ||||||||
MIRT678857 | LINC00598 | long intergenic non-protein coding RNA 598 | 2 | 2 | ||||||||
MIRT679443 | C19orf52 | translocase of inner mitochondrial membrane 29 | 2 | 2 | ||||||||
MIRT684163 | ALDH1B1 | aldehyde dehydrogenase 1 family member B1 | 2 | 2 | ||||||||
MIRT684543 | ZNF460 | zinc finger protein 460 | 2 | 2 | ||||||||
MIRT684674 | SLC2A11 | solute carrier family 2 member 11 | 2 | 2 | ||||||||
MIRT684971 | MINOS1 | mitochondrial inner membrane organizing system 1 | 2 | 2 | ||||||||
MIRT686006 | NEK4 | NIMA related kinase 4 | 2 | 2 | ||||||||
MIRT687758 | KIAA1328 | KIAA1328 | 2 | 2 | ||||||||
MIRT688961 | ATXN3 | ataxin 3 | 2 | 2 | ||||||||
MIRT689409 | UQCR11 | ubiquinol-cytochrome c reductase, complex III subunit XI | 2 | 2 | ||||||||
MIRT690001 | MMP17 | matrix metallopeptidase 17 | 2 | 2 | ||||||||
MIRT690165 | ELP3 | elongator acetyltransferase complex subunit 3 | 2 | 2 | ||||||||
MIRT690202 | C5orf45 | MRN complex interacting protein | 2 | 2 | ||||||||
MIRT690477 | ZNF33A | zinc finger protein 33A | 2 | 2 | ||||||||
MIRT690566 | MICA | MHC class I polypeptide-related sequence A | 2 | 2 | ||||||||
MIRT692160 | C10orf111 | chromosome 10 open reading frame 111 | 2 | 2 | ||||||||
MIRT693430 | PLGLB2 | plasminogen-like B2 | 2 | 2 | ||||||||
MIRT693547 | ZNF708 | zinc finger protein 708 | 2 | 2 | ||||||||
MIRT693697 | PLGLB1 | plasminogen-like B1 | 2 | 2 | ||||||||
MIRT695006 | HSPA6 | heat shock protein family A (Hsp70) member 6 | 2 | 2 | ||||||||
MIRT698525 | TFRC | transferrin receptor | 2 | 2 | ||||||||
MIRT699574 | SIKE1 | suppressor of IKBKE 1 | 2 | 2 | ||||||||
MIRT703446 | FYTTD1 | forty-two-three domain containing 1 | 2 | 2 | ||||||||
MIRT704397 | CTSS | cathepsin S | 2 | 2 | ||||||||
MIRT704485 | CPT1A | carnitine palmitoyltransferase 1A | 2 | 2 | ||||||||
MIRT709822 | STPG1 | sperm tail PG-rich repeat containing 1 | 2 | 2 | ||||||||
MIRT710859 | COQ7 | coenzyme Q7, hydroxylase | 2 | 2 | ||||||||
MIRT711893 | INSIG2 | insulin induced gene 2 | 2 | 2 | ||||||||
MIRT713796 | CPLX2 | complexin 2 | 2 | 2 | ||||||||
MIRT718800 | C1GALT1C1 | C1GALT1 specific chaperone 1 | 2 | 2 | ||||||||
MIRT719501 | SEC24B | SEC24 homolog B, COPII coat complex component | 2 | 2 | ||||||||
MIRT719722 | PDE6B | phosphodiesterase 6B | 2 | 2 | ||||||||
MIRT722204 | URM1 | ubiquitin related modifier 1 | 2 | 2 | ||||||||
MIRT723523 | CLPTM1L | CLPTM1 like | 2 | 2 | ||||||||
MIRT725471 | GRAP2 | GRB2-related adaptor protein 2 | 2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||
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