pre-miRNA Information | |
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pre-miRNA | hsa-mir-655 |
Genomic Coordinates | chr14: 101049550 - 101049646 |
Synonyms | MIRN655, hsa-mir-655, MIR655 |
Description | Homo sapiens miR-655 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-655-5p | ||||||||||||||||||||||||||||||
Sequence | 23| AGAGGUUAUCCGUGUUAUGUUC |44 | ||||||||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||||||||
Experiments | Illumina | ||||||||||||||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | TMEM30B | ||||||||||||||||||||
Synonyms | CDC50B | ||||||||||||||||||||
Description | transmembrane protein 30B | ||||||||||||||||||||
Transcript | NM_001017970 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on TMEM30B | |||||||||||||||||||||
3'UTR of TMEM30B (miRNA target sites are highlighted) |
>TMEM30B|NM_001017970|3'UTR 1 TTCCGGCTTTCCAGGGATCCCTCCTGCTTCTTGCCAAAACTCTTGCAAGGTGCTTTTGGCATCTCCTCCTCGCCCGTCAC 81 CCAATTCCAACCTCGCCTAGCTTTTCCTCCCTTTGTGAATGAGGGGACCAGATAAGGGAATTACCCCCCTTGCTCTTGGG 161 GGGCTGCTAGACTGTCTTGCCGCGGGGAGGGATGTTGACTGCAGAGTGAAACATCCTTGCAAACTCTTCCCACCTCCTTC 241 ACGACACTGAGTTGCCATGTGAGGTTCTTCAAGTCTGAGAGTGGAAGGGATCCCTATGGAGACTCCTATTAAACCCCTAT 321 TAGAGGAAGAGATTGAGAGACCTAGCAATGTGAAGTAACAAAGATCAGGCAGCTGCAAGTGACTCCTGAATCTTGAGTCC 401 AGGGCTTTCGCCACTACAGTACAGTGGTTTTCTTTTCTTTGGTCGGGGAGAGTGGGCTGGAATGGAGAGTGAGGCCCACA 481 AATTACCTGCAGAGACGTGGAGGCGTGAGGGAGAACATGCTTGTTAAATATGCAGGTAGATTAGGAGACACCAAACAGAG 561 ATTCAGACACAGTAAGGCTGGGATGAGATCCTCGAAGCTGTGTTTTAACAAACTCCACTGGAGAGTCCCATATTCCCTCA 641 AATTTGGGAATCACGACCCTGAACCAGGTTGGGCCTGAAGCAGTCAACTGAATTCACTTTTTCGGATAGTAATTTGTTCC 721 CAGGGGCAGTGACAACCATGATGTTCCAGGTTTGGTCTGGCACTCTGCCTTGAACGTAGGAAGCTCTTGATGATTTGTGG 801 AATGAATTTTTAAAAAATTACTATCTGGGGAAAACTAGTTGGCATACAGAGTTGTAGGACAGGGTTTATGTGATTCATTT 881 GATATTTTAGTATTTTGGTGTAAAAGCCAACAGGCAAACTTTGCCAGGTACTGTGTAGAAACTCGAAAATGTGAGGCCAG 961 TTTGTACAGTTCAGAGGAAATGCTTTAACGTAGAATCAGATAGCTGGAAGAGATCTTCGAGGGAAAGTAAGTTCCCTAAA 1041 GTCACATCTATGTCTCCTAGCTCAGTGTTCTTTGTCATTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATTA 1121 GAAAGGGCTTCATTCATACCTTTTCCCTTGGACCTGGAAAAAAAATTTTTTTTATCTTTTCAAATGAAATCTATTGATTT 1201 CTAGTAATCATATTTGAATCAATGTTAAAGCATATATAGTCTTATATGTAAACTAGATTCTTAAGATTATTTGAACCTTT 1281 GAGATGAAGTTTACACTCAACTAAAATCATTCCATTGATTTTATTGATTAACATCAATCAGTATGTTTAAAGTTATTCTA 1361 AGAAGCAATAGTTTATTTTTAAAAACCTTGTATAGCAAAATAACTTAAAACCCTTTGTGATATCATCTTACCAGTTTATT 1441 TGGTAAAAACAAACAGTTATTTGGTATTTGTCAGAATTCTTCAGTGCCTGCTATTACAGCTATTTTCCAATTACTAACTT 1521 GATTATACTCACTCAAGGCAGTGCAAGATCTTGAAGTACTTTTTAGCAGTTAAGTAATATTGAATTGTATTGAATAGTTT 1601 ACATAGTTTATTCTAGTCTTTGAAAATTACTGAACATGGACAATGTGCATGTCATTGACATCTGCCTTAGAACTTCTGGG 1681 ACAATCCTGATTCGAGAGATTCTATCCCATTATTTACATATACCAAAAATACTTTGTTAATTTAATGTGTTGGCTTCCCA 1761 ACTCCTGAACACGACACAATTTTATTATTAGATTTTGTATGGTGATTTTAGGCTATGAAAACATGATCATTATATGTATA 1841 TAGATACATTTTTATTTGTTACAAATGTTTGAGCAGCTCACTAGCCCACCCCTCCTCTATTTTGGGTAAGAGAATTTACT 1921 ACCTTTTTTAACTATGTAGTTGAGAGCAACATGTATTTTGTTATTTTTAGAATGGTCAGTATATTGCTATAAAATTTTAA 2001 ATGAGACTATGAAAGTTAAAGTATTCTGATTCTGGTTAAATTAACGAATATGGTTCCAGGCCCTGTTCTCTGGGTTTTTG 2081 AGAGAGAATAAAGGTTATGTTTGTCTTACCTTTGTTATCGAGTTTGCTGAATTCTTTTGAACGATGATCTTAAAGGCACA 2161 AACACCACCAGCCACTTTGCTAATTTCTTAATAGCAGATTTACATTGCAGCAAGAAAACCATCTTTTATAGTAACATTCA 2241 GTTAAAATGAACTCAATTCATTGTTAACTTCCTAAAACAGAATTTGAACTTTATCAACCTCAACGTGTATATAAACTAGA 2321 TAGTCCTCAATACTTTATCAACCTCAACATGTATATAAACTAGATAGTCCTCAAATACTGTTTGAATTTAATAAATGTCA 2401 ATTTAAAAATTTTTGTAGTAGTCTTCTGCATTTTACTTCAATTATAAATTGCAATTATTTATTGGATATTTTGGACTTCA 2481 AAGCAGCAGAAACTTTAAAACTGAAATGGGAAACGTTTTCCTGCAATGATCCCTGTGCTGTAACATTTTGTCTGGTGTCT 2561 CAGGCTTCCAGGTTCTTGTTGGCCTGAATTCCCTTGTTGCCCAGTAAATGTTCACTAGCTAGAAGTATCTTCAGGAAGTG 2641 AGATAGAAAAGAGTGAACCTCAACAATTGGACTGGAAATGAGCTTTGACCTAACTTTGTAAAATAAAAGCATAAAAGAGA 2721 AA 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 | MCF7 | ||||||
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 SRR1045082. RNA binding protein: AGO2. Condition:Untreated
... - Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Farazi TA; Ten Hoeve JJ; Brown M; et al. - Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
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CLIP-seq Support 1 for dataset SRR1045082 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | MCF7 / Untreated |
Location of target site | ENST00000555868.1 | 3UTR | UCCUCAAUACUUUAUCAACCUCAACAUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 24398324 / SRX388831 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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91 hsa-miR-655-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT080691 | KIAA1468 | KIAA1468 | ![]() |
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2 | 2 | ||||||
MIRT095086 | SEC24A | SEC24 homolog A, COPII coat complex component | ![]() |
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2 | 4 | ||||||
MIRT122450 | SMIM13 | small integral membrane protein 13 | ![]() |
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2 | 2 | ||||||
MIRT214635 | SMAD5 | SMAD family member 5 | ![]() |
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2 | 4 | ||||||
MIRT268267 | CCND1 | cyclin D1 | ![]() |
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2 | 2 | ||||||
MIRT312418 | GRPEL2 | GrpE like 2, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT329008 | DSTN | destrin, actin depolymerizing factor | ![]() |
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2 | 2 | ||||||
MIRT329824 | PDCD4 | programmed cell death 4 | ![]() |
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2 | 4 | ||||||
MIRT389635 | LRRC58 | leucine rich repeat containing 58 | ![]() |
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2 | 6 | ||||||
MIRT443969 | FAM198B | family with sequence similarity 198 member B | ![]() |
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2 | 2 | ||||||
MIRT444080 | C12orf73 | chromosome 12 open reading frame 73 | ![]() |
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2 | 2 | ||||||
MIRT444886 | TMEM196 | transmembrane protein 196 | ![]() |
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2 | 2 | ||||||
MIRT445506 | CRNKL1 | crooked neck pre-mRNA splicing factor 1 | ![]() |
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2 | 4 | ||||||
MIRT446292 | ACSL3 | acyl-CoA synthetase long chain family member 3 | ![]() |
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2 | 2 | ||||||
MIRT446462 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT446472 | THUMPD3 | THUMP domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT447413 | MED21 | mediator complex subunit 21 | ![]() |
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2 | 2 | ||||||
MIRT447491 | KIAA1715 | lunapark, ER junction formation factor | ![]() |
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2 | 2 | ||||||
MIRT448965 | CDADC1 | cytidine and dCMP deaminase domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT449602 | INIP | INTS3 and NABP interacting protein | ![]() |
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2 | 2 | ||||||
MIRT449607 | PRPF4 | pre-mRNA processing factor 4 | ![]() |
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2 | 2 | ||||||
MIRT449737 | TAB2 | TGF-beta activated kinase 1/MAP3K7 binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT451668 | KRT8 | keratin 8 | ![]() |
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2 | 4 | ||||||
MIRT452424 | QDPR | quinoid dihydropteridine reductase | ![]() |
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2 | 2 | ||||||
MIRT455187 | AGTRAP | angiotensin II receptor associated protein | ![]() |
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2 | 2 | ||||||
MIRT456059 | SLC25A28 | solute carrier family 25 member 28 | ![]() |
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2 | 2 | ||||||
MIRT456488 | SERAC1 | serine active site containing 1 | ![]() |
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2 | 2 | ||||||
MIRT456631 | ARMCX6 | armadillo repeat containing, X-linked 6 | ![]() |
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2 | 2 | ||||||
MIRT459621 | SLC25A33 | solute carrier family 25 member 33 | ![]() |
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2 | 2 | ||||||
MIRT461162 | SLC11A2 | solute carrier family 11 member 2 | ![]() |
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2 | 4 | ||||||
MIRT461990 | PACSIN1 | protein kinase C and casein kinase substrate in neurons 1 | ![]() |
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2 | 2 | ||||||
MIRT463149 | ZNF385A | zinc finger protein 385A | ![]() |
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2 | 4 | ||||||
MIRT463465 | ZC3HAV1L | zinc finger CCCH-type containing, antiviral 1 like | ![]() |
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2 | 2 | ||||||
MIRT463801 | XPOT | exportin for tRNA | ![]() |
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2 | 2 | ||||||
MIRT464010 | WDR26 | WD repeat domain 26 | ![]() |
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2 | 2 | ||||||
MIRT465302 | TRIB1 | tribbles pseudokinase 1 | ![]() |
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2 | 2 | ||||||
MIRT468837 | RRM2 | ribonucleotide reductase regulatory subunit M2 | ![]() |
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2 | 2 | ||||||
MIRT469132 | RNF126 | ring finger protein 126 | ![]() |
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2 | 2 | ||||||
MIRT469244 | RHOB | ras homolog family member B | ![]() |
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2 | 2 | ||||||
MIRT472414 | NCKAP1 | NCK associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT472432 | NCBP2 | nuclear cap binding protein subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT472808 | MTMR12 | myotubularin related protein 12 | ![]() |
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2 | 2 | ||||||
MIRT477893 | DVL3 | dishevelled segment polarity protein 3 | ![]() |
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2 | 4 | ||||||
MIRT477963 | DPM2 | dolichyl-phosphate mannosyltransferase subunit 2, regulatory | ![]() |
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2 | 2 | ||||||
MIRT479258 | CHSY1 | chondroitin sulfate synthase 1 | ![]() |
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2 | 2 | ||||||
MIRT479718 | CCNF | cyclin F | ![]() |
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2 | 2 | ||||||
MIRT480231 | C9orf41 | carnosine N-methyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT482600 | ABHD14B | abhydrolase domain containing 14B | ![]() |
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2 | 2 | ||||||
MIRT483096 | TFPI | tissue factor pathway inhibitor | ![]() |
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2 | 2 | ||||||
MIRT484644 | TBC1D5 | TBC1 domain family member 5 | ![]() |
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2 | 4 | ||||||
MIRT488899 | CLDND1 | claudin domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT491954 | VPS52 | VPS52, GARP complex subunit | ![]() |
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2 | 2 | ||||||
MIRT496937 | LBR | lamin B receptor | ![]() |
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2 | 2 | ||||||
MIRT498546 | TMEM30B | transmembrane protein 30B | ![]() |
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2 | 2 | ||||||
MIRT501778 | NRBF2 | nuclear receptor binding factor 2 | ![]() |
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2 | 6 | ||||||
MIRT516286 | DBT | dihydrolipoamide branched chain transacylase E2 | ![]() |
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2 | 2 | ||||||
MIRT516351 | GABPB1 | GA binding protein transcription factor beta subunit 1 | ![]() |
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2 | 2 | ||||||
MIRT516751 | ZNF100 | zinc finger protein 100 | ![]() |
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2 | 2 | ||||||
MIRT517939 | ZNF431 | zinc finger protein 431 | ![]() |
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2 | 4 | ||||||
MIRT518295 | ZNF514 | zinc finger protein 514 | ![]() |
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2 | 4 | ||||||
MIRT518515 | CASP10 | caspase 10 | ![]() |
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2 | 2 | ||||||
MIRT519017 | NOA1 | nitric oxide associated 1 | ![]() |
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2 | 2 | ||||||
MIRT519171 | SCO1 | SCO1, cytochrome c oxidase assembly protein | ![]() |
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2 | 2 | ||||||
MIRT519470 | SPTLC2 | serine palmitoyltransferase long chain base subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT521029 | SLC30A5 | solute carrier family 30 member 5 | ![]() |
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2 | 2 | ||||||
MIRT521251 | SAMD8 | sterile alpha motif domain containing 8 | ![]() |
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2 | 2 | ||||||
MIRT521682 | PRKAR2A | protein kinase cAMP-dependent type II regulatory subunit alpha | ![]() |
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2 | 2 | ||||||
MIRT529386 | SKP1 | S-phase kinase associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT545507 | NAP1L1 | nucleosome assembly protein 1 like 1 | ![]() |
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2 | 2 | ||||||
MIRT549655 | RSL1D1 | ribosomal L1 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT551041 | CTSB | cathepsin B | ![]() |
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2 | 4 | ||||||
MIRT551441 | ZNF490 | zinc finger protein 490 | ![]() |
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2 | 4 | ||||||
MIRT554778 | RHEBP1 | RHEB pseudogene 1 | ![]() |
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2 | 4 | ||||||
MIRT565793 | SEC14L5 | SEC14 like lipid binding 5 | ![]() |
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2 | 2 | ||||||
MIRT566727 | MSL2 | MSL complex subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT574668 | HNRNPDL | heterogeneous nuclear ribonucleoprotein D like | ![]() |
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2 | 2 | ||||||
MIRT610128 | DENND5B | DENN domain containing 5B | ![]() |
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2 | 2 | ||||||
MIRT624919 | FBXW2 | F-box and WD repeat domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT641830 | TRIM71 | tripartite motif containing 71 | ![]() |
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2 | 2 | ||||||
MIRT662165 | IFNAR2 | interferon alpha and beta receptor subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT667150 | NRXN3 | neurexin 3 | ![]() |
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2 | 2 | ||||||
MIRT689085 | ADNP2 | ADNP homeobox 2 | ![]() |
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2 | 2 | ||||||
MIRT696322 | DCAF15 | DDB1 and CUL4 associated factor 15 | ![]() |
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2 | 2 | ||||||
MIRT699062 | SNX4 | sorting nexin 4 | ![]() |
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2 | 2 | ||||||
MIRT703229 | GOLGA1 | golgin A1 | ![]() |
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2 | 2 | ||||||
MIRT705743 | AMD1 | adenosylmethionine decarboxylase 1 | ![]() |
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2 | 2 | ||||||
MIRT706087 | HNRNPU | heterogeneous nuclear ribonucleoprotein U | ![]() |
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2 | 2 | ||||||
MIRT709288 | MAPK8IP2 | mitogen-activated protein kinase 8 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT711457 | RNF145 | ring finger protein 145 | ![]() |
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2 | 2 | ||||||
MIRT714708 | PPP3CC | protein phosphatase 3 catalytic subunit gamma | ![]() |
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2 | 2 | ||||||
MIRT719871 | CYP4F11 | cytochrome P450 family 4 subfamily F member 11 | ![]() |
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2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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