pre-miRNA Information | |
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pre-miRNA | hsa-mir-4708 |
Genomic Coordinates | chr14: 65335117 - 65335183 |
Description | Homo sapiens miR-4708 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
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Mature miRNA | hsa-miR-4708-5p | ||||||||||||
Sequence | 9| AGAGAUGCCGCCUUGCUCCUU |29 | ||||||||||||
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 | 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 | 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 GSM545215. RNA binding protein: AGO4. Condition:Control
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
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 GSM545215 | |
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Method / RBP | PAR-CLIP / AGO4 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000555868.1 | 3UTR | CCUCCUCGCCCGUCACCCA |
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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94 hsa-miR-4708-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT095681 | RBM27 | RNA binding motif protein 27 | ![]() |
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2 | 4 | ||||||
MIRT104033 | USP42 | ubiquitin specific peptidase 42 | ![]() |
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2 | 6 | ||||||
MIRT114773 | CMPK1 | cytidine/uridine monophosphate kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT246923 | CCND1 | cyclin D1 | ![]() |
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2 | 2 | ||||||
MIRT392569 | ORAI2 | ORAI calcium release-activated calcium modulator 2 | ![]() |
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2 | 2 | ||||||
MIRT443949 | LRIT3 | leucine rich repeat, Ig-like and transmembrane domains 3 | ![]() |
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2 | 2 | ||||||
MIRT446695 | PAPPA | pappalysin 1 | ![]() |
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2 | 2 | ||||||
MIRT447383 | VOPP1 | vesicular, overexpressed in cancer, prosurvival protein 1 | ![]() |
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2 | 2 | ||||||
MIRT449321 | FAM120AOS | family with sequence similarity 120A opposite strand | ![]() |
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2 | 2 | ||||||
MIRT449717 | C1orf61 | chromosome 1 open reading frame 61 | ![]() |
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2 | 2 | ||||||
MIRT449738 | TAB2 | TGF-beta activated kinase 1/MAP3K7 binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT450531 | PGLS | 6-phosphogluconolactonase | ![]() |
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2 | 2 | ||||||
MIRT455650 | YARS | tyrosyl-tRNA synthetase | ![]() |
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2 | 2 | ||||||
MIRT458036 | MRPL12 | mitochondrial ribosomal protein L12 | ![]() |
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2 | 2 | ||||||
MIRT463468 | ZC3HAV1L | zinc finger CCCH-type containing, antiviral 1 like | ![]() |
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2 | 2 | ||||||
MIRT466677 | TAF1D | TATA-box binding protein associated factor, RNA polymerase I subunit D | ![]() |
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2 | 4 | ||||||
MIRT467789 | SLC2A14 | solute carrier family 2 member 14 | ![]() |
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2 | 2 | ||||||
MIRT468167 | SGPL1 | sphingosine-1-phosphate lyase 1 | ![]() |
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2 | 2 | ||||||
MIRT468652 | SECISBP2L | SECIS binding protein 2 like | ![]() |
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2 | 6 | ||||||
MIRT469380 | RER1 | retention in endoplasmic reticulum sorting receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT470346 | PPP2R5E | protein phosphatase 2 regulatory subunit B'epsilon | ![]() |
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2 | 2 | ||||||
MIRT472418 | NCKAP1 | NCK associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT474612 | KLF3 | Kruppel like factor 3 | ![]() |
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2 | 2 | ||||||
MIRT478703 | CSRNP2 | cysteine and serine rich nuclear protein 2 | ![]() |
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2 | 2 | ||||||
MIRT481008 | BBC3 | BCL2 binding component 3 | ![]() |
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2 | 4 | ||||||
MIRT483098 | TFPI | tissue factor pathway inhibitor | ![]() |
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2 | 2 | ||||||
MIRT485113 | SHISA6 | shisa family member 6 | ![]() |
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2 | 2 | ||||||
MIRT497533 | ZNF607 | zinc finger protein 607 | ![]() |
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2 | 2 | ||||||
MIRT500644 | TUBB2A | tubulin beta 2A class IIa | ![]() |
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2 | 6 | ||||||
MIRT500890 | STRN | striatin | ![]() |
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2 | 4 | ||||||
MIRT501900 | MED13 | mediator complex subunit 13 | ![]() |
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2 | 2 | ||||||
MIRT506646 | MAPK1 | mitogen-activated protein kinase 1 | ![]() |
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2 | 4 | ||||||
MIRT512675 | ENO4 | enolase family member 4 | ![]() |
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2 | 2 | ||||||
MIRT516977 | OR7D2 | olfactory receptor family 7 subfamily D member 2 | ![]() |
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2 | 2 | ||||||
MIRT528754 | RPS27 | ribosomal protein S27 | ![]() |
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2 | 6 | ||||||
MIRT539670 | ZBTB44 | zinc finger and BTB domain containing 44 | ![]() |
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2 | 2 | ||||||
MIRT544129 | PPIL1 | peptidylprolyl isomerase like 1 | ![]() |
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2 | 2 | ||||||
MIRT546382 | STOX2 | storkhead box 2 | ![]() |
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2 | 4 | ||||||
MIRT562143 | IGFBP5 | insulin like growth factor binding protein 5 | ![]() |
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2 | 2 | ||||||
MIRT568713 | TMEM30B | transmembrane protein 30B | ![]() |
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2 | 2 | ||||||
MIRT571029 | CENPP | centromere protein P | ![]() |
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2 | 2 | ||||||
MIRT572781 | ZNF277 | zinc finger protein 277 | ![]() |
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2 | 2 | ||||||
MIRT573162 | SLC30A9 | solute carrier family 30 member 9 | ![]() |
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2 | 2 | ||||||
MIRT609126 | NUDT3 | nudix hydrolase 3 | ![]() |
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2 | 2 | ||||||
MIRT609284 | OAS3 | 2'-5'-oligoadenylate synthetase 3 | ![]() |
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2 | 2 | ||||||
MIRT613430 | GALNT6 | polypeptide N-acetylgalactosaminyltransferase 6 | ![]() |
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2 | 2 | ||||||
MIRT613770 | TTC38 | tetratricopeptide repeat domain 38 | ![]() |
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2 | 2 | ||||||
MIRT616645 | LRAT | lecithin retinol acyltransferase | ![]() |
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2 | 4 | ||||||
MIRT630892 | SLC25A33 | solute carrier family 25 member 33 | ![]() |
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2 | 2 | ||||||
MIRT636526 | FAXC | failed axon connections homolog | ![]() |
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2 | 4 | ||||||
MIRT641394 | NUBPL | nucleotide binding protein like | ![]() |
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2 | 2 | ||||||
MIRT641412 | SCN2B | sodium voltage-gated channel beta subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT642528 | CERS4 | ceramide synthase 4 | ![]() |
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2 | 2 | ||||||
MIRT643186 | HYPK | huntingtin interacting protein K | ![]() |
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2 | 2 | ||||||
MIRT647800 | FRMD8 | FERM domain containing 8 | ![]() |
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2 | 2 | ||||||
MIRT652150 | TRIM71 | tripartite motif containing 71 | ![]() |
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2 | 2 | ||||||
MIRT652602 | TIMM8A | translocase of inner mitochondrial membrane 8A | ![]() |
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2 | 2 | ||||||
MIRT661606 | C2orf15 | chromosome 2 open reading frame 15 | ![]() |
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2 | 2 | ||||||
MIRT666339 | SKAP2 | src kinase associated phosphoprotein 2 | ![]() |
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2 | 2 | ||||||
MIRT670414 | ELP2 | elongator acetyltransferase complex subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT671122 | ZNF573 | zinc finger protein 573 | ![]() |
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2 | 2 | ||||||
MIRT671155 | ANKRD9 | ankyrin repeat domain 9 | ![]() |
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2 | 2 | ||||||
MIRT671338 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT671869 | ZNF429 | zinc finger protein 429 | ![]() |
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2 | 2 | ||||||
MIRT671974 | IKZF3 | IKAROS family zinc finger 3 | ![]() |
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2 | 2 | ||||||
MIRT672064 | KIAA0930 | KIAA0930 | ![]() |
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2 | 2 | ||||||
MIRT672654 | SLC25A16 | solute carrier family 25 member 16 | ![]() |
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2 | 4 | ||||||
MIRT672673 | GTF2H5 | general transcription factor IIH subunit 5 | ![]() |
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2 | 2 | ||||||
MIRT672771 | UBE2V2 | ubiquitin conjugating enzyme E2 V2 | ![]() |
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2 | 2 | ||||||
MIRT672929 | LRRC2 | leucine rich repeat containing 2 | ![]() |
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2 | 2 | ||||||
MIRT673159 | C1orf50 | chromosome 1 open reading frame 50 | ![]() |
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2 | 2 | ||||||
MIRT673272 | RUNDC1 | RUN domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT673332 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT673351 | SLC35F6 | solute carrier family 35 member F6 | ![]() |
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2 | 2 | ||||||
MIRT673667 | ZNF440 | zinc finger protein 440 | ![]() |
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2 | 2 | ||||||
MIRT673904 | DCTN6 | dynactin subunit 6 | ![]() |
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2 | 2 | ||||||
MIRT674096 | PLEKHA1 | pleckstrin homology domain containing A1 | ![]() |
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2 | 2 | ||||||
MIRT674401 | MYCBP | MYC binding protein | ![]() |
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2 | 2 | ||||||
MIRT674525 | PRR23A | proline rich 23A | ![]() |
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2 | 2 | ||||||
MIRT674793 | NPR1 | natriuretic peptide receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT674833 | ADAMTS4 | ADAM metallopeptidase with thrombospondin type 1 motif 4 | ![]() |
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2 | 2 | ||||||
MIRT675066 | FGD6 | FYVE, RhoGEF and PH domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT675080 | CCR6 | C-C motif chemokine receptor 6 | ![]() |
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2 | 2 | ||||||
MIRT675126 | FSD2 | fibronectin type III and SPRY domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT679401 | IL10RB | interleukin 10 receptor subunit beta | ![]() |
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2 | 2 | ||||||
MIRT689229 | RPS19 | ribosomal protein S19 | ![]() |
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2 | 2 | ||||||
MIRT694008 | PPIL4 | peptidylprolyl isomerase like 4 | ![]() |
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2 | 2 | ||||||
MIRT699671 | SFT2D2 | SFT2 domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT706213 | ACOT9 | acyl-CoA thioesterase 9 | ![]() |
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2 | 2 | ||||||
MIRT706548 | GJD2 | gap junction protein delta 2 | ![]() |
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2 | 2 | ||||||
MIRT707418 | RRP7A | ribosomal RNA processing 7 homolog A | ![]() |
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2 | 2 | ||||||
MIRT710648 | GLUL | glutamate-ammonia ligase | ![]() |
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2 | 2 | ||||||
MIRT719393 | NPCA1 | Nasopharyngeal carcinoma 1 | ![]() |
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2 | 2 | ||||||
MIRT720166 | PNPO | pyridoxamine 5'-phosphate oxidase | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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