miRTarBase - #MIRT522860


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pre-miRNA Information
pre-miRNA hsa-mir-516b-1   
Genomic Coordinates chr19: 53736845 - 53736934
Synonyms MIRN516-4, MIRN516B-1, MIRN516B1, MIR516B1
Description Homo sapiens miR-516b-1 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases
pre-miRNA hsa-mir-516b-2   
Genomic Coordinates chr19: 53725442 - 53725526
Synonyms MIRN516-3, MIRN516B-2, MIRN516B2, MIR516B2
Description Homo sapiens miR-516b-2 stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-516b-3p
Sequence 56| UGCUUCCUUUCAGAGGGU |73
Evidence Experimental
Experiments Array-cloned
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1413434631 1 dbSNP
rs746170707 2 dbSNP
rs1312744198 2 dbSNP
rs752101959 3 dbSNP
rs770077784 4 dbSNP
rs1193425541 6 dbSNP
rs953142850 7 dbSNP
rs1020245150 7 dbSNP
rs775845942 11 dbSNP
rs1402471980 11 dbSNP
rs760158839 15 dbSNP
rs78861479 16 dbSNP
rs765933705 16 dbSNP
Putative Targets

Gene Information
Gene Symbol KIAA1551   
Synonyms C12orf35, GET, UTA2-1
Description KIAA1551
Transcript NM_018169   
Expression
Putative miRNA Targets on KIAA1551
3'UTR of KIAA1551
(miRNA target sites are highlighted)		 
>KIAA1551|NM_018169|3'UTR
   1 TTACAAGATGTGGTTTTGTAATTGCCACTGGGAAATTTCTTTCCTTTTCTGTTCAAAATATTTCGCTGAAACTAATGAGA
  81 AATGCCATGATAAAGATTTCTCAGAGTTTGGTTCCCACTTTCATTGTATTTCATTGAAAGTGCTTAATTAAAATGGCTTG
 161 AGAACTTTGGGTAGCCATGTGTAAGAAATGGATGGTATTCACCGGGGAAACAAGGTATTTGAATTTCTACTTTATTGAAC
 241 CAGATTTACCATTATTTTAAAAGGAATGCTTATACAAATCAATTTGAAATTCTACCCATCTTGAGGGAGGACCGTTCCTC
 321 AGTTAAGGACTTGTTTATTTAAATGGGACTGTAAATATGTTTTGGTTTCTAAGCTATATTAGCAAAATTTATTTTTCAAA
 401 AATGCCCACTGTGATGTGAATGTCAAAATATATTCTTAAGTGTTTTATAACTAATTGTAAACTTTTTTTCAGAAGTCTTA
 481 TTTTATACTTGTGAAACTGAACACAATTTTGGGACAACGTTTAAACATTACTTTTCATACTTGAAATAAACATTTATTTT
 561 TTAAAAAACTAAAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' uggGAGACUUUCCUU-CGu 5'
             :|:| ||||||| || 
Target 5' ttaTTTTAAAAGGAATGCt 3'
 252 - 270 127.00 -8.70
2 
miRNA  3' ugGGAGACUUUCCUUCgu 5'
            | |||  :|||:||  
Target 5' ccCATCT-TGAGGGAGga 3'
 295 - 311 111.00 -15.30
3 
miRNA  3' ugGGAGACUU----UCCUUCGu 5'
            |:|  |||    :|| ||| 
Target 5' ggCTTGAGAACTTTGGGTAGCc 3'
 155 - 176 98.00 -6.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30511422 8 COSMIC
COSN30511420 9 COSMIC
COSN19462192 31 COSMIC
COSN30453398 44 COSMIC
COSN20077742 52 COSMIC
COSN30155073 55 COSMIC
COSN31581171 63 COSMIC
COSN30446987 65 COSMIC
COSN30148604 88 COSMIC
COSN30152275 96 COSMIC
COSN31525488 99 COSMIC
COSN31586002 101 COSMIC
COSN8586000 124 COSMIC
COSN28637255 170 COSMIC
COSN22536184 189 COSMIC
COSN31566841 301 COSMIC
COSN29869481 448 COSMIC
COSN31486611 544 COSMIC
COSN30372258 561 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1244471639 1 dbSNP
rs140283743 2 dbSNP
rs761558428 2 dbSNP
rs769633524 3 dbSNP
rs771759935 4 dbSNP
rs1057085580 5 dbSNP
rs915794016 6 dbSNP
rs369511087 17 dbSNP
rs1388735950 19 dbSNP
rs772819540 21 dbSNP
rs1214383707 33 dbSNP
rs760279522 36 dbSNP
rs1201953055 39 dbSNP
rs771305776 40 dbSNP
rs1262788038 42 dbSNP
rs1184206376 44 dbSNP
rs776800275 47 dbSNP
rs1465553653 49 dbSNP
rs1469897400 52 dbSNP
rs184472712 57 dbSNP
rs11539999 60 dbSNP
rs948440131 61 dbSNP
rs1410938562 62 dbSNP
rs1176610361 65 dbSNP
rs574353842 66 dbSNP
rs1038271779 76 dbSNP
rs552563704 77 dbSNP
rs1464927060 86 dbSNP
rs1249355630 89 dbSNP
rs1207323884 90 dbSNP
rs1464893413 92 dbSNP
rs117220556 93 dbSNP
rs190222249 94 dbSNP
rs146822999 104 dbSNP
rs750910356 113 dbSNP
rs114323263 116 dbSNP
rs562183763 122 dbSNP
rs943946302 123 dbSNP
rs1318690280 125 dbSNP
rs1039603617 136 dbSNP
rs529792454 149 dbSNP
rs1459665882 154 dbSNP
rs549929126 160 dbSNP
rs899746214 169 dbSNP
rs541410860 172 dbSNP
rs998743266 176 dbSNP
rs563258674 178 dbSNP
rs1467349557 185 dbSNP
rs79108287 188 dbSNP
rs1021865622 189 dbSNP
rs1174840475 191 dbSNP
rs1449715882 194 dbSNP
rs1400976670 197 dbSNP
rs375774394 204 dbSNP
rs998987219 205 dbSNP
rs553660884 225 dbSNP
rs1202736670 226 dbSNP
rs1482442556 230 dbSNP
rs139268880 234 dbSNP
rs1206119686 244 dbSNP
rs758923720 245 dbSNP
rs1344668189 247 dbSNP
rs1295458289 255 dbSNP
rs959665687 256 dbSNP
rs991703439 260 dbSNP
rs1022680670 264 dbSNP
rs1228202883 267 dbSNP
rs1311428484 268 dbSNP
rs1313300369 270 dbSNP
rs747326881 274 dbSNP
rs77653313 281 dbSNP
rs973624841 287 dbSNP
rs1312115495 297 dbSNP
rs966794374 300 dbSNP
rs978208496 301 dbSNP
rs1283427136 304 dbSNP
rs1487879924 307 dbSNP
rs769119076 310 dbSNP
rs1190149977 313 dbSNP
rs542069976 314 dbSNP
rs181364628 315 dbSNP
rs993055421 334 dbSNP
rs752285759 345 dbSNP
rs911901155 348 dbSNP
rs1204749541 350 dbSNP
rs1431478138 351 dbSNP
rs943391649 359 dbSNP
rs948620564 360 dbSNP
rs1039048411 375 dbSNP
rs563660359 377 dbSNP
rs899777644 389 dbSNP
rs1338667485 390 dbSNP
rs947274834 398 dbSNP
rs1042913432 410 dbSNP
rs902987734 416 dbSNP
rs1295 419 dbSNP
rs1446457655 421 dbSNP
rs1157147502 431 dbSNP
rs746970857 433 dbSNP
rs1164560859 436 dbSNP
rs1035362259 437 dbSNP
rs895566343 447 dbSNP
rs1417838276 454 dbSNP
rs1012568442 457 dbSNP
rs1181663674 463 dbSNP
rs1250076895 463 dbSNP
rs1473754001 463 dbSNP
rs900918024 466 dbSNP
rs1269557365 474 dbSNP
rs1208185765 479 dbSNP
rs934189358 486 dbSNP
rs1050327668 490 dbSNP
rs1228932359 492 dbSNP
rs1420738503 498 dbSNP
rs1330875791 499 dbSNP
rs1023039036 506 dbSNP
rs1300412835 507 dbSNP
rs890048016 514 dbSNP
rs1324932062 515 dbSNP
rs1384519167 516 dbSNP
rs780321126 517 dbSNP
rs537135102 519 dbSNP
rs902552656 520 dbSNP
rs1410199616 527 dbSNP
rs564923172 528 dbSNP
rs1478464748 529 dbSNP
rs777586179 539 dbSNP
rs1379536927 540 dbSNP
rs1197058812 557 dbSNP
rs1451038233 563 dbSNP
rs1035131023 564 dbSNP
rs1026492865 569 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 55196.0
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 GSM1065667. RNA binding protein: AGO1. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
CLIP-seq Support 1 for dataset GSM1065667
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_6
Location of target site ENST00000312561.4 | 3UTR | AGCUGGGCACAGUGGCUCACGCCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
85 hsa-miR-516b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT077049 SMARCE1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 2 2
MIRT155261 IFNAR2 interferon alpha and beta receptor subunit 2 2 4
MIRT446119 ASTN1 astrotactin 1 2 2
MIRT447355 STOM stomatin 2 2
MIRT469329 RGP1 RGP1 homolog, RAB6A GEF complex partner 1 2 2
MIRT470201 PSAT1 phosphoserine aminotransferase 1 2 6
MIRT475944 GXYLT1 glucoside xylosyltransferase 1 2 4
MIRT498268 KIAA1644 KIAA1644 2 2
MIRT501725 OVOL1 ovo like transcriptional repressor 1 2 2
MIRT522860 KIAA1551 KIAA1551 2 2
MIRT527900 B3GALT5 beta-1,3-galactosyltransferase 5 2 4
MIRT528557 DNAAF3 dynein axonemal assembly factor 3 2 2
MIRT531250 PDF peptide deformylase, mitochondrial 2 2
MIRT534410 SENP1 SUMO1/sentrin specific peptidase 1 2 2
MIRT544656 MED19 mediator complex subunit 19 2 2
MIRT550681 YARS tyrosyl-tRNA synthetase 2 2
MIRT557208 HNRNPF heterogeneous nuclear ribonucleoprotein F 2 4
MIRT611532 DDB1 damage specific DNA binding protein 1 2 2
MIRT612087 TIMM10 translocase of inner mitochondrial membrane 10 2 2
MIRT616535 PARD6B par-6 family cell polarity regulator beta 2 4
MIRT616738 DCTN5 dynactin subunit 5 2 2
MIRT616754 SVOP SV2 related protein 2 4
MIRT617380 FAM227A family with sequence similarity 227 member A 2 2
MIRT617624 RAB3IP RAB3A interacting protein 2 2
MIRT620778 MT1A metallothionein 1A 2 2
MIRT623172 NAA50 N(alpha)-acetyltransferase 50, NatE catalytic subunit 2 2
MIRT626034 AREL1 apoptosis resistant E3 ubiquitin protein ligase 1 2 2
MIRT627376 PRICKLE4 prickle planar cell polarity protein 4 2 2
MIRT630533 AGO3 argonaute 3, RISC catalytic component 2 2
MIRT631686 NQO2 N-ribosyldihydronicotinamide:quinone reductase 2 2 2
MIRT633896 FGF10 fibroblast growth factor 10 2 2
MIRT635933 PLA2G12A phospholipase A2 group XIIA 2 2
MIRT636275 RFFL ring finger and FYVE like domain containing E3 ubiquitin protein ligase 2 2
MIRT636285 RAD51L3-RFFL RAD51L3-RFFL readthrough 2 2
MIRT636502 GDAP1L1 ganglioside induced differentiation associated protein 1 like 1 2 2
MIRT638037 SHPK sedoheptulokinase 2 2
MIRT639162 LAMTOR3 late endosomal/lysosomal adaptor, MAPK and MTOR activator 3 2 2
MIRT639571 GORASP1 golgi reassembly stacking protein 1 2 2
MIRT641248 CENPN centromere protein N 2 2
MIRT643650 MYOCD myocardin 2 2
MIRT645490 TRIM63 tripartite motif containing 63 2 2
MIRT648016 SLCO4C1 solute carrier organic anion transporter family member 4C1 2 2
MIRT648102 LRRFIP1 LRR binding FLII interacting protein 1 2 2
MIRT648729 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT650177 LILRA2 leukocyte immunoglobulin like receptor A2 2 2
MIRT652787 TCEANC2 transcription elongation factor A N-terminal and central domain containing 2 2 2
MIRT653248 SORD sorbitol dehydrogenase 2 2
MIRT654859 PPM1F protein phosphatase, Mg2+/Mn2+ dependent 1F 2 2
MIRT655533 PAG1 phosphoprotein membrane anchor with glycosphingolipid microdomains 1 2 2
MIRT656390 MCU mitochondrial calcium uniporter 2 2
MIRT656881 KIF1C kinesin family member 1C 2 2
MIRT657083 JMY junction mediating and regulatory protein, p53 cofactor 2 2
MIRT657629 GPX8 glutathione peroxidase 8 (putative) 2 2
MIRT658295 FAM83F family with sequence similarity 83 member F 2 2
MIRT659432 COL1A1 collagen type I alpha 1 chain 2 2
MIRT659791 CBLB Cbl proto-oncogene B 2 2
MIRT660153 BRCC3 BRCA1/BRCA2-containing complex subunit 3 2 2
MIRT660490 ARRDC3 arrestin domain containing 3 2 2
MIRT660503 ARPC2 actin related protein 2/3 complex subunit 2 2 2
MIRT666356 SIKE1 suppressor of IKBKE 1 2 2
MIRT677774 FKTN fukutin 2 2
MIRT688556 DCAF16 DDB1 and CUL4 associated factor 16 2 2
MIRT697415 ZFP91 ZFP91 zinc finger protein 2 2
MIRT709468 KRTAP19-1 keratin associated protein 19-1 2 2
MIRT711154 WDR82P1 WD repeat domain 82 pseudogene 1 2 2
MIRT711467 SRD5A1 steroid 5 alpha-reductase 1 2 2
MIRT712515 ENPP5 ectonucleotide pyrophosphatase/phosphodiesterase 5 (putative) 2 2
MIRT712661 PCTP phosphatidylcholine transfer protein 2 2
MIRT713304 TYRP1 tyrosinase related protein 1 2 2
MIRT714597 HSPA4L heat shock protein family A (Hsp70) member 4 like 2 2
MIRT716603 MPPED1 metallophosphoesterase domain containing 1 2 2
MIRT717537 PYGO2 pygopus family PHD finger 2 2 2
MIRT718058 CYP3A5 cytochrome P450 family 3 subfamily A member 5 2 2
MIRT718539 PIGQ phosphatidylinositol glycan anchor biosynthesis class Q 2 2
MIRT719768 ZNF236 zinc finger protein 236 2 2
MIRT720162 PNPO pyridoxamine 5'-phosphate oxidase 2 2
MIRT720360 ZBTB8B zinc finger and BTB domain containing 8B 2 2
MIRT721182 HOPX HOP homeobox 2 2
MIRT721278 RAD54L2 RAD54 like 2 2 2
MIRT721357 ENTHD1 ENTH domain containing 1 2 2
MIRT721504 CARHSP1 calcium regulated heat stable protein 1 2 2
MIRT721918 LINGO2 leucine rich repeat and Ig domain containing 2 2 2
MIRT722278 LURAP1 leucine rich adaptor protein 1 2 2
MIRT722789 FUT4 fucosyltransferase 4 2 2
MIRT724390 ABAT 4-aminobutyrate aminotransferase 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-516b Glucose NULL 5793 Quantitative real-time PCR endothelial cells 24394957 2014 down-regulated
miR-516b Bromocriptine approved 31101 Microarray Prolactinoma 22366961 2012 up-regulated
miR-516b Bromocriptine approved 31101 Quantitative real-time PCR Prolactinoma 22366961 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-516b-3p Paclitaxel 36314 NSC125973 approved sensitive High Pan-Cancer cell line (NCI-H460, NCI-H522, NCI-H322M, HOP62, A549, EKVX, MALME-3M, NCI-H226, HT-29, HCT-116, SE-620, HCT-15, HCC2998, COLO205, HS-578T, NCI/ADR-RES, OVCAR8, OVCAR4, ACHN, SN-12C, 786-O, CAKI-1, UO-31, TK-10, A498, SK-MEL-28, UACC-257, M14, UACC-62, SK
hsa-miR-516b-3p Ribavirin+Pegylated IFNa-2b sensitive tissue (chronic hepatitis C)
hsa-miR-516b-3p Testosterone+Exemestane sensitive cell line (MCF-7)
hsa-miR-516b-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (MGC-803)
hsa-miR-516b-3p Docetaxel+Cisplatin+5-Fluorouracil sensitive tissue (hypopharyngeal squamous cell carcinoma)

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