miRTarBase - #MIRT208901


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pre-miRNA Information
pre-miRNA hsa-mir-4776-1   
Genomic Coordinates chr2: 212926257 - 212926336
Description Homo sapiens miR-4776-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4776-2   
Genomic Coordinates chr2: 212926257 - 212926336
Description Homo sapiens miR-4776-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4776-3p
Sequence 54| CUUGCCAUCCUGGUCCACUGCAU |76
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1350638372 1 dbSNP
rs1220781023 5 dbSNP
rs1269946481 7 dbSNP
rs547466728 10 dbSNP
rs965980067 11 dbSNP
rs953060487 13 dbSNP
rs982906747 14 dbSNP
rs1028686150 21 dbSNP
rs951447113 23 dbSNP
Putative Targets

Gene Information
Gene Symbol PDCD10   
Synonyms CCM3, TFAR15
Description programmed cell death 10
Transcript NM_145859   
Other Transcripts NM_007217 , NM_145860   
Expression
Putative miRNA Targets on PDCD10
3'UTR of PDCD10
(miRNA target sites are highlighted)		 
>PDCD10|NM_145859|3'UTR
   1 AAGTTGTATATGTTAAGAGATGTACTTCTCAGTGGCAGTATTGAACTGCCTTTATCTGTAAATTTTAAAGTTTGACTGTA
  81 TAAATTATCAGTCCCTCCTGAAGGGATCTAATCCAGGATGTTGAATGGGATTATTGCCATCTTACACCATATTTTTGTAA
 161 AATGTAGCTTAATCATAATCTCACACTGAAGATTTTGCATCACTTTTGCTATTATCATTCTTTTAAGAATTATAAGCCAA
 241 AAGAATTTACGCCTTAATGTGTCATTATATAACATTCCTTAAAAGAATTGTAAATATTGGTGTTTGTTTCTGACATTTTA
 321 ACTTGAAAGCGATATGCTGCAAGATAATGTATTTAACAATATTTGGTGGCAAATATTCAATAAATAGTTTACATCTGTTA
 401 AAAAAAAAAAAAAAAAAAAAAAAAAAA
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' uaCGUCACCUGGU----CCUACCGUUc 5'
            |:| |  || |     |:|||||| 
Target 5' atGTATTTAACAATATTTGGTGGCAAa 3'
 347 - 373 131.00 -8.80
2 
miRNA  3' uacgUC-ACCUG--GUCCUACCGUUc 5'
              || || ||  |   :|||||: 
Target 5' taagAGATGTACTTCTCAGTGGCAGt 3'
 14 - 39 113.00 -10.70
3 
miRNA  3' uaCGUCACCU------GGUCCUACCGUUc 5'
            | || |||      |||||||| ::| 
Target 5' ctGAAG-GGATCTAATCCAGGATGTTGAa 3'
 98 - 125 102.00 -13.83
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
344107 63 ClinVar
344106 87 ClinVar
899884 139 ClinVar
344105 141 ClinVar
344104 174 ClinVar
899883 199 ClinVar
344103 221 ClinVar
344102 285 ClinVar
344101 339 ClinVar
COSN14045476 32 COSMIC
COSN30107457 41 COSMIC
COSN15790204 44 COSMIC
COSN31515854 83 COSMIC
COSN30190669 98 COSMIC
COSN31504238 136 COSMIC
COSN26633507 164 COSMIC
COSN31503590 164 COSMIC
COSN31602167 191 COSMIC
COSN5000360 201 COSMIC
COSN1271510 208 COSMIC
COSN9763224 282 COSMIC
COSN9763223 288 COSMIC
COSN31557126 370 COSMIC
COSN18723768 436 COSMIC
COSN16844118 440 COSMIC
COSN27326955 440 COSMIC
COSN7834131 442 COSMIC
COSN22363588 499 COSMIC
COSN1929148 605 COSMIC
COSN29744394 724 COSMIC
COSN6742341 772 COSMIC
COSN25541845 853 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1269666674 3 dbSNP
rs746910164 10 dbSNP
rs1337759124 15 dbSNP
rs1266537160 20 dbSNP
rs752597706 23 dbSNP
rs1353981084 25 dbSNP
rs781239146 28 dbSNP
rs754697953 32 dbSNP
rs907032022 37 dbSNP
rs371757983 39 dbSNP
rs765428082 41 dbSNP
rs762033233 42 dbSNP
rs1219954091 43 dbSNP
rs753845704 44 dbSNP
rs764105595 47 dbSNP
rs371594832 49 dbSNP
rs1361555436 50 dbSNP
rs886058162 63 dbSNP
rs919807392 76 dbSNP
rs1238756442 82 dbSNP
rs1476071929 87 dbSNP
rs886058161 87 dbSNP
rs1168872321 91 dbSNP
rs1384169808 95 dbSNP
rs1354036545 116 dbSNP
rs1310984777 117 dbSNP
rs1038017069 119 dbSNP
rs778262429 133 dbSNP
rs1303948728 134 dbSNP
rs758404072 139 dbSNP
rs886058160 141 dbSNP
rs1318178229 145 dbSNP
rs911001896 148 dbSNP
rs915125501 149 dbSNP
rs1297701879 150 dbSNP
rs186883111 163 dbSNP
rs552326125 164 dbSNP
rs1399005758 166 dbSNP
rs943251933 168 dbSNP
rs886058159 174 dbSNP
rs183589284 199 dbSNP
rs1412724042 201 dbSNP
rs1356718558 206 dbSNP
rs1204484685 208 dbSNP
rs560288291 213 dbSNP
rs886058158 221 dbSNP
rs1182411278 233 dbSNP
rs1465879070 244 dbSNP
rs924137550 250 dbSNP
rs1484220282 251 dbSNP
rs1442387650 259 dbSNP
rs1185938451 261 dbSNP
rs1457829501 262 dbSNP
rs986928718 266 dbSNP
rs978633046 267 dbSNP
rs1458669665 271 dbSNP
rs1158524020 283 dbSNP
rs190941416 285 dbSNP
rs565136434 302 dbSNP
rs551514422 306 dbSNP
rs1382384802 315 dbSNP
rs1450744241 323 dbSNP
rs529823892 326 dbSNP
rs1287724835 329 dbSNP
rs1242089355 330 dbSNP
rs962960517 333 dbSNP
rs1237996833 334 dbSNP
rs528574350 339 dbSNP
rs1331094702 343 dbSNP
rs1035142499 345 dbSNP
rs1261951120 360 dbSNP
rs1459543622 376 dbSNP
rs751923172 378 dbSNP
rs1201822209 398 dbSNP
rs1230356774 412 dbSNP
rs1424775678 415 dbSNP
rs1012903317 418 dbSNP
rs1278107742 423 dbSNP
rs1400758675 425 dbSNP
rs1003632592 434 dbSNP
rs1464576114 436 dbSNP
rs199518977 436 dbSNP
rs886487656 436 dbSNP
rs1035577152 439 dbSNP
rs1311791090 440 dbSNP
rs1003312336 441 dbSNP
rs1046904652 442 dbSNP
rs201381379 442 dbSNP
rs1320838571 444 dbSNP
rs994382005 444 dbSNP
rs898433722 445 dbSNP
rs1256274264 446 dbSNP
rs1480106441 448 dbSNP
rs559554605 448 dbSNP
rs942405680 464 dbSNP
rs910887183 465 dbSNP
rs1050681042 468 dbSNP
rs1178288473 468 dbSNP
rs1183576860 468 dbSNP
rs1388046841 468 dbSNP
rs1429144822 468 dbSNP
rs1431560973 468 dbSNP
rs558406761 468 dbSNP
rs5854245 468 dbSNP
rs770382811 468 dbSNP
rs1457562103 469 dbSNP
rs1010487733 470 dbSNP
rs1350659046 476 dbSNP
rs1306359374 478 dbSNP
rs950158885 479 dbSNP
rs371099727 486 dbSNP
rs1165282919 491 dbSNP
rs540116323 494 dbSNP
rs1344787385 498 dbSNP
rs1206286440 500 dbSNP
rs923658118 502 dbSNP
rs1487788719 505 dbSNP
rs1425325443 506 dbSNP
rs878931964 507 dbSNP
rs978302820 508 dbSNP
rs562433347 513 dbSNP
rs1166979255 526 dbSNP
rs1392200049 535 dbSNP
rs1430217977 537 dbSNP
rs1162659600 538 dbSNP
rs186138351 539 dbSNP
rs1038957696 548 dbSNP
rs1293974922 549 dbSNP
rs943263486 549 dbSNP
rs1035025701 552 dbSNP
rs1365434162 553 dbSNP
rs1264647267 558 dbSNP
rs982491148 560 dbSNP
rs890314007 561 dbSNP
rs1052006972 566 dbSNP
rs1224433539 590 dbSNP
rs1265639031 592 dbSNP
rs1485596030 597 dbSNP
rs1224313086 603 dbSNP
rs934100885 606 dbSNP
rs950846943 611 dbSNP
rs1183165647 623 dbSNP
rs1411368421 635 dbSNP
rs767487003 646 dbSNP
rs1344512941 654 dbSNP
rs1455225106 660 dbSNP
rs576656107 662 dbSNP
rs972812106 666 dbSNP
rs1388995754 667 dbSNP
rs994042251 668 dbSNP
rs1281996183 673 dbSNP
rs1377472216 707 dbSNP
rs941375108 709 dbSNP
rs1314124181 721 dbSNP
rs1316808769 722 dbSNP
rs369348040 742 dbSNP
rs1206975503 751 dbSNP
rs1270112394 752 dbSNP
rs1465353128 753 dbSNP
rs991108460 760 dbSNP
rs1257980538 765 dbSNP
rs77898839 771 dbSNP
rs1006766503 772 dbSNP
rs1299339167 777 dbSNP
rs180842463 780 dbSNP
rs1035207755 786 dbSNP
rs889667605 793 dbSNP
rs1407255517 807 dbSNP
rs542007640 808 dbSNP
rs201923093 810 dbSNP
rs1459253392 811 dbSNP
rs982654687 819 dbSNP
rs933628943 829 dbSNP
rs1468796319 842 dbSNP
rs761830509 845 dbSNP
rs1360510387 846 dbSNP
rs1397779458 849 dbSNP
rs902284227 850 dbSNP
rs1020698858 851 dbSNP
rs546367247 852 dbSNP
rs893498058 853 dbSNP
rs188320655 854 dbSNP
rs553945538 857 dbSNP
rs938256408 868 dbSNP
rs751487191 870 dbSNP
rs928175810 871 dbSNP
rs1232104703 872 dbSNP
rs1481911482 876 dbSNP
rs74900552 884 dbSNP
rs1412558928 886 dbSNP
rs1479850405 887 dbSNP
rs1170259210 891 dbSNP
rs950761151 892 dbSNP
rs1456724092 893 dbSNP
rs1414665643 895 dbSNP
rs1026430692 896 dbSNP
rs1370370470 899 dbSNP
rs1257765252 900 dbSNP
rs973895845 901 dbSNP
rs963393387 908 dbSNP
rs1199634171 919 dbSNP
rs1351608874 920 dbSNP
rs1016733246 921 dbSNP
rs1320686909 927 dbSNP
rs762502805 928 dbSNP
rs1254756693 930 dbSNP
rs929171986 931 dbSNP
rs1232717116 942 dbSNP
rs1339831298 945 dbSNP
rs897652789 946 dbSNP
rs1037145367 947 dbSNP
rs1303696707 955 dbSNP
rs1252497770 961 dbSNP
rs1444776718 962 dbSNP
rs186080861 965 dbSNP
rs775113953 966 dbSNP
rs909899930 967 dbSNP
rs1478048491 974 dbSNP
rs764765617 975 dbSNP
rs1447215364 982 dbSNP
rs1402446633 983 dbSNP
rs759295554 990 dbSNP
rs1170875922 996 dbSNP
rs1371777494 1001 dbSNP
rs1405306627 1003 dbSNP
rs1042016474 1005 dbSNP
rs946456319 1005 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 11235.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000392750.2 | 3UTR | AUUUAACAAUAUUUGGUGGCAAAUAUUCAAUAAAUAGUUUACAUCUGUUAAACAUUUCUUUACUUGAAAAAAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
104 hsa-miR-4776-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT107576 VLDLR very low density lipoprotein receptor 2 2
MIRT183601 SNRPE small nuclear ribonucleoprotein polypeptide E 2 4
MIRT208901 PDCD10 programmed cell death 10 2 2
MIRT441496 IFFO2 intermediate filament family orphan 2 2 2
MIRT441590 PSTK phosphoseryl-tRNA kinase 2 2
MIRT441865 RNASEL ribonuclease L 2 2
MIRT442155 DPY19L1 dpy-19 like C-mannosyltransferase 1 2 2
MIRT442235 DDX19A DEAD-box helicase 19A 2 2
MIRT442519 MOB3B MOB kinase activator 3B 2 2
MIRT443347 STX7 syntaxin 7 2 2
MIRT443598 ZNF91 zinc finger protein 91 2 2
MIRT443725 USP14 ubiquitin specific peptidase 14 2 2
MIRT453650 RAB6C RAB6C, member RAS oncogene family 2 2
MIRT464155 VMP1 vacuole membrane protein 1 2 11
MIRT472507 NACC1 nucleus accumbens associated 1 2 4
MIRT476018 GTF2A1 general transcription factor IIA subunit 1 2 2
MIRT477716 EEF1A1 eukaryotic translation elongation factor 1 alpha 1 2 2
MIRT478545 CTNND1 catenin delta 1 2 2
MIRT481629 ARF1 ADP ribosylation factor 1 2 2
MIRT486451 MDM2 MDM2 proto-oncogene 2 2
MIRT494856 ZNF99 zinc finger protein 99 2 4
MIRT495096 FXR1 FMR1 autosomal homolog 1 2 2
MIRT495766 ZNF546 zinc finger protein 546 2 2
MIRT496650 PITPNM3 PITPNM family member 3 2 2
MIRT496920 CLMN calmin 2 2
MIRT496997 SNAP25 synaptosome associated protein 25 2 2
MIRT497056 C6orf223 chromosome 6 open reading frame 223 2 2
MIRT498391 KIF6 kinesin family member 6 2 2
MIRT499057 CTBP1 C-terminal binding protein 1 2 4
MIRT499093 DENND4C DENN domain containing 4C 2 8
MIRT499860 SVOP SV2 related protein 2 12
MIRT501968 MAPK6 mitogen-activated protein kinase 6 2 2
MIRT504910 CD38 CD38 molecule 2 4
MIRT506781 KLHL15 kelch like family member 15 2 6
MIRT509549 ACTG1 actin gamma 1 2 4
MIRT510814 SBNO1 strawberry notch homolog 1 2 4
MIRT515490 NTRK3 neurotrophic receptor tyrosine kinase 3 2 4
MIRT517752 ZNF366 zinc finger protein 366 2 4
MIRT518553 GDPD1 glycerophosphodiester phosphodiesterase domain containing 1 2 2
MIRT518633 NOM1 nucleolar protein with MIF4G domain 1 2 2
MIRT518721 ABCG8 ATP binding cassette subfamily G member 8 2 2
MIRT524469 CHRM3 cholinergic receptor muscarinic 3 2 4
MIRT525213 ZNF253 zinc finger protein 253 2 2
MIRT527556 ADCY7 adenylate cyclase 7 2 2
MIRT532691 TCN2 transcobalamin 2 2 4
MIRT533124 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 2
MIRT534080 SPRY4 sprouty RTK signaling antagonist 4 2 2
MIRT534437 SDR16C5 short chain dehydrogenase/reductase family 16C member 5 2 2
MIRT534997 PRPF40A pre-mRNA processing factor 40 homolog A 2 4
MIRT537160 GGCX gamma-glutamyl carboxylase 2 2
MIRT539359 AFF4 AF4/FMR2 family member 4 2 2
MIRT547019 PPP1CB protein phosphatase 1 catalytic subunit beta 2 2
MIRT550122 ZNF138 zinc finger protein 138 2 2
MIRT558471 DBN1 drebrin 1 2 2
MIRT563055 ZNF28 zinc finger protein 28 2 2
MIRT563550 SCP2 sterol carrier protein 2 2 2
MIRT566860 LRRC58 leucine rich repeat containing 58 2 2
MIRT567239 HSPA13 heat shock protein family A (Hsp70) member 13 2 2
MIRT572846 BRPF3 bromodomain and PHD finger containing 3 2 2
MIRT573355 PDE3A phosphodiesterase 3A 2 2
MIRT573761 PRKAG1 protein kinase AMP-activated non-catalytic subunit gamma 1 2 2
MIRT574911 Vmp1 vacuole membrane protein 1 2 7
MIRT610172 SEC14L4 SEC14 like lipid binding 4 2 2
MIRT611271 RBMXL1 RNA binding motif protein, X-linked like 1 2 2
MIRT612325 TRPS1 transcriptional repressor GATA binding 1 2 2
MIRT612720 NOL4 nucleolar protein 4 2 2
MIRT613093 ETS1 ETS proto-oncogene 1, transcription factor 2 2
MIRT613759 RDH11 retinol dehydrogenase 11 (all-trans/9-cis/11-cis) 2 2
MIRT614788 RRAGC Ras related GTP binding C 2 2
MIRT614926 MARCH3 membrane associated ring-CH-type finger 3 2 2
MIRT616777 CD44 CD44 molecule (Indian blood group) 2 2
MIRT616892 DUSP1 dual specificity phosphatase 1 2 2
MIRT618446 SERPINA3 serpin family A member 3 2 2
MIRT619155 PPDPF pancreatic progenitor cell differentiation and proliferation factor 2 2
MIRT619271 CEP57L1 centrosomal protein 57 like 1 2 2
MIRT620899 MUT methylmalonyl-CoA mutase 2 2
MIRT621151 MICALCL MICAL C-terminal like 2 2
MIRT622138 SOX4 SRY-box 4 2 2
MIRT622925 PAK7 p21 (RAC1) activated kinase 5 2 2
MIRT623595 IPO9 importin 9 2 2
MIRT623916 FNBP1L formin binding protein 1 like 2 2
MIRT624072 EBF1 early B-cell factor 1 2 2
MIRT630961 NGDN neuroguidin 2 2
MIRT636738 ADD3 adducin 3 2 2
MIRT639788 MVK mevalonate kinase 2 2
MIRT641106 ZNF274 zinc finger protein 274 2 2
MIRT641573 RFX1 regulatory factor X1 2 2
MIRT643089 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT646457 PRDM10 PR/SET domain 10 2 2
MIRT653068 ST8SIA4 ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4 2 2
MIRT657672 GPR26 G protein-coupled receptor 26 2 2
MIRT660287 BICC1 BicC family RNA binding protein 1 2 2
MIRT660354 BAG4 BCL2 associated athanogene 4 2 2
MIRT665823 TIMM8B translocase of inner mitochondrial membrane 8 homolog B 2 2
MIRT678564 ZNF786 zinc finger protein 786 2 2
MIRT691520 ZNF208 zinc finger protein 208 2 2
MIRT695586 TMEM199 transmembrane protein 199 2 2
MIRT698033 TRPM7 transient receptor potential cation channel subfamily M member 7 2 2
MIRT701012 PCGF5 polycomb group ring finger 5 2 2
MIRT701353 NR4A3 nuclear receptor subfamily 4 group A member 3 2 2
MIRT704846 CD55 CD55 molecule (Cromer blood group) 2 2
MIRT707112 NWD1 NACHT and WD repeat domain containing 1 2 2
MIRT718656 HNF4A hepatocyte nuclear factor 4 alpha 2 2
MIRT720561 C1RL complement C1r subcomponent like 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4776-3p Paclitaxel 36314 NSC125973 approved resistant High Breast Cancer cell line (Bads-200, Bats-72, BCap37)
hsa-miR-4776-3p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780CIS)
hsa-miR-4776-3p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780CP20)
hsa-miR-4776-3p Cisplatin 5460033 NSC119875 approved resistant cell line (CP20)
hsa-miR-4776-3p Cisplatin 5460033 NSC119875 approved resistant cell line (CIS)
hsa-miR-4776-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)

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