miRTarBase - #MIRT530496


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pre-miRNA Information
pre-miRNA hsa-mir-4656   
Genomic Coordinates chr7: 4788565 - 4788639
Description Homo sapiens miR-4656 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4656
Sequence 10| UGGGCUGAGGGCAGGAGGCCUGU |32
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1257485407 2 dbSNP
rs71535143 5 dbSNP
rs933178228 7 dbSNP
rs895666746 9 dbSNP
rs1053330554 11 dbSNP
rs1327822621 13 dbSNP
rs934599733 16 dbSNP
rs1260841927 19 dbSNP
rs1371177672 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol FADS6   
Synonyms FP18279
Description fatty acid desaturase 6
Transcript NM_178128   
Expression
Putative miRNA Targets on FADS6
3'UTR of FADS6
(miRNA target sites are highlighted)		 
>FADS6|NM_178128|3'UTR
   1 TGAGGCCGGGCCGGTGCAGCCACCCTGCCCCTCCCTGGCCTGGCCCTGGCCCTCCTGCTGCTGCTGGTCCAGGGGGTGTG
  81 GCTCAGTGGCTGGTGGTGGACCTGGAGAGTGGAGGCACCGGCCAGGCAGGGGGGCAGGGGAGCTCAGGCCTGGGGTCTGG
 161 GGGCCACCTGCCTTGCGTGCTTTTCTGGGTTTTGAGGGGTGTCTGGGTGAAGCGGTAATGGTGGCTGTGCATTCTGGTCA
 241 GTCTGGACCTCAGCAACTTCATCTCAGGACTAAAGAGCTGGGTCCTTCCCCCTGCTCCATCTGAGCCTTGGTAGGGTTAA
 321 AGGGAGGTGACAGGGTGAAGAGGGATCCTGTGCAGGGGCCACCTGGGAGATAGCAGGGGGCACAGAGAGAACAGGGTCAG
 401 CTCCCTCGGCTGGGACCTCCCTGGCATTGGGAGAGCCCCACACGGCCTTGGCTATTGCTTCCTTCAGGCTCTGCCCACCA
 481 AGGTGCCCTCTCCCCGGGGACCTTAGGGTGAGCTTGCTTTTGGCAGGCCTTCCTCGATCCTCAGCCAAAGGAACCTGTGC
 561 AAGACACTGGCTCAGCAGTTCCCCAGGCCACAGTATCAGCAAGATAAAAGTGAGTGTGTTTTGTCGGGAGGGAACTCCAG
 641 GGGAAGTGAGGGGAGAAGGTTCCCCAGGGACAGAGTTAGGGAAAGAGTATAAATAGCCAGCCAGGGGCGGTGGCTCATGC
 721 CTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGGATCGCGAGATCAGGAGCTCGAGACCACCCTGGCCAACATGGTG
 801 AAACCCCGTCTCTACTAAAAATACAAAAAATTAGCTGGATGTGGTGGCATACACTTGTAGTCCCAGCTACTTGGCAGGCT
 881 GAGGCAGAAGAATCACCTGAACCCGGGAGGTGGAGGTTGCAGTGAGCCAAGATTGCACCATTGCATTCCAGCCTGGGTGA
 961 CAGAGCGAGACTCCATCTCAAAAAAATAAAAAAATAAAAAATAAGACTCCCGTTCAAAAAAAAAAAAAA
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' ugUCCGG-AGGA-C-GGGAGUCGGgu 5'
            ||||| |||| | :||||||||  
Target 5' gcAGGCCTTCCTCGATCCTCAGCCaa 3'
 523 - 548 157.00 -33.70
2 
miRNA  3' ugucCGGAGGACG--GGAGUCGGGu 5'
              ||:|||| |   ||| |||| 
Target 5' tattGCTTCCTTCAGGCTCTGCCCa 3'
 453 - 477 133.00 -22.40
3 
miRNA  3' uguCCGG--AGGACGGGAGUCGggu 5'
             ||:|  ||: | |||||||   
Target 5' tctGGTCAGTCTGGACCTCAGCaac 3'
 233 - 257 126.00 -23.22
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30148383 6 COSMIC
COSN30463884 34 COSMIC
COSN6549300 90 COSMIC
COSN18838189 344 COSMIC
COSN22504332 437 COSMIC
COSN17459240 755 COSMIC
COSN18972975 1008 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs537752819 7 dbSNP
rs746376376 8 dbSNP
rs1413705179 9 dbSNP
rs930222762 10 dbSNP
rs368141734 12 dbSNP
rs568829745 13 dbSNP
rs1435321624 18 dbSNP
rs1156637490 19 dbSNP
rs754032714 22 dbSNP
rs749922279 26 dbSNP
rs764352016 28 dbSNP
rs1242923806 33 dbSNP
rs1187195013 34 dbSNP
rs756354156 43 dbSNP
rs752735922 50 dbSNP
rs940962971 69 dbSNP
rs942818587 73 dbSNP
rs1274858561 75 dbSNP
rs1369305567 76 dbSNP
rs908104232 81 dbSNP
rs1285793253 86 dbSNP
rs769277234 87 dbSNP
rs954835202 89 dbSNP
rs1288343518 90 dbSNP
rs979064430 94 dbSNP
rs1188280358 98 dbSNP
rs548793678 108 dbSNP
rs1199687825 111 dbSNP
rs564236952 119 dbSNP
rs528941198 120 dbSNP
rs1178222419 129 dbSNP
rs969149551 130 dbSNP
rs1440058626 132 dbSNP
rs1160299540 133 dbSNP
rs1010212230 135 dbSNP
rs1021648557 135 dbSNP
rs956617492 135 dbSNP
rs1251362015 140 dbSNP
rs1032936436 142 dbSNP
rs560265764 143 dbSNP
rs1308050059 158 dbSNP
rs1378191455 162 dbSNP
rs1030885241 167 dbSNP
rs1242771360 169 dbSNP
rs1282726608 170 dbSNP
rs977368728 172 dbSNP
rs111985732 174 dbSNP
rs1273498199 176 dbSNP
rs149920976 177 dbSNP
rs1011979762 189 dbSNP
rs1459208409 194 dbSNP
rs898887410 196 dbSNP
rs1366454049 199 dbSNP
rs1472446626 200 dbSNP
rs1163740338 201 dbSNP
rs1037340247 205 dbSNP
rs690124 208 dbSNP
rs1400589770 209 dbSNP
rs565361888 214 dbSNP
rs1013914182 223 dbSNP
rs940325648 226 dbSNP
rs908135502 227 dbSNP
rs545638564 235 dbSNP
rs1286453024 246 dbSNP
rs1316210995 247 dbSNP
rs1034489005 248 dbSNP
rs1218100753 249 dbSNP
rs1258731784 256 dbSNP
rs745984433 266 dbSNP
rs1459280497 293 dbSNP
rs1198909039 294 dbSNP
rs531894594 296 dbSNP
rs1298785454 299 dbSNP
rs1441608475 306 dbSNP
rs1188235265 311 dbSNP
rs1259526085 314 dbSNP
rs562885826 329 dbSNP
rs1169365941 345 dbSNP
rs933521913 347 dbSNP
rs1170419058 349 dbSNP
rs1402010473 350 dbSNP
rs192532668 351 dbSNP
rs1315094689 356 dbSNP
rs922107253 358 dbSNP
rs888649341 359 dbSNP
rs1278956107 368 dbSNP
rs1397265532 378 dbSNP
rs1172218467 385 dbSNP
rs968844797 387 dbSNP
rs1255616570 388 dbSNP
rs914607709 389 dbSNP
rs690115 391 dbSNP
rs1192813225 392 dbSNP
rs988816253 392 dbSNP
rs930253741 395 dbSNP
rs1251910446 398 dbSNP
rs187915900 405 dbSNP
rs1041038657 407 dbSNP
rs757540632 408 dbSNP
rs540393012 410 dbSNP
rs911313397 425 dbSNP
rs1358984560 426 dbSNP
rs1419670280 426 dbSNP
rs1299322826 442 dbSNP
rs970989313 443 dbSNP
rs1385153723 444 dbSNP
rs1211157431 445 dbSNP
rs1023484413 450 dbSNP
rs1486479319 451 dbSNP
rs1236720393 457 dbSNP
rs1054246900 469 dbSNP
rs936762061 479 dbSNP
rs1232306716 488 dbSNP
rs925818393 495 dbSNP
rs370578781 496 dbSNP
rs1486767364 498 dbSNP
rs73997537 504 dbSNP
rs1266001382 507 dbSNP
rs185530190 508 dbSNP
rs1195084673 514 dbSNP
rs1307571137 523 dbSNP
rs1415605282 524 dbSNP
rs1159854681 527 dbSNP
rs1377543793 531 dbSNP
rs538083391 534 dbSNP
rs992510302 535 dbSNP
rs1004543294 536 dbSNP
rs572601348 540 dbSNP
rs958573861 542 dbSNP
rs1293047134 545 dbSNP
rs1034014151 556 dbSNP
rs1443444220 564 dbSNP
rs1005755436 566 dbSNP
rs1051991105 569 dbSNP
rs753617570 570 dbSNP
rs1239161044 573 dbSNP
rs933607085 575 dbSNP
rs772877821 576 dbSNP
rs1242471917 588 dbSNP
rs73997534 590 dbSNP
rs1161924324 592 dbSNP
rs1417928183 594 dbSNP
rs1410574043 602 dbSNP
rs1235974961 603 dbSNP
rs1381567644 604 dbSNP
rs1456992054 612 dbSNP
rs1188102307 614 dbSNP
rs1039213057 625 dbSNP
rs748612615 626 dbSNP
rs994268422 632 dbSNP
rs555726055 642 dbSNP
rs193179957 643 dbSNP
rs988888287 653 dbSNP
rs1329317014 654 dbSNP
rs200120760 659 dbSNP
rs1006899743 660 dbSNP
rs1213553240 662 dbSNP
rs1298568804 662 dbSNP
rs188305676 664 dbSNP
rs1287774078 675 dbSNP
rs1226587404 676 dbSNP
rs1311908876 676 dbSNP
rs73997533 678 dbSNP
rs981415410 690 dbSNP
rs970681221 695 dbSNP
rs1023938960 696 dbSNP
rs936774028 698 dbSNP
rs1204738126 703 dbSNP
rs1310860779 705 dbSNP
rs1395739264 707 dbSNP
rs1181854671 708 dbSNP
rs1257483179 718 dbSNP
rs990670127 732 dbSNP
rs1168647497 739 dbSNP
rs924007947 746 dbSNP
rs1041584811 751 dbSNP
rs945838108 752 dbSNP
rs917172171 754 dbSNP
rs992707630 755 dbSNP
rs1441542426 756 dbSNP
rs780766580 760 dbSNP
rs963540904 761 dbSNP
rs1015997688 762 dbSNP
rs1416494041 763 dbSNP
rs1275799227 769 dbSNP
rs1310383698 773 dbSNP
rs1214854685 776 dbSNP
rs1164963045 782 dbSNP
rs1475916897 783 dbSNP
rs1415138935 784 dbSNP
rs1004571230 785 dbSNP
rs1310004639 788 dbSNP
rs1428818036 793 dbSNP
rs140289164 795 dbSNP
rs1184602297 796 dbSNP
rs1192092301 799 dbSNP
rs1475777535 804 dbSNP
rs1464355947 806 dbSNP
rs983793419 807 dbSNP
rs530341942 808 dbSNP
rs1423331289 811 dbSNP
rs952584372 812 dbSNP
rs375917320 825 dbSNP
rs997559349 838 dbSNP
rs900758335 848 dbSNP
rs1025325793 849 dbSNP
rs994299439 850 dbSNP
rs1337042932 852 dbSNP
rs1436556962 853 dbSNP
rs1263824154 854 dbSNP
rs1359416982 858 dbSNP
rs1430823932 865 dbSNP
rs112441251 875 dbSNP
rs1019733798 904 dbSNP
rs1218234291 905 dbSNP
rs1298151167 912 dbSNP
rs1365358467 922 dbSNP
rs1433393940 933 dbSNP
rs1304683013 934 dbSNP
rs947616134 941 dbSNP
rs893294535 942 dbSNP
rs531834246 946 dbSNP
rs1053215569 951 dbSNP
rs1448015141 952 dbSNP
rs934748064 963 dbSNP
rs151208844 966 dbSNP
rs890025032 967 dbSNP
rs1194479395 971 dbSNP
rs1387946074 972 dbSNP
rs1395517862 972 dbSNP
rs1162191228 973 dbSNP
rs981473392 975 dbSNP
rs1359834061 978 dbSNP
rs1462159791 979 dbSNP
rs1005546986 987 dbSNP
rs796089390 987 dbSNP
rs1435377035 990 dbSNP
rs905887544 995 dbSNP
rs372508161 1002 dbSNP
rs950127035 1008 dbSNP
rs1448657542 1011 dbSNP
rs1253471741 1012 dbSNP
rs76510692 1015 dbSNP
rs1238442118 1016 dbSNP
rs867533919 1016 dbSNP
rs948690093 1016 dbSNP
rs867090785 1027 dbSNP
rs113393456 1030 dbSNP
rs1225937643 1030 dbSNP
rs1255125981 1030 dbSNP
rs201931533 1030 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 283985.0
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uguccGGAGGACGGGAGUCGGGu 5'
               || |:    :||||||| 
Target 5' ----aCCACUGAGAUUCAGCCCa 3'
 		1 - 19
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
CLIP-seq Support 1 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000310226.6 | 3UTR | ACCACUGAGAUUCAGCCCACAGUGGGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
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
48 hsa-miR-4656 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT135536 RAB5B RAB5B, member RAS oncogene family 2 2
MIRT168127 SOX4 SRY-box 4 2 2
MIRT301229 SH3BP4 SH3 domain binding protein 4 2 2
MIRT444362 TIMM8B translocase of inner mitochondrial membrane 8 homolog B 2 2
MIRT445909 SLC10A3 solute carrier family 10 member 3 2 2
MIRT447283 LAPTM5 lysosomal protein transmembrane 5 2 2
MIRT453797 KBTBD12 kelch repeat and BTB domain containing 12 2 2
MIRT456777 MTHFSD methenyltetrahydrofolate synthetase domain containing 2 2
MIRT459647 PCSK9 proprotein convertase subtilisin/kexin type 9 2 2
MIRT462333 BCL7B BCL tumor suppressor 7B 2 2
MIRT463535 ZBTB7A zinc finger and BTB domain containing 7A 2 2
MIRT465799 TMEM91 transmembrane protein 91 2 2
MIRT470647 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT470837 PLXND1 plexin D1 2 2
MIRT471129 PHF19 PHD finger protein 19 2 2
MIRT483310 SLC35C2 solute carrier family 35 member C2 2 2
MIRT487264 CCNF cyclin F 2 2
MIRT491731 SEMA3F semaphorin 3F 2 2
MIRT497195 DRP2 dystrophin related protein 2 2 2
MIRT508384 SPTBN2 spectrin beta, non-erythrocytic 2 2 4
MIRT530496 FADS6 fatty acid desaturase 6 2 2
MIRT546995 PPP2CA protein phosphatase 2 catalytic subunit alpha 2 2
MIRT549790 KIAA0391 KIAA0391 2 2
MIRT560368 TAF8 TATA-box binding protein associated factor 8 2 2
MIRT566000 RNF4 ring finger protein 4 2 2
MIRT574035 PEX26 peroxisomal biogenesis factor 26 2 2
MIRT574231 DMRT2 doublesex and mab-3 related transcription factor 2 2 2
MIRT576139 Hmox1 heme oxygenase 1 2 2
MIRT576640 Mill2 MHC I like leukocyte 2 1 1
MIRT609875 RAD54L2 RAD54 like 2 2 4
MIRT622651 POU2F3 POU class 2 homeobox 3 2 4
MIRT628848 FAM151B family with sequence similarity 151 member B 2 2
MIRT634252 TIAL1 TIA1 cytotoxic granule associated RNA binding protein like 1 2 2
MIRT634672 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT649087 FBXO25 F-box protein 25 2 2
MIRT665019 ELK1 ELK1, ETS transcription factor 2 2
MIRT666939 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT668960 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT675802 MED28 mediator complex subunit 28 2 2
MIRT684022 FOLR1 folate receptor 1 2 2
MIRT696480 COX6B1 cytochrome c oxidase subunit 6B1 2 2
MIRT705894 ADCY9 adenylate cyclase 9 2 2
MIRT709434 ZSCAN25 zinc finger and SCAN domain containing 25 2 2
MIRT713572 SLC2A8 solute carrier family 2 member 8 2 2
MIRT716697 HLA-B major histocompatibility complex, class I, B 2 2
MIRT719735 SLC39A11 solute carrier family 39 member 11 2 2
MIRT724907 DAO D-amino acid oxidase 2 2
MIRT725321 NFASC neurofascin 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4656 Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-4656 Cisplatin 5460033 NSC119875 approved resistant High Hypopharyngeal Cancer cell line (FaDu)
hsa-mir-4656 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-4656 Doxorubicin 31703 NSC123127 approved sensitive cell line (BAS)
hsa-miR-4656 Osimertinib 71496458 NSC779217 approved resistant cell line (H1975)
hsa-miR-4656 Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-4656 Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-4656 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4656 Gemcitabine 60750 NSC613327 approved resistant cell line (MDA-231)
hsa-miR-4656 Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM16)

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