miRTarBase - #MIRT275773


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pre-miRNA Information
pre-miRNA hsa-mir-6839   
Genomic Coordinates chr7: 64679064 - 64679176
Description Homo sapiens miR-6839 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6839-3p
Sequence 92| UUGGGUUUUCUCUUCAAUCCAG |113
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN15661209 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1426245091 3 dbSNP
rs533324498 6 dbSNP
rs1169594864 16 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol TFDP1   
Synonyms DILC, DP1, DRTF1, Dp-1
Description transcription factor Dp-1
Transcript NM_007111   
Expression
Putative miRNA Targets on TFDP1
3'UTR of TFDP1
(miRNA target sites are highlighted)		 
>TFDP1|NM_007111|3'UTR
   1 CGTCCTCCCCACTTCAGATTCGGCTTCAGGAAAACGTTTAGCGAAAAGAAACTTTTTTTTTAATGTGGGTTTTCTGTTTC
  81 CTTTTGGCCTACTCCCAAGAAGATATTGGTAAGCTATTGAATTTAGATATGCACCTCTGATAAGCAAGGATTGTTTCCCG
 161 TAGGATTAGGACGTGCTGTGGATGTGTGTTTTGATACCAGTGTGCTGATGCAGAGCGTTTATTTACTTGTTAGGATTTTG
 241 TGTTTTCATTTGCTATTTTTCTTTAAGTGCAGAGTTCATTTTTGCCCCTGAAAAGTTTTTGCTGAGTTTGCTGAAGAAAT
 321 TGTATTTCAACCACATCCATGAAAATAAAACACCTCCTGTTGTGGATGGTGAGCCCCTGATGCCGCTTATTTGCCGTGAG
 401 TTTGGACGGCACCCCTGCTGGCGGATAGCAAGACTCTGTGGAGTTTGTTCAGTGGTACGGTGTCCAAGCAAACAGCAGAA
 481 TGCAACTTTCTAAACAGCCCCAAGCAAACAGCAGAATTCAACTTTTTAAACAATAAACACCATCAACCTTATTGACTTTA
 561 TTGTCCCTTAAATTATATTGACTGTTGTGATTCCATCAAGTTTGTACACTCTTTTCTCTCCCTGTTTTGCAGCAACAAAT
 641 TGCGAAGTGCTTTTGTTTGTTTGTTTTCGTTTGGTTAAAGCTTATTGCCATGCTGGTGCGGCTATGGAGACTGTCTGGAA
 721 GGCTTGGAATGGTTTATTGCTTATGGTAAAATTTGCCTGATTTCTTACAGGCAGCGTTTGGAAACCTTTTATTATATAGT
 801 TGTTTACATACTTATAAGTCTATCATTTAAAGACATGTACTGAAACAAATGTATTTGTTTCATAAGCATCTTCCTGTAAT
 881 CTATTATAAAATTGAAATTAAATATAGAGAATGTTTTAACAATTTTTTAACTCAAAATTTGTCAATCATTTTTAATAGTT
 961 CTTTTTTTATAAAAAGAAAAAGGAATTTAAGGACAGGCAGTAGTCTCTTTTAAAATTTATTCACAAAACCCATTAACTGC
1041 ACAGTTGCTATTAGCTGCCTGTTCTAAAACGATAGTCTTTTTATTGAAACACAAATAAACTTTTCTGTAATATTTTATGG
1121 TATATAAAGAGACTTTAATTGTTTGACTTGTTTAACTTGGCACTGTTAGTTTTTATTAATAAAACGCGCATGGGCATTTT
1201 AAACAA
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' gaccUAACU-UCUCUUUUGGGUu 5'
              ||| |   | |||||||| 
Target 5' taaaATTTATTCACAAAACCCAt 3'
 1011 - 1033 150.00 -8.10
2 
miRNA  3' gaccuAACUUCUCUUUUG-GGUu 5'
               || || |  |||| ||| 
Target 5' actttTTAAACAATAAACACCAt 3'
 521 - 543 121.00 -5.60
3 
miRNA  3' gaccuaACUUCUCUUUUGGGuu 5'
                |||| | ||||| |  
Target 5' catccaTGAAAATAAAACACct 3'
 334 - 355 112.00 -5.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM5743634 1 COSMIC
COSN30188297 3 COSMIC
COSN31583873 22 COSMIC
COSN13432696 43 COSMIC
COSN31608468 44 COSMIC
COSN16130727 49 COSMIC
COSN31559659 49 COSMIC
COSN18737340 62 COSMIC
COSN21858594 102 COSMIC
COSN6222806 423 COSMIC
COSN31519724 550 COSMIC
COSN31523282 607 COSMIC
COSN30173723 644 COSMIC
COSN6222807 697 COSMIC
COSN31576902 728 COSMIC
COSN31526519 847 COSMIC
COSN31522064 872 COSMIC
COSN31569955 889 COSMIC
COSN23988489 908 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs530994527 2 dbSNP
rs150466630 3 dbSNP
rs756761663 7 dbSNP
rs1356942380 9 dbSNP
rs376532717 11 dbSNP
rs765601518 18 dbSNP
rs549285379 21 dbSNP
rs113220010 23 dbSNP
rs1409548411 28 dbSNP
rs1286881134 33 dbSNP
rs1347549012 35 dbSNP
rs374365132 36 dbSNP
rs534618368 37 dbSNP
rs200563498 43 dbSNP
rs370718516 44 dbSNP
rs1251799279 49 dbSNP
rs780513765 50 dbSNP
rs763131359 52 dbSNP
rs1259989102 53 dbSNP
rs763040462 53 dbSNP
rs773604244 53 dbSNP
rs1236768094 54 dbSNP
rs1251771860 62 dbSNP
rs1050038980 63 dbSNP
rs1478082714 64 dbSNP
rs28624173 67 dbSNP
rs1345042487 68 dbSNP
rs182792488 69 dbSNP
rs1008538241 80 dbSNP
rs4150824 92 dbSNP
rs1050670 93 dbSNP
rs1456073515 94 dbSNP
rs34533673 94 dbSNP
rs1159616110 105 dbSNP
rs1414865967 109 dbSNP
rs4150825 117 dbSNP
rs994977427 127 dbSNP
rs1244543979 129 dbSNP
rs1460014712 131 dbSNP
rs1161793661 132 dbSNP
rs1451875414 136 dbSNP
rs1028271822 140 dbSNP
rs958972732 142 dbSNP
rs1466164710 157 dbSNP
rs190739978 159 dbSNP
rs1013196709 160 dbSNP
rs4150826 161 dbSNP
rs1296562992 163 dbSNP
rs1373216818 164 dbSNP
rs557077152 173 dbSNP
rs146046782 174 dbSNP
rs542815047 179 dbSNP
rs1321792958 187 dbSNP
rs1469798328 189 dbSNP
rs1290595598 196 dbSNP
rs1333165697 198 dbSNP
rs4150827 209 dbSNP
rs371317153 215 dbSNP
rs554905975 217 dbSNP
rs573014325 218 dbSNP
rs1466080761 219 dbSNP
rs1248490759 220 dbSNP
rs1202926858 221 dbSNP
rs1272187933 221 dbSNP
rs1451865418 226 dbSNP
rs4150828 227 dbSNP
rs559535944 230 dbSNP
rs533338573 238 dbSNP
rs1202282291 243 dbSNP
rs1345898217 258 dbSNP
rs771113853 262 dbSNP
rs140024363 265 dbSNP
rs1226540530 288 dbSNP
rs1367787069 289 dbSNP
rs924678498 295 dbSNP
rs11545598 305 dbSNP
rs957724153 313 dbSNP
rs1357948138 318 dbSNP
rs1335569068 322 dbSNP
rs779157937 328 dbSNP
rs563409980 331 dbSNP
rs1395221962 335 dbSNP
rs989323399 338 dbSNP
rs1474113798 340 dbSNP
rs1182783340 342 dbSNP
rs1471747982 352 dbSNP
rs931883880 358 dbSNP
rs1164426645 359 dbSNP
rs1414758353 362 dbSNP
rs1407341373 364 dbSNP
rs1050283335 367 dbSNP
rs4150829 378 dbSNP
rs775058188 379 dbSNP
rs531035095 386 dbSNP
rs944343408 396 dbSNP
rs1310412231 397 dbSNP
rs78345683 402 dbSNP
rs75700214 403 dbSNP
rs77556813 404 dbSNP
rs1286479439 406 dbSNP
rs549122060 408 dbSNP
rs897571382 420 dbSNP
rs1285209164 423 dbSNP
rs1431204329 424 dbSNP
rs567836396 424 dbSNP
rs543042505 429 dbSNP
rs1162623511 434 dbSNP
rs1403408820 448 dbSNP
rs528829036 452 dbSNP
rs1229746629 458 dbSNP
rs1182370561 459 dbSNP
rs894622655 461 dbSNP
rs1251139718 462 dbSNP
rs1180133718 468 dbSNP
rs1484134590 477 dbSNP
rs547247841 479 dbSNP
rs1013103353 481 dbSNP
rs1221216329 484 dbSNP
rs371395847 505 dbSNP
rs571188496 510 dbSNP
rs1024526654 519 dbSNP
rs34438141 523 dbSNP
rs971640242 538 dbSNP
rs1229374018 543 dbSNP
rs1329104997 549 dbSNP
rs1205719216 553 dbSNP
rs1411132212 566 dbSNP
rs1350666478 567 dbSNP
rs998850918 573 dbSNP
rs1433935920 576 dbSNP
rs1351372810 577 dbSNP
rs1032121688 580 dbSNP
rs1456593362 583 dbSNP
rs1409700517 585 dbSNP
rs561116336 586 dbSNP
rs1253923799 592 dbSNP
rs1412862987 593 dbSNP
rs957465867 594 dbSNP
rs1487658688 596 dbSNP
rs1248773528 599 dbSNP
rs990665894 600 dbSNP
rs1464790668 604 dbSNP
rs921377805 607 dbSNP
rs1329231826 610 dbSNP
rs1300042990 611 dbSNP
rs1217093074 612 dbSNP
rs4150830 612 dbSNP
rs1293854168 618 dbSNP
rs1434092782 622 dbSNP
rs1186929410 629 dbSNP
rs1322445928 631 dbSNP
rs1237898458 632 dbSNP
rs1175482772 637 dbSNP
rs1473894894 637 dbSNP
rs1431618838 643 dbSNP
rs985935844 644 dbSNP
rs1166374881 645 dbSNP
rs1418832784 652 dbSNP
rs762309268 652 dbSNP
rs911771598 654 dbSNP
rs766475896 670 dbSNP
rs1207450397 675 dbSNP
rs1313514225 681 dbSNP
rs550717308 686 dbSNP
rs568925750 691 dbSNP
rs1434708362 692 dbSNP
rs9577597 694 dbSNP
rs1335273842 696 dbSNP
rs930343081 697 dbSNP
rs753855507 699 dbSNP
rs1299616999 701 dbSNP
rs759497172 705 dbSNP
rs1401451088 708 dbSNP
rs1302273662 709 dbSNP
rs1049258667 715 dbSNP
rs1361028132 722 dbSNP
rs1449698623 729 dbSNP
rs1268065091 732 dbSNP
rs536460151 740 dbSNP
rs894236226 747 dbSNP
rs1429583894 749 dbSNP
rs1256072599 755 dbSNP
rs948826002 776 dbSNP
rs1045969102 777 dbSNP
rs1276212562 786 dbSNP
rs1203978059 795 dbSNP
rs1339668402 797 dbSNP
rs1276468384 801 dbSNP
rs1345621516 815 dbSNP
rs907444468 816 dbSNP
rs1339746924 823 dbSNP
rs1310473565 825 dbSNP
rs554508555 826 dbSNP
rs765511109 835 dbSNP
rs1199866583 836 dbSNP
rs1278985914 837 dbSNP
rs1381390821 840 dbSNP
rs1443941547 843 dbSNP
rs1313611558 844 dbSNP
rs1191252474 848 dbSNP
rs999544766 854 dbSNP
rs1368979598 867 dbSNP
rs1450379413 877 dbSNP
rs1190582810 880 dbSNP
rs572993258 885 dbSNP
rs1031656588 887 dbSNP
rs1393422357 904 dbSNP
rs893104427 917 dbSNP
rs1426112684 923 dbSNP
rs1257552007 926 dbSNP
rs1011592086 934 dbSNP
rs183205277 937 dbSNP
rs1173682780 946 dbSNP
rs1205503446 948 dbSNP
rs1028331531 961 dbSNP
rs1263497844 962 dbSNP
rs879902811 964 dbSNP
rs1322278965 970 dbSNP
rs954132089 1006 dbSNP
rs985924051 1008 dbSNP
rs1348794034 1013 dbSNP
rs558801911 1014 dbSNP
rs1018768998 1017 dbSNP
rs1392247247 1020 dbSNP
rs1390421822 1021 dbSNP
rs1292172170 1023 dbSNP
rs1050697 1024 dbSNP
rs1459866275 1026 dbSNP
rs1419218172 1042 dbSNP
rs1157702231 1047 dbSNP
rs1471317395 1056 dbSNP
rs1372644999 1058 dbSNP
rs1182044669 1062 dbSNP
rs199853572 1066 dbSNP
rs4150831 1066 dbSNP
rs1211448200 1071 dbSNP
rs773820289 1072 dbSNP
rs1318124134 1075 dbSNP
rs972367739 1077 dbSNP
rs930270498 1078 dbSNP
rs984474562 1083 dbSNP
rs1239998032 1090 dbSNP
rs1330778632 1092 dbSNP
rs1299567397 1093 dbSNP
rs1388902897 1096 dbSNP
rs773647283 1099 dbSNP
rs915660175 1106 dbSNP
rs948483626 1122 dbSNP
rs1299173972 1126 dbSNP
rs1368156076 1128 dbSNP
rs1232370520 1129 dbSNP
rs1477468287 1132 dbSNP
rs1045917073 1134 dbSNP
rs1200658107 1148 dbSNP
rs577632825 1155 dbSNP
rs1454539213 1161 dbSNP
rs1275388802 1175 dbSNP
rs1206704365 1182 dbSNP
rs907395641 1186 dbSNP
rs934866767 1187 dbSNP
rs1053752877 1188 dbSNP
rs544976027 1189 dbSNP
rs1267330297 1192 dbSNP
rs1441050193 1197 dbSNP
rs1239024764 1207 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gaccUAACU-UCUCUUUUGGGUu 5'
              ||| |   | |||||||| 
Target 5' uaaaAUUUAUUCACAAAACCCAu 3'
 		8 - 30
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]
CLIP-seq Support 1 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000375370.5 | 3UTR | UCUCUUUUAAAAUUUAUUCACAAAACCCAUUAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
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
62 hsa-miR-6839-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059162 TXNIP thioredoxin interacting protein 2 2
MIRT064872 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT065802 HOXC8 homeobox C8 2 4
MIRT106005 SDCBP syndecan binding protein 2 2
MIRT275773 TFDP1 transcription factor Dp-1 2 2
MIRT314032 PAPD7 poly(A) RNA polymerase D7, non-canonical 2 2
MIRT360277 HIST1H2BE histone cluster 1 H2B family member e 2 8
MIRT360301 HIST1H2BH histone cluster 1 H2B family member h 2 2
MIRT450086 OR2A4 olfactory receptor family 2 subfamily A member 4 2 2
MIRT468815 RSRC2 arginine and serine rich coiled-coil 2 2 6
MIRT475093 IRF2BP2 interferon regulatory factor 2 binding protein 2 2 4
MIRT477575 EIF1AD eukaryotic translation initiation factor 1A domain containing 2 2
MIRT483926 LCORL ligand dependent nuclear receptor corepressor like 2 6
MIRT504381 HIST1H1C histone cluster 1 H1 family member c 2 4
MIRT506970 HNRNPUL1 heterogeneous nuclear ribonucleoprotein U like 1 2 6
MIRT507028 HIST1H3B histone cluster 1 H3 family member b 2 6
MIRT511561 HIST3H2BB histone cluster 3 H2B family member b 2 4
MIRT511650 HIST1H3D histone cluster 1 H3 family member d 2 6
MIRT511696 HIST1H2BL histone cluster 1 H2B family member l 2 4
MIRT511737 HIST1H2BB histone cluster 1 H2B family member b 2 6
MIRT511746 HIST1H2BA histone cluster 1 H2B family member a 2 8
MIRT515260 CSNK1E casein kinase 1 epsilon 2 2
MIRT516220 RAB3B RAB3B, member RAS oncogene family 2 4
MIRT523281 HIST1H1E histone cluster 1 H1 family member e 2 2
MIRT524121 DMXL1 Dmx like 1 2 2
MIRT530744 GPR82 G protein-coupled receptor 82 2 2
MIRT532214 CCDC117 coiled-coil domain containing 117 2 2
MIRT546182 TPRG1L tumor protein p63 regulated 1 like 2 2
MIRT558638 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT559562 ARF1 ADP ribosylation factor 1 2 4
MIRT560680 HIST1H1T histone cluster 1 H1 family member t 2 2
MIRT570746 AAK1 AP2 associated kinase 1 2 2
MIRT609518 RAB3IP RAB3A interacting protein 2 2
MIRT612583 SYNGAP1 synaptic Ras GTPase activating protein 1 2 4
MIRT615733 RIOK3 RIO kinase 3 2 2
MIRT616068 SIX1 SIX homeobox 1 2 2
MIRT617903 SGCD sarcoglycan delta 2 2
MIRT620851 SERPING1 serpin family G member 1 2 2
MIRT625107 SLC1A5 solute carrier family 1 member 5 2 2
MIRT625120 NUP93 nucleoporin 93 2 2
MIRT625893 LINC00632 long intergenic non-protein coding RNA 632 2 2
MIRT626569 MED7 mediator complex subunit 7 2 2
MIRT626694 ZFP14 ZFP14 zinc finger protein 2 4
MIRT626808 PRR11 proline rich 11 2 2
MIRT628131 HM13 histocompatibility minor 13 2 2
MIRT636596 DCAF5 DDB1 and CUL4 associated factor 5 2 2
MIRT649866 SLFN12L schlafen family member 12 like 2 2
MIRT652133 TRPM7 transient receptor potential cation channel subfamily M member 7 2 2
MIRT652663 TIMELESS timeless circadian clock 2 2
MIRT658335 FAM83D family with sequence similarity 83 member D 2 2
MIRT660615 ANKS4B ankyrin repeat and sterile alpha motif domain containing 4B 2 2
MIRT666304 SLC22A3 solute carrier family 22 member 3 2 2
MIRT668528 ERGIC2 ERGIC and golgi 2 2 2
MIRT692510 PARD3 par-3 family cell polarity regulator 2 2
MIRT694784 DHFRL1 dihydrofolate reductase 2 2 2
MIRT700510 PTPN14 protein tyrosine phosphatase, non-receptor type 14 2 2
MIRT701438 NFYA nuclear transcription factor Y subunit alpha 2 2
MIRT710155 MTRF1L mitochondrial translational release factor 1 like 2 2
MIRT711436 DLC1 DLC1 Rho GTPase activating protein 2 2
MIRT716979 GPR155 G protein-coupled receptor 155 2 2
MIRT720155 POU2F2 POU class 2 homeobox 2 2 2
MIRT722512 DSTYK dual serine/threonine and tyrosine protein kinase 2 2

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