pre-miRNA Information
pre-miRNA hsa-mir-6871   
Genomic Coordinates chr20: 41169023 - 41169078
Description Homo sapiens miR-6871 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6871-3p
Sequence 35| CAGCACCCUGUGGCUCCCACAG |56
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN16670239 4 COSMIC
COSN1872096 9 COSMIC
COSM1741616 16 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs545076040 1 dbSNP
rs1273348199 2 dbSNP
rs1202373059 5 dbSNP
rs1340707970 7 dbSNP
rs372994756 8 dbSNP
rs869070782 15 dbSNP
rs931272568 16 dbSNP
rs1333765165 18 dbSNP
Putative Targets

Gene Information
Gene Symbol FAM3D   
Synonyms EF7, OIT1
Description family with sequence similarity 3 member D
Transcript NM_138805   
Expression
Putative miRNA Targets on FAM3D
3'UTR of FAM3D
(miRNA target sites are highlighted)
>FAM3D|NM_138805|3'UTR
   1 GGTGGCTGTGGCTCTTCCTCAGCCAGGGGCCTGAAGAAGCTCCTGCCTGACTTAGGAGTCAGAGCCCGGCAGGGGCTGAG
  81 GAGGAGGAGCAGGGGGTGCTGCGTGGAAGGTGCTGCAGGTCCTTGCACGCTGTGTCGCGCCTCTCCTCCTCGGAAACAGA
 161 ACCCTCCCACAGCACATCCTACCCGGAAGACCAGCCTCAGAGGGTCCTTCTGGAACCAGCTGTCTGTGGAGAGAATGGGG
 241 TGCTTTCGTCAGGGACTGCTGACGGCTGGTCCTGAGGAAGGACAAACTGCCCAGACTTGAGCCCAATTAAATTTTATTTT
 321 TGCTGGTTTTGAATGAAAAAAAAAAAAAAA
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' gaCACC-CUCGGUGUCCCACGAc 5'
            |||| |||  |::||||||| 
Target 5' ctGTGGAGAG-AATGGGGTGCTt 3'
224 - 245 163.00 -26.70
2
miRNA  3' gacacCCUCGGUGUCCCACGAc 5'
               |||| || :||||||| 
Target 5' gaggaGGAG-CAGGGGGTGCTg 3'
81 - 101 160.00 -26.70
3
miRNA  3' gacacccUCG--GUGUCCCACGAc 5'
                 |||  || ||||| || 
Target 5' gaagaccAGCCTCAGAGGGTCCTt 3'
186 - 209 125.00 -13.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN7702547 5 COSMIC
COSN2531085 17 COSMIC
COSN30176561 17 COSMIC
COSN30463126 20 COSMIC
COSN31488378 36 COSMIC
COSN30455268 55 COSMIC
COSN30489343 67 COSMIC
COSN26975849 70 COSMIC
COSN30186993 74 COSMIC
COSN31492191 82 COSMIC
COSN31542220 102 COSMIC
COSN5271266 110 COSMIC
COSN31962077 126 COSMIC
COSN14077468 129 COSMIC
COSN7763815 263 COSMIC
COSN9555403 320 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs9835236 14 dbSNP
rs972322285 19 dbSNP
rs1308996333 25 dbSNP
rs779572303 28 dbSNP
rs755591292 29 dbSNP
rs750411222 36 dbSNP
rs138033284 42 dbSNP
rs761731495 51 dbSNP
rs1273239810 53 dbSNP
rs1035166344 63 dbSNP
rs1441176212 65 dbSNP
rs934300926 67 dbSNP
rs564152297 68 dbSNP
rs1219371229 70 dbSNP
rs969037908 71 dbSNP
rs1023311556 72 dbSNP
rs1316898942 74 dbSNP
rs1347737346 75 dbSNP
rs924240577 93 dbSNP
rs1011122049 94 dbSNP
rs978767327 96 dbSNP
rs544014960 102 dbSNP
rs894079322 103 dbSNP
rs3860564 110 dbSNP
rs758954230 115 dbSNP
rs1461715120 116 dbSNP
rs1202889974 117 dbSNP
rs1261200550 118 dbSNP
rs552836621 119 dbSNP
rs1458684576 122 dbSNP
rs555274427 126 dbSNP
rs542066327 128 dbSNP
rs1018972163 129 dbSNP
rs1370231806 130 dbSNP
rs1334923601 132 dbSNP
rs1008878811 137 dbSNP
rs1400160280 138 dbSNP
rs1041523836 139 dbSNP
rs1176281335 139 dbSNP
rs942821988 145 dbSNP
rs1329851186 151 dbSNP
rs911183233 152 dbSNP
rs1439838705 155 dbSNP
rs886459514 156 dbSNP
rs1276409046 157 dbSNP
rs572816208 162 dbSNP
rs1323930103 164 dbSNP
rs1048400878 167 dbSNP
rs552921019 175 dbSNP
rs930533721 177 dbSNP
rs920496299 178 dbSNP
rs1195855945 179 dbSNP
rs1026287715 180 dbSNP
rs1480089583 184 dbSNP
rs995168992 185 dbSNP
rs962185583 187 dbSNP
rs899040318 188 dbSNP
rs1412402298 195 dbSNP
rs1184140953 202 dbSNP
rs1176387397 210 dbSNP
rs1044657580 216 dbSNP
rs372118654 217 dbSNP
rs948524790 222 dbSNP
rs927855174 226 dbSNP
rs895596986 229 dbSNP
rs766073466 231 dbSNP
rs539425987 238 dbSNP
rs934373878 242 dbSNP
rs570547312 248 dbSNP
rs969126468 251 dbSNP
rs1345956764 260 dbSNP
rs141260612 263 dbSNP
rs537197092 264 dbSNP
rs946998383 273 dbSNP
rs1342285515 275 dbSNP
rs549886834 281 dbSNP
rs568594854 283 dbSNP
rs774816782 285 dbSNP
rs974911034 291 dbSNP
rs548509137 292 dbSNP
rs1031654090 302 dbSNP
rs1211302113 304 dbSNP
rs528750756 306 dbSNP
rs1330473576 311 dbSNP
rs1290571644 317 dbSNP
rs1490629743 325 dbSNP
rs1227002527 332 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HeLa
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in Chi_ControlA_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control A ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gaCACC-CUCGGUGUCCCacgac 5'
            |||| |||  |::|||     
Target 5' -uGUGGAGAG-AAUGGGG----- 3'
1 - 16
Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
CLIP-seq Support 1 for dataset Chi_ControlA_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell Control A
Location of target site ENST00000358781.2 | 3UTR | UGUGGAGAGAAUGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
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
88 hsa-miR-6871-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT061678 BTG2 BTG anti-proliferation factor 2 2 4
MIRT116181 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT150139 MIDN midnolin 2 2
MIRT197058 NKIRAS2 NFKB inhibitor interacting Ras like 2 2 2
MIRT225108 GOLGA7 golgin A7 2 2
MIRT376288 CALM3 calmodulin 3 2 2
MIRT454810 NEDD9 neural precursor cell expressed, developmentally down-regulated 9 2 2
MIRT464228 VEGFA vascular endothelial growth factor A 2 6
MIRT466961 STAT3 signal transducer and activator of transcription 3 2 2
MIRT468219 SGK1 serum/glucocorticoid regulated kinase 1 2 2
MIRT472460 NASP nuclear autoantigenic sperm protein 2 2
MIRT474203 LEPRE1 prolyl 3-hydroxylase 1 1 1
MIRT475836 HDGF heparin binding growth factor 2 4
MIRT478667 CTC1 CST telomere replication complex component 1 2 14
MIRT478707 CSRNP2 cysteine and serine rich nuclear protein 2 2 2
MIRT478982 COMMD2 COMM domain containing 2 2 2
MIRT479693 CCNT2 cyclin T2 2 6
MIRT488440 ULBP2 UL16 binding protein 2 2 2
MIRT492511 RAET1L retinoic acid early transcript 1L 2 2
MIRT492975 NCS1 neuronal calcium sensor 1 2 2
MIRT494158 COL4A1 collagen type IV alpha 1 chain 2 6
MIRT495934 SLC7A5P2 solute carrier family 7 member 5 pseudogene 2 2 2
MIRT496210 PLEKHG2 pleckstrin homology and RhoGEF domain containing G2 2 2
MIRT496356 PPY pancreatic polypeptide 2 2
MIRT496385 ZC3H6 zinc finger CCCH-type containing 6 2 2
MIRT496463 DCTN5 dynactin subunit 5 2 2
MIRT497642 GLDN gliomedin 2 2
MIRT498496 FRK fyn related Src family tyrosine kinase 2 2
MIRT501928 MCL1 MCL1, BCL2 family apoptosis regulator 2 8
MIRT513286 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT514767 RBM4B RNA binding motif protein 4B 2 2
MIRT514916 MDM2 MDM2 proto-oncogene 2 6
MIRT515669 LRRC27 leucine rich repeat containing 27 2 2
MIRT520367 UBE2G2 ubiquitin conjugating enzyme E2 G2 2 2
MIRT523960 DYNLT1 dynein light chain Tctex-type 1 2 4
MIRT526859 KIFC1 kinesin family member C1 2 2
MIRT527673 CASP8 caspase 8 2 2
MIRT527828 TMEM74B transmembrane protein 74B 2 2
MIRT529553 EI24 EI24, autophagy associated transmembrane protein 2 2
MIRT530547 SYNPO synaptopodin 2 2
MIRT531725 TARS threonyl-tRNA synthetase 2 2
MIRT533340 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT533620 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT537226 GAN gigaxonin 2 2
MIRT544430 ZNF460 zinc finger protein 460 2 4
MIRT546905 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 2
MIRT547102 PLAG1 PLAG1 zinc finger 2 2
MIRT547820 ISG20L2 interferon stimulated exonuclease gene 20 like 2 2 2
MIRT548236 FEM1B fem-1 homolog B 2 2
MIRT550034 WWTR1 WW domain containing transcription regulator 1 2 2
MIRT554337 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 4
MIRT565483 SPRTN SprT-like N-terminal domain 2 2
MIRT568200 CBX6 chromobox 6 2 2
MIRT569754 C2orf71 chromosome 2 open reading frame 71 2 2
MIRT571369 ZNF45 zinc finger protein 45 2 2
MIRT609886 CLASP1 cytoplasmic linker associated protein 1 2 4
MIRT640543 C3orf36 chromosome 3 open reading frame 36 2 2
MIRT640885 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT643494 LRCH3 leucine rich repeats and calponin homology domain containing 3 2 2
MIRT643627 YY2 YY2 transcription factor 2 2
MIRT644384 ZNF286A zinc finger protein 286A 2 2
MIRT646126 SLC26A9 solute carrier family 26 member 9 2 2
MIRT655939 NDUFA4P1 NDUFA4, mitochondrial complex associated pseudogene 1 2 2
MIRT656057 MYLK4 myosin light chain kinase family member 4 2 2
MIRT658767 EIF4EBP2 eukaryotic translation initiation factor 4E binding protein 2 2 2
MIRT661583 EPHX2 epoxide hydrolase 2 2 2
MIRT664285 RNMTL1 mitochondrial rRNA methyltransferase 3 2 2
MIRT689391 ZNF850 zinc finger protein 850 2 2
MIRT694530 TRIM72 tripartite motif containing 72 2 2
MIRT694626 ZFPM1 zinc finger protein, FOG family member 1 2 2
MIRT695133 PRY2 PTPN13-like, Y-linked 2 2 2
MIRT695150 PRY PTPN13-like, Y-linked 2 2
MIRT697468 ZC3H4 zinc finger CCCH-type containing 4 2 2
MIRT701919 MLXIP MLX interacting protein 2 2
MIRT704548 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT704791 CDK6 cyclin dependent kinase 6 2 2
MIRT705696 ANKRD13A ankyrin repeat domain 13A 2 2
MIRT707992 OTUD4 OTU deubiquitinase 4 2 2
MIRT708739 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT713401 FAM179A TOG array regulator of axonemal microtubules 2 2 2
MIRT713846 FAM3D family with sequence similarity 3 member D 2 2
MIRT716998 ARL6IP4 ADP ribosylation factor like GTPase 6 interacting protein 4 2 2
MIRT718511 DIRAS1 DIRAS family GTPase 1 2 2
MIRT718698 BTBD9 BTB domain containing 9 2 2
MIRT719578 TYRO3 TYRO3 protein tyrosine kinase 2 2
MIRT720892 CSGALNACT1 chondroitin sulfate N-acetylgalactosaminyltransferase 1 2 2
MIRT722633 C8A complement C8 alpha chain 2 2
MIRT723333 DGAT1 diacylglycerol O-acyltransferase 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-6871-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-6871-3p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-6871-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-6871-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)

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