miRTarBase - #MIRT447947


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pre-miRNA Information
pre-miRNA hsa-mir-3164   
Genomic Coordinates chr11: 69083176 - 69083258
Description Homo sapiens miR-3164 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3164
Sequence 10| UGUGACUUUAAGGGAAAUGGCG |31
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN31563669 1 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs980934457 7 dbSNP
rs1481631209 9 dbSNP
rs926392675 14 dbSNP
rs1351752919 15 dbSNP
rs1196636270 17 dbSNP
rs1250002909 18 dbSNP
rs939035438 21 dbSNP
rs991811143 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol AKR7A2   
Synonyms AFAR, AFAR1, AFB1-AR1, AKR7
Description aldo-keto reductase family 7 member A2
Transcript NM_003689   
Expression
Putative miRNA Targets on AKR7A2
3'UTR of AKR7A2
(miRNA target sites are highlighted)		 
>AKR7A2|NM_003689|3'UTR
   1 GCCCATCATGGCTCAGGCTGCCCAAGGCTTTTCTGTCACCTCTTTTGTTCTCTCACACTGACCAGTCTTGGCCTTAAGCT
  81 GACTTAGAAGGGTTTTTCTGAATTGTCTAGATCCATGCATTATTTTTCTAGCTTCCTGCCTTGCTCCCTATTCACTTTAC
 161 ACTGTGAAAGGTGGGGGGTGAGTCCCACTTGAGCGCTTCCTGTTGAATAAAGCAGGCACTTGACCTGGCTGTAGCCTAGG
 241 TCTTGAGTGAACCCCAAAAACTTGCTTTCTCTGCTGTTAACACTTTGTTTCCCATCCTACCTGGGGACTGAGAAAGGGCA
 321 GAACCATGGGCTGGAGTCTTCAGAGGGCAGAGGTAGTAGGAGGGTCACAGAAGCACACTGCCCTCCCAGGGTCTCCTCGG
 401 GCCCCTGGTCTGAATACCCACCTGACCTCTCAACATTGAGGTGTCTCTCACTCTTCTACACACGATAGAAAAGAGAGTCA
 481 TACACCTGCAGTACATTTTCTCTAATTCAGAGTTGCCTCAATACATTCTTAGGAATGAAACAACTGGGACAAAGAAACTA
 561 CCATTAGAGTCACTACCAAGAAGAAGAACACTTCCCAGGATCTGTGGAACATCTTGAAGCTCTCAATCTTAGCCTCCTCT
 641 TGTCTTAACTAAAGCCTCTTGTCTTTTCACCCATTAGGTTCTCAGTCTTGGCTCTGGGCCTCCTGTTCGGCATGGGGACA
 721 GACATAGGCAGCCAAGGTCCTCATTTCCCTTGGAAACCCCTACTCCAAACAGGAGGCACCAAGGCTGAGAATAAGAATCC
 801 TTGGTTCAGTGGTTGCTGAACCTGCTGCATTCCCAGTGCACCAAAATCCCTCCAGCCATGGGCAGGGCAGCAGGCAGCAC
 881 TTGGAGCAGCTTCTTGAAGCAATGAAAGAGGCCCAACCTGGAAATTTACTTTTTCATTTATATTTATTATTTGTTCTTGA
 961 GACAGGCTCTTGCTCTGTCACCTAGACCGGAGTACAGTGGCATGATCACTGCTCACAGCAATTTTGACCTCCGGGGCTCA
1041 AGGGATCCTCCCACCTCAGCCTCCCGAGAAGTTTTTATTTTTATTTTTTTTGTGGAGTGGAGATCTCCCTATGTTGTCAC
1121 CGTCTTTTCTGTTTACCCGTAACAAAACAGATGCTCACCCATGTGGAATGGTGTATCAGTTATCTTTGCACAACAAACCA
1201 CACTAATAAGTTGCTTGAAAAGATAAAATCCAAGGCTGGCACAGTGGCTCATGGCTATAATCCCAGCACGTTGAGAGCCC
1281 AAAGCAGGCAGATCACTTGAGCTCAGGAGTTTGAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCTACCAAAAATAC
1361 AAAAAATTAATCTGTGTGTGGTGGCACATACCTGTGGTCCCAGCTACTCTGGAGGCTGAGGTGGGAGGATCGCCTGGGCC
1441 CCGGAAACAGAGGTTGCAGTGGGCCGAGATCATGCCATTACACTCTAGCCTGGGTGACACAGTCAGACCCCATCTCA
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' gcggUAAAGGGAAUUUCAGUGu 5'
              | | || |||:|||||| 
Target 5' agaaACTACCATTAGAGTCACt 3'
 553 - 574 150.00 -14.00
2 
miRNA  3' gcgGUAAAGGG----AA-UUUCAGUGu 5'
             |||||:|:    || |:|||::| 
Target 5' gtaCATTTTCTCTAATTCAGAGTTGCc 3'
 491 - 517 117.00 -8.22
3 
miRNA  3' gcgguaaagggaaUUUCAGUGu 5'
                       |::||||| 
Target 5' cagaggtagtaggAGGGTCACa 3'
 348 - 369 113.00 -9.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26600205 22 COSMIC
COSN26668934 30 COSMIC
COSN26669472 37 COSMIC
COSN30158800 58 COSMIC
COSN31494561 59 COSMIC
COSN31541214 62 COSMIC
COSN30482073 70 COSMIC
COSN30126607 92 COSMIC
COSN31570841 124 COSMIC
COSN26141429 190 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs2231207 5 dbSNP
rs776281812 6 dbSNP
rs566024349 7 dbSNP
rs760217273 8 dbSNP
rs775120933 9 dbSNP
rs370973368 10 dbSNP
rs568320742 12 dbSNP
rs549804370 13 dbSNP
rs773645985 14 dbSNP
rs1424664219 15 dbSNP
rs770133827 16 dbSNP
rs1487223540 17 dbSNP
rs1182415852 19 dbSNP
rs748463371 23 dbSNP
rs781432553 24 dbSNP
rs1036568477 25 dbSNP
rs1482863556 33 dbSNP
rs755213636 35 dbSNP
rs747278746 37 dbSNP
rs377725828 39 dbSNP
rs758539183 42 dbSNP
rs113185651 47 dbSNP
rs751228167 47 dbSNP
rs765968829 50 dbSNP
rs933272695 50 dbSNP
rs1199809895 58 dbSNP
rs908317330 65 dbSNP
rs984297091 72 dbSNP
rs773019911 75 dbSNP
rs1195460399 79 dbSNP
rs1357245889 83 dbSNP
rs1317258494 86 dbSNP
rs1201441569 91 dbSNP
rs1382106307 103 dbSNP
rs1264296586 112 dbSNP
rs1444259303 115 dbSNP
rs952384467 115 dbSNP
rs564042097 119 dbSNP
rs1327884206 122 dbSNP
rs1405611651 125 dbSNP
rs542998578 135 dbSNP
rs897733171 153 dbSNP
rs1036655306 158 dbSNP
rs1380355970 163 dbSNP
rs552231565 170 dbSNP
rs1471412845 171 dbSNP
rs145371999 173 dbSNP
rs909863111 178 dbSNP
rs1294295555 179 dbSNP
rs1221257954 180 dbSNP
rs193206961 193 dbSNP
rs79655192 194 dbSNP
rs114203596 195 dbSNP
rs111259968 199 dbSNP
rs187617169 205 dbSNP
rs1347149272 228 dbSNP
rs967414865 240 dbSNP
rs960604449 242 dbSNP
rs1360628647 243 dbSNP
rs1160573461 253 dbSNP
rs1031923518 256 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions BC-1
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 GSM796038. RNA binding protein: AGO2. Condition:4-Thiouridine ...

- Gottwein E; Corcoran DL; Mukherjee N; et al., 2011, Cell host & microbe.

Article - Gottwein E; Corcoran DL; Mukherjee N; et al.
- Cell host & microbe, 2011
Primary effusion lymphoma (PEL) is caused by Kaposi's sarcoma-associated herpesvirus (KSHV) and frequently also harbors Epstein-Barr virus (EBV). The expression of KSHV- and EBV-encoded microRNAs (miRNAs) in PELs suggests a role for these miRNAs in latency and lymphomagenesis. Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites. In addition to a known viral analog of cellular miR-155, we show that KSHV encodes a viral miRNA that mimics cellular miR-142-3p function. In summary, this study identifies an extensive list of KSHV miRNA targets, which are likely to influence viral replication and pathogenesis.
LinkOut: [PMID: 22100165]
CLIP-seq Support 1 for dataset GSM796038
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-1 / 4-Thiouridine
Location of target site ENST00000235835.3 | 3UTR | UCAAGUUCUUUCUUCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22100165 / GSE32109
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
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53 hsa-miR-3164 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT058547 CTTNBP2NL CTTNBP2 N-terminal like 2 2
MIRT108711 XIAP X-linked inhibitor of apoptosis 2 2
MIRT251550 DCAF7 DDB1 and CUL4 associated factor 7 2 4
MIRT333466 SLC25A44 solute carrier family 25 member 44 2 2
MIRT441660 COCH cochlin 2 2
MIRT446514 PLSCR1 phospholipid scramblase 1 2 2
MIRT447498 TEX261 testis expressed 261 2 2
MIRT447787 NUPL2 nucleoporin like 2 2 2
MIRT447947 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT450182 TMEM9B TMEM9 domain family member B 2 2
MIRT450508 USP37 ubiquitin specific peptidase 37 2 2
MIRT456957 SPAM1 sperm adhesion molecule 1 2 2
MIRT463316 ZFP1 ZFP1 zinc finger protein 2 2
MIRT465137 TSC22D2 TSC22 domain family member 2 2 2
MIRT481204 ATXN7L3B ataxin 7 like 3B 2 2
MIRT489315 PEX26 peroxisomal biogenesis factor 26 2 2
MIRT499198 TJAP1 tight junction associated protein 1 2 2
MIRT502024 LRIG2 leucine rich repeats and immunoglobulin like domains 2 2 2
MIRT503624 POLR2F RNA polymerase II subunit F 2 4
MIRT510310 CA12 carbonic anhydrase 12 2 4
MIRT515969 C9orf156 tRNA methyltransferase O 2 4
MIRT520425 TUBG1 tubulin gamma 1 2 2
MIRT530293 AKAP17A A-kinase anchoring protein 17A 2 2
MIRT530893 FAT3 FAT atypical cadherin 3 2 2
MIRT546121 USP13 ubiquitin specific peptidase 13 2 2
MIRT549592 TMEM101 transmembrane protein 101 2 2
MIRT552591 ZCCHC2 zinc finger CCHC-type containing 2 2 2
MIRT554976 RAB5C RAB5C, member RAS oncogene family 2 4
MIRT562535 CCNG1 cyclin G1 2 2
MIRT564574 ZXDA zinc finger, X-linked, duplicated A 2 2
MIRT564909 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 2
MIRT576553 Serpine1 serine (or cysteine) peptidase inhibitor, clade E, member 1 2 2
MIRT612805 LPP LIM domain containing preferred translocation partner in lipoma 2 2
MIRT614932 MAPK14 mitogen-activated protein kinase 14 2 2
MIRT624204 DCP2 decapping mRNA 2 2 4
MIRT624711 APPL1 adaptor protein, phosphotyrosine interacting with PH domain and leucine zipper 1 2 2
MIRT625553 GABRB2 gamma-aminobutyric acid type A receptor beta2 subunit 2 2
MIRT626026 POT1 protection of telomeres 1 2 2
MIRT627559 SMAD6 SMAD family member 6 2 2
MIRT667617 LIMCH1 LIM and calponin homology domains 1 2 2
MIRT667631 LHFPL2 LHFPL tetraspan subfamily member 2 2 2
MIRT669722 A1CF APOBEC1 complementation factor 2 2
MIRT695124 PRY2 PTPN13-like, Y-linked 2 2 2
MIRT695141 PRY PTPN13-like, Y-linked 2 2
MIRT695498 ALPI alkaline phosphatase, intestinal 2 2
MIRT696076 MAST3 microtubule associated serine/threonine kinase 3 2 2
MIRT702739 IL6ST interleukin 6 signal transducer 2 2
MIRT710439 BTNL3 butyrophilin like 3 2 2
MIRT711341 FMNL2 formin like 2 2 2
MIRT715117 PANK3 pantothenate kinase 3 2 2
MIRT716008 ASB11 ankyrin repeat and SOCS box containing 11 2 2
MIRT717227 SH2D5 SH2 domain containing 5 2 2
MIRT723983 SOX17 SRY-box 17 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3164 Paclitaxel 36314 NSC125973 approved sensitive High Laryngeal Cancer cell line (Hep2)
hsa-miR-3164 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-3164 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-3164 Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-3164 Cisplatin 5460033 NSC119875 approved resistant cell line (CAL-27) (mitochondrial RNA)
hsa-miR-3164 Palbociclib 5330286 NSC758247 approved sensitive cell line (T47D)
hsa-miR-3164 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3164 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-3164 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-3164 Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-3164 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3164 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3164 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (100 ng/ml)
hsa-miR-3164 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)

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