miRTarBase - #MIRT645902


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pre-miRNA Information
pre-miRNA hsa-mir-2117   
Genomic Coordinates chr17: 43444806 - 43444885
Description Homo sapiens miR-2117 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-2117
Sequence 51| UGUUCUCUUUGCCAAGGACAG |71
Evidence Experimental
Experiments 454
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1255384593 12 dbSNP
rs1227862494 14 dbSNP
rs1458444919 16 dbSNP
rs1309101018 17 dbSNP
rs1159219853 18 dbSNP
rs1344029538 19 dbSNP
rs747666550 20 dbSNP
rs770495894 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol LRIF1   
Synonyms C1orf103, RIF1
Description ligand dependent nuclear receptor interacting factor 1
Transcript NM_001006945   
Other Transcripts NM_018372   
Expression
Putative miRNA Targets on LRIF1
3'UTR of LRIF1
(miRNA target sites are highlighted)		 
>LRIF1|NM_001006945|3'UTR
   1 AATCTCCTGTAAAGACTTCAGTGAAATAGCTGTTTTTTAAAATATACTTCAGCATTAATAAGTTAATTGTAGGTGTGTTC
  81 TGAAAGTGTCTTTGAATATGAAGCTTGTTTTTTCATCAGTCGATTGTACAACTTTAAGGAATACAGAAAAGGTTGATTCA
 161 CATATGACTTGTGAATAATTTACATGGGGTATCTATACCTTTGTCTTAGATACCTTTTTTTGGAAGGATAAATTTTATAT
 241 TTTTCTATTATTTTAACTAGAATTCTCCAAGTTTGAATATTTGGGCAGGGTTTTTGTTATTGTTTGTATCTTTACCTAAA
 321 TTGCTCAGGCATTATTCCAGCAGTAGATAGTGACTGTGTATTACTGAAATTTTACAATTCAAGAGAGGAAATCAGCTCCA
 401 AACTTAGCTTTTCCAGTGGATTTGTATATGTACTTGCTTTATCTCTTTACCCTTAAAATGATGATACCTTGTATTCACCA
 481 TTGTTTTTTTTAATGTCGTGAAATAATATGTATTATGGCAACATTATTTAAACATTCAAACATTTCTCAAGAATGAGCAA
 561 CATTTGTAACTTTACAATGTAATTTTATATAATCCAAAGGTATTTTAGAATTCAGGCCATTTGATGTTTTGTTTGCTTAT
 641 AGTGATGTGTTCCCAGGCAAATGCTGCTTTTTTTTTTTTTGGGACTATGTACATACGTTACTGAGATTGTGTAAAAAGTA
 721 GATCCTGAACAGTTATCACATTTAATATTTCTTAAACTGTAAAAGTGTAAAAAAAAAAAAAAA
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' gacaggaaccGUU-UCUCUUgu 5'
                    ||| ||||:|  
Target 5' ttttacaattCAAGAGAGGAaa 3'
 370 - 391 111.00 -7.00
2 
miRNA  3' gacaGGAA--CCGUUUCUCUUgu 5'
              |:||  || | | ||||  
Target 5' acaaCTTTAAGGAATACAGAAaa 3'
 128 - 150 103.00 -5.50
3 
miRNA  3' gacAGGAACCGUUUCUCUUgu 5'
             |::|||| ||:|| ||  
Target 5' cttTTTTTGG-AAGGATAAat 3'
 214 - 233 101.00 -8.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30500629 2 COSMIC
COSN31557698 4 COSMIC
COSN30466629 6 COSMIC
COSN30154130 38 COSMIC
COSN30153004 50 COSMIC
COSN31607807 57 COSMIC
COSN30128926 121 COSMIC
COSN30161377 202 COSMIC
COSN31553878 213 COSMIC
COSN8317886 412 COSMIC
COSN27436703 668 COSMIC
COSN7171993 678 COSMIC
COSN26659215 679 COSMIC
COSN27085745 679 COSMIC
COSN20095154 680 COSMIC
COSN24848575 680 COSMIC
COSN28914749 680 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1225122118 6 dbSNP
rs770535880 7 dbSNP
rs1416304301 11 dbSNP
rs759505951 14 dbSNP
rs746694252 17 dbSNP
rs377569630 19 dbSNP
rs773801419 19 dbSNP
rs373597823 22 dbSNP
rs752572420 24 dbSNP
rs1346379145 32 dbSNP
rs778889577 38 dbSNP
rs144995101 39 dbSNP
rs765918496 39 dbSNP
rs754772514 45 dbSNP
rs1232550262 48 dbSNP
rs1488971168 50 dbSNP
rs753626517 51 dbSNP
rs1422647132 53 dbSNP
rs1192702217 57 dbSNP
rs1267361721 70 dbSNP
rs756781034 78 dbSNP
rs998664441 84 dbSNP
rs1182997308 91 dbSNP
rs1407745378 98 dbSNP
rs1169228680 100 dbSNP
rs903006909 119 dbSNP
rs1406532008 121 dbSNP
rs1024169926 122 dbSNP
rs775750603 125 dbSNP
rs141022350 126 dbSNP
rs766010621 128 dbSNP
rs1187642928 135 dbSNP
rs1400593962 136 dbSNP
rs1271884001 137 dbSNP
rs1341507463 138 dbSNP
rs1212882285 140 dbSNP
rs1018503024 144 dbSNP
rs1008422509 147 dbSNP
rs1195491660 149 dbSNP
rs1488909702 150 dbSNP
rs554723599 151 dbSNP
rs1267064312 156 dbSNP
rs1490323131 161 dbSNP
rs1194969468 174 dbSNP
rs533834186 184 dbSNP
rs1474108421 187 dbSNP
rs898726011 189 dbSNP
rs1414065097 190 dbSNP
rs1426209097 190 dbSNP
rs891402794 191 dbSNP
rs1364682869 192 dbSNP
rs1420108351 198 dbSNP
rs1320125540 199 dbSNP
rs1321061009 200 dbSNP
rs3790721 203 dbSNP
rs879303964 203 dbSNP
rs1020407469 209 dbSNP
rs1383760463 213 dbSNP
rs554689181 213 dbSNP
rs893188571 219 dbSNP
rs1289893704 220 dbSNP
rs34698020 222 dbSNP
rs1359085764 223 dbSNP
rs1206105800 227 dbSNP
rs1286941953 232 dbSNP
rs1445843476 239 dbSNP
rs1214425883 240 dbSNP
rs1237601164 243 dbSNP
rs1445953832 247 dbSNP
rs764056986 249 dbSNP
rs537642666 254 dbSNP
rs185073509 263 dbSNP
rs1440011404 264 dbSNP
rs1348141635 276 dbSNP
rs1054954024 280 dbSNP
rs755898196 288 dbSNP
rs1001521193 291 dbSNP
rs908696970 297 dbSNP
rs1387061596 299 dbSNP
rs905873743 310 dbSNP
rs147314889 315 dbSNP
rs1454678186 316 dbSNP
rs949262653 320 dbSNP
rs1456654232 322 dbSNP
rs917877790 329 dbSNP
rs111891345 334 dbSNP
rs1250461101 338 dbSNP
rs1240205706 340 dbSNP
rs1281684685 341 dbSNP
rs1160489506 343 dbSNP
rs182057286 348 dbSNP
rs957618954 349 dbSNP
rs1462211655 351 dbSNP
rs1409895410 354 dbSNP
rs749688433 360 dbSNP
rs1181164762 382 dbSNP
rs149625132 383 dbSNP
rs977319657 384 dbSNP
rs1457985963 390 dbSNP
rs967328816 398 dbSNP
rs919645320 404 dbSNP
rs538458855 406 dbSNP
rs1173048452 413 dbSNP
rs1467834308 414 dbSNP
rs1268504165 415 dbSNP
rs1431370431 418 dbSNP
rs1405581803 424 dbSNP
rs772785634 424 dbSNP
rs894188055 428 dbSNP
rs371650112 429 dbSNP
rs994486433 431 dbSNP
rs1284426928 437 dbSNP
rs1326356773 438 dbSNP
rs898824463 441 dbSNP
rs1233273177 442 dbSNP
rs370369252 443 dbSNP
rs1298692625 444 dbSNP
rs763194619 447 dbSNP
rs963858374 449 dbSNP
rs1248019848 453 dbSNP
rs1436944556 455 dbSNP
rs1199954772 458 dbSNP
rs910861628 467 dbSNP
rs940273396 468 dbSNP
rs1174337355 480 dbSNP
rs887391854 481 dbSNP
rs748433903 484 dbSNP
rs1169801464 485 dbSNP
rs1394628434 492 dbSNP
rs921333456 492 dbSNP
rs934155616 492 dbSNP
rs773329273 498 dbSNP
rs1403693030 500 dbSNP
rs1283231720 506 dbSNP
rs562034357 509 dbSNP
rs1040204620 516 dbSNP
rs1387072753 519 dbSNP
rs1228981462 522 dbSNP
rs1249248067 528 dbSNP
rs1158081028 542 dbSNP
rs1338421526 555 dbSNP
rs1466555112 556 dbSNP
rs986469160 560 dbSNP
rs1489804331 563 dbSNP
rs925942466 564 dbSNP
rs1262346602 566 dbSNP
rs1453969158 574 dbSNP
rs1429133513 579 dbSNP
rs1248485911 582 dbSNP
rs1195496617 585 dbSNP
rs1190256175 588 dbSNP
rs955614597 593 dbSNP
rs967253673 602 dbSNP
rs548690117 605 dbSNP
rs1483920050 609 dbSNP
rs1367796065 623 dbSNP
rs1253716028 626 dbSNP
rs1020504071 639 dbSNP
rs992654198 641 dbSNP
rs577314355 645 dbSNP
rs958801202 646 dbSNP
rs1383408631 647 dbSNP
rs1034218131 653 dbSNP
rs531925252 657 dbSNP
rs1010324062 661 dbSNP
rs1230997259 664 dbSNP
rs1363649107 666 dbSNP
rs1318200664 667 dbSNP
rs1014533534 668 dbSNP
rs1486848033 668 dbSNP
rs563090665 669 dbSNP
rs1301164505 670 dbSNP
rs1033071136 674 dbSNP
rs546491146 675 dbSNP
rs1004510677 676 dbSNP
rs1434399434 676 dbSNP
rs1390957799 677 dbSNP
rs577613232 677 dbSNP
rs560051783 678 dbSNP
rs1481888822 679 dbSNP
rs539836179 679 dbSNP
rs1046260 680 dbSNP
rs1338226293 681 dbSNP
rs1346274522 681 dbSNP
rs1491021956 681 dbSNP
rs35004592 681 dbSNP
rs562249295 681 dbSNP
rs796963939 681 dbSNP
rs869062895 681 dbSNP
rs879134605 681 dbSNP
rs1447396974 682 dbSNP
rs67606830 684 dbSNP
rs762490033 684 dbSNP
rs779932182 684 dbSNP
rs1002011075 686 dbSNP
rs1188225602 687 dbSNP
rs1236736882 691 dbSNP
rs1444032835 692 dbSNP
rs1253544365 696 dbSNP
rs190822218 697 dbSNP
rs1483184489 702 dbSNP
rs1276251116 708 dbSNP
rs139356603 711 dbSNP
rs1014296700 712 dbSNP
rs936064035 718 dbSNP
rs1157471152 722 dbSNP
rs1337799150 732 dbSNP
rs187245349 736 dbSNP
rs926035600 757 dbSNP
rs1338205612 758 dbSNP
rs1047016168 759 dbSNP
rs201154825 759 dbSNP
rs929801446 763 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
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 GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gacaggaaccgUUUCUCUUGu 5'
                     :|:|||||| 
Target 5' uaaaggaggagGAGGAGAAC- 3'
 		1 - 20
Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000369763.4 | 3UTR | ACAGUGAGACCCUGUCUCUUAAAGGAGGAGGAGGAGAAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000369763.4 | 3UTR | UAAAGGAGGAGGAGGAGAAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
50 hsa-miR-2117 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT080059 TGIF1 TGFB induced factor homeobox 1 2 2
MIRT253245 ZNF264 zinc finger protein 264 2 4
MIRT279706 EIF2S1 eukaryotic translation initiation factor 2 subunit alpha 2 4
MIRT359344 TMEM167A transmembrane protein 167A 2 2
MIRT465598 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT479860 CCDC6 coiled-coil domain containing 6 2 2
MIRT512413 KIAA0391 KIAA0391 2 2
MIRT525342 TUBGCP4 tubulin gamma complex associated protein 4 2 2
MIRT528092 UCHL3 ubiquitin C-terminal hydrolase L3 2 2
MIRT529254 TRIM4 tripartite motif containing 4 2 4
MIRT550782 VAV3 vav guanine nucleotide exchange factor 3 2 2
MIRT554467 SAMD12 sterile alpha motif domain containing 12 2 2
MIRT560164 ZNF286A zinc finger protein 286A 2 2
MIRT562613 BTF3L4 basic transcription factor 3 like 4 2 2
MIRT568507 ARF1 ADP ribosylation factor 1 2 2
MIRT571536 ZNF286B zinc finger protein 286B 2 2
MIRT609660 ITIH5 inter-alpha-trypsin inhibitor heavy chain family member 5 2 2
MIRT612022 PAK6 p21 (RAC1) activated kinase 6 2 8
MIRT615677 NAV2 neuron navigator 2 2 2
MIRT616035 SCO1 SCO1, cytochrome c oxidase assembly protein 2 2
MIRT617771 C17orf105 chromosome 17 open reading frame 105 2 2
MIRT628757 MX2 MX dynamin like GTPase 2 2 4
MIRT635089 AKIRIN1 akirin 1 2 2
MIRT638261 SIX1 SIX homeobox 1 2 2
MIRT638492 NNT nicotinamide nucleotide transhydrogenase 2 2
MIRT639400 NEURL1B neuralized E3 ubiquitin protein ligase 1B 2 2
MIRT641791 USP32 ubiquitin specific peptidase 32 2 2
MIRT642309 FPR1 formyl peptide receptor 1 2 2
MIRT645902 LRIF1 ligand dependent nuclear receptor interacting factor 1 2 2
MIRT649701 ZNF175 zinc finger protein 175 2 2
MIRT656848 KLF13 Kruppel like factor 13 2 2
MIRT659911 CACNG2 calcium voltage-gated channel auxiliary subunit gamma 2 2 2
MIRT667275 NAV1 neuron navigator 1 2 2
MIRT674145 ZNF793 zinc finger protein 793 2 2
MIRT692839 C1orf50 chromosome 1 open reading frame 50 2 2
MIRT698520 TFRC transferrin receptor 2 2
MIRT698731 STX6 syntaxin 6 2 4
MIRT700931 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT706080 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT710008 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT711059 UGT2B4 UDP glucuronosyltransferase family 2 member B4 2 2
MIRT711285 PSME3 proteasome activator subunit 3 2 2
MIRT716172 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT716761 TRABD2A TraB domain containing 2A 2 2
MIRT718683 FZD2 frizzled class receptor 2 2 2
MIRT719675 SPDYE1 speedy/RINGO cell cycle regulator family member E1 2 2
MIRT721610 PPP1CB protein phosphatase 1 catalytic subunit beta 2 2
MIRT722188 DNAJC9 DnaJ heat shock protein family (Hsp40) member C9 2 2
MIRT725156 SEC62 SEC62 homolog, preprotein translocation factor 2 2
MIRT725239 PDE1B phosphodiesterase 1B 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-2117 Ascorbate approved 54670067 Microarray Metastatic melanoma cell lines 25202679 2014 up-regualted
miR-2117 Ascorbate approved 54670067 Microarray Metastatic melanoma cell lines 25202679 2014 up-regualted
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-2117 Imatinib 5291 NSC743414 approved resistant High Chronic Myelogenous Leukemia cell line (K562)
hsa-miR-2117 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM16)
hsa-miR-2117 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM43)
hsa-miR-2117 Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM17)
hsa-miR-2117 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-2117 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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