miRTarBase - #MIRT164547


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pre-miRNA Information
pre-miRNA hsa-mir-3670-1   
Genomic Coordinates chr16: 14907717 - 14907781
Description Homo sapiens miR-3670-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-3670-2   
Genomic Coordinates chr16: 16306370 - 16306434
Description Homo sapiens miR-3670-2 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-3670-3   
Genomic Coordinates chr16: 18405698 - 18405762
Description Homo sapiens miR-3670-3 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-3670-4   
Genomic Coordinates chr16: 18488301 - 18488365
Description Homo sapiens miR-3670-4 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3670
Sequence 40| AGAGCUCACAGCUGUCCUUCUCUA |63
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol MSMO1   
Synonyms DESP4, ERG25, MCCPD, SC4MOL
Description methylsterol monooxygenase 1
Transcript NM_001017369   
Other Transcripts NM_006745   
Expression
Putative miRNA Targets on MSMO1
3'UTR of MSMO1
(miRNA target sites are highlighted)		 
>MSMO1|NM_001017369|3'UTR
   1 ATATCTCACGTAAACCTTCCTGAAAGATAAACGTTTTCCTGAATTCAGAAACTAGTAGCTAACATTGCTTCTGGAGAGCA
  81 GAAATAAGCATGTCTTCTGGCTACTAAGTGATAAAAAGAACATTAACAACCTTTAATTACCTTCCTAGTGGGAACTTTTT
 161 CTACTTTACCTACAAGTTCTATATATGTAGAAATGAATAAATATATATTTAAGTACAGTTTTCATGAGGAAGTTTTAAAA
 241 GACCATGTTCCTAAGCTTCCAAGAAGGTTTTGGATACTAGAAGTATTAATCTATGGCTTTTCTCCCAGTAAAACCATAGG
 321 CCTGAAGTTCACATTGGGTCTTTAAATCTTTTAGATATATACTGGTCATTTCAGAAAATTCTTCATAGTGGTATTGGCCT
 401 TATATTTAACTTTTTTTTTATTTTTTTTTTGAGACAAAGCCACACTCTGTCTCCTTGGCTGGAGTGTGGTGGCACAGTCT
 481 CAGCTCACTGCAACCTCTGCCTCCCAGTTCAAGCAATTCTTCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCACCC
 561 GCCACCACGCCCAGCTAATTTTTGTATTTTTGTAGAGATGGGGTTTCACGATGTTGGCCAGGCTGGTCTCAAACTTCTGA
 641 CCTCAAGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTAAGCCACTGCGCCCGGCCTTTTTAACTT
 721 TAAACATGTTTTAGAATTCACCTAAAGATCAAAATATCATGGATTGAACCTCATCAATTGATAGCAGTGAGTGACTGAAG
 801 CTTCCAAATCAAGAAAAGCCGGCACCAAGAACTTCCATTCTAATCTAGAGCTGACCAGTTTGAGCTGATTCTCTCTTTGA
 881 AGAGTCCTTCTTGATTGCAGTGCAGTACTGGCATTTCTGAATGGATGTAAGTGGAGTATTTTAGTCTAAAGGCTTTTCAA
 961 ATTACTTGAATTTTTTTAAAAATTGAGGAGCTTTATTTCTATTTACCCTTCCATTTTTGTATATCAAATTTCCATTGTCA
1041 TTAAAAACTGTATCTTGAAACTTTGTGAACTGACTTGCTGTATTTGCACTTTGAGCTCTTGAAATAAATGTGATTTTTGT
1121 GTGATTATCTGGTTTCCAGTTTTAAACATTAACTGTCACCTTTTATTCTTAAACTTGAAAGTACAGAAATCATTAAATTA
1201 TTAAGTTGTACAATAAAAAAAAAAAAAAA
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' aucucuuccUGUCGACACUCGAGa 5'
                   :|| || ||||||| 
Target 5' gctgtatttGCA-CTTTGAGCTCt 3'
 1077 - 1099 150.00 -13.20
2 
miRNA  3' auCUCUUCCUGUCGACACUCGAga 5'
            |||  |  |||:| ||||||  
Target 5' taGAGCTGACCAGTT-TGAGCTga 3'
 846 - 868 141.00 -15.40
3 
miRNA  3' auCUCUUCC-UGUCGACACUCGAGa 5'
            | |: || |||| | | ||||| 
Target 5' gtGTGGTGGCACAG-TCTCAGCTCa 3'
 464 - 487 129.00 -11.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM1052951 1 COSMIC
COSN30499576 33 COSMIC
COSN30102645 39 COSMIC
COSN32053031 52 COSMIC
COSN31533805 70 COSMIC
COSN5559994 166 COSMIC
COSN2004822 321 COSMIC
COSN29761907 431 COSMIC
COSN28312622 432 COSMIC
COSN6811457 505 COSMIC
COSN21582820 969 COSMIC
COSN7749604 992 COSMIC
COSN26640756 1012 COSMIC
COSN5055643 1012 COSMIC
COSN28697052 1022 COSMIC
COSN24841100 1215 COSMIC
rs1059214 363 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1301443493 1 dbSNP
rs760267717 2 dbSNP
rs763476688 5 dbSNP
rs777239386 10 dbSNP
rs375429656 11 dbSNP
rs765653453 17 dbSNP
rs923896030 18 dbSNP
rs934097500 20 dbSNP
rs1485454918 27 dbSNP
rs750790200 28 dbSNP
rs1235526195 30 dbSNP
rs1484078529 32 dbSNP
rs367627249 33 dbSNP
rs369384689 34 dbSNP
rs1437319143 35 dbSNP
rs751691594 49 dbSNP
rs1160002547 51 dbSNP
rs755135531 52 dbSNP
rs188630596 53 dbSNP
rs1166782075 57 dbSNP
rs1475426346 69 dbSNP
rs1425186411 79 dbSNP
rs1185642512 92 dbSNP
rs966172661 95 dbSNP
rs535009384 98 dbSNP
rs1212026493 105 dbSNP
rs889857735 114 dbSNP
rs1059209 116 dbSNP
rs1208080090 119 dbSNP
rs1031460944 131 dbSNP
rs957162005 144 dbSNP
rs568599589 153 dbSNP
rs915799575 159 dbSNP
rs1158543433 165 dbSNP
rs536348305 167 dbSNP
rs1485716619 173 dbSNP
rs1286287861 180 dbSNP
rs948097154 182 dbSNP
rs981163148 184 dbSNP
rs1327715744 185 dbSNP
rs899102674 187 dbSNP
rs1193505582 204 dbSNP
rs995123700 215 dbSNP
rs1474823750 225 dbSNP
rs1036571865 228 dbSNP
rs1025988709 229 dbSNP
rs1059210 243 dbSNP
rs1171615092 245 dbSNP
rs572230596 246 dbSNP
rs1205415502 248 dbSNP
rs776117098 252 dbSNP
rs1271345306 267 dbSNP
rs1213186209 278 dbSNP
rs930767138 280 dbSNP
rs959101321 289 dbSNP
rs576093257 291 dbSNP
rs990960783 305 dbSNP
rs1022396121 316 dbSNP
rs1222590341 317 dbSNP
rs1049356441 320 dbSNP
rs1280570231 322 dbSNP
rs1447059984 328 dbSNP
rs1059212 331 dbSNP
rs1007253027 334 dbSNP
rs1460424299 335 dbSNP
rs111300175 336 dbSNP
rs759756279 336 dbSNP
rs1166749309 339 dbSNP
rs1398895261 341 dbSNP
rs182946635 342 dbSNP
rs1177636535 344 dbSNP
rs1406962032 344 dbSNP
rs1441742413 346 dbSNP
rs978713268 358 dbSNP
rs1059214 363 dbSNP
rs145556797 364 dbSNP
rs1267304154 366 dbSNP
rs1031348061 381 dbSNP
rs986787104 394 dbSNP
rs1285358388 398 dbSNP
rs1242833871 403 dbSNP
rs868809758 404 dbSNP
rs1367627496 411 dbSNP
rs957214290 411 dbSNP
rs559491872 419 dbSNP
rs1344577368 420 dbSNP
rs529887234 420 dbSNP
rs112966439 421 dbSNP
rs1173172183 421 dbSNP
rs1433992671 421 dbSNP
rs200982185 422 dbSNP
rs1184902613 426 dbSNP
rs1038891098 428 dbSNP
rs1296096624 431 dbSNP
rs1485816210 432 dbSNP
rs1136537 437 dbSNP
rs1231538742 438 dbSNP
rs1280083821 445 dbSNP
rs756223527 445 dbSNP
rs980829640 448 dbSNP
rs1312479534 458 dbSNP
rs187290874 459 dbSNP
rs1347909856 467 dbSNP
rs927952449 472 dbSNP
rs1214497019 477 dbSNP
rs1401769402 478 dbSNP
rs1259458346 479 dbSNP
rs939329673 485 dbSNP
rs1466720195 492 dbSNP
rs1048149148 495 dbSNP
rs1168636712 496 dbSNP
rs1187460861 499 dbSNP
rs919314386 507 dbSNP
rs563405981 509 dbSNP
rs1003190372 520 dbSNP
rs1160213077 522 dbSNP
rs1485010480 525 dbSNP
rs1257254757 533 dbSNP
rs1452972371 537 dbSNP
rs1056027935 549 dbSNP
rs191745374 561 dbSNP
rs1011910449 562 dbSNP
rs1049243474 566 dbSNP
rs910837737 568 dbSNP
rs1157073508 569 dbSNP
rs552495541 570 dbSNP
rs113426622 573 dbSNP
rs1396347301 578 dbSNP
rs1455343995 578 dbSNP
rs564014126 580 dbSNP
rs1461685846 585 dbSNP
rs968653213 587 dbSNP
rs879801367 588 dbSNP
rs999695711 603 dbSNP
rs1142847 609 dbSNP
rs901513970 610 dbSNP
rs761538669 617 dbSNP
rs998449023 618 dbSNP
rs184535257 619 dbSNP
rs528772980 624 dbSNP
rs1222687951 630 dbSNP
rs1258133543 639 dbSNP
rs1200039532 641 dbSNP
rs1304309769 643 dbSNP
rs1272433952 646 dbSNP
rs547024736 651 dbSNP
rs1341983034 661 dbSNP
rs879531225 661 dbSNP
rs568646628 669 dbSNP
rs911189311 672 dbSNP
rs1217054127 675 dbSNP
rs1459895913 680 dbSNP
rs892868436 681 dbSNP
rs964133131 682 dbSNP
rs1273128854 685 dbSNP
rs536090786 694 dbSNP
rs1467384096 699 dbSNP
rs756167978 703 dbSNP
rs113230889 704 dbSNP
rs970040349 705 dbSNP
rs1253839707 706 dbSNP
rs1047542670 707 dbSNP
rs1035581322 708 dbSNP
rs961006210 709 dbSNP
rs1358468728 712 dbSNP
rs1258707579 718 dbSNP
rs773417862 719 dbSNP
rs1175550538 721 dbSNP
rs187873353 735 dbSNP
rs10517835 741 dbSNP
rs1056060365 745 dbSNP
rs894778243 749 dbSNP
rs1370259040 751 dbSNP
rs1324346637 764 dbSNP
rs1011858303 773 dbSNP
rs1043904902 774 dbSNP
rs1459649857 778 dbSNP
rs903582494 785 dbSNP
rs1000117378 787 dbSNP
rs1382561549 792 dbSNP
rs1160026469 800 dbSNP
rs1452251414 804 dbSNP
rs910710984 809 dbSNP
rs1031148147 811 dbSNP
rs1199003877 817 dbSNP
rs955612753 821 dbSNP
rs13918 822 dbSNP
rs1018530016 823 dbSNP
rs1287912449 828 dbSNP
rs1277418725 846 dbSNP
rs1374808009 854 dbSNP
rs1232348887 855 dbSNP
rs202184115 861 dbSNP
rs923523455 862 dbSNP
rs1223880777 863 dbSNP
rs140707692 864 dbSNP
rs1324797641 867 dbSNP
rs1318172537 868 dbSNP
rs1401161853 869 dbSNP
rs1362833689 872 dbSNP
rs1414944469 874 dbSNP
rs934350337 876 dbSNP
rs1333395429 877 dbSNP
rs1235509065 879 dbSNP
rs1274269004 881 dbSNP
rs1437615008 884 dbSNP
rs1370848227 886 dbSNP
rs547983661 887 dbSNP
rs566125644 887 dbSNP
rs1478138107 891 dbSNP
rs1234837322 919 dbSNP
rs1052706231 933 dbSNP
rs759993086 937 dbSNP
rs1208510774 941 dbSNP
rs1187363431 948 dbSNP
rs1442035141 951 dbSNP
rs892923096 962 dbSNP
rs1202403801 966 dbSNP
rs1219779130 971 dbSNP
rs1277715616 971 dbSNP
rs768019468 984 dbSNP
rs536712134 985 dbSNP
rs1474220203 990 dbSNP
rs763995058 994 dbSNP
rs11538066 996 dbSNP
rs746731939 997 dbSNP
rs974052302 1008 dbSNP
rs527254286 1014 dbSNP
rs1334325527 1019 dbSNP
rs8733 1022 dbSNP
rs1169418247 1026 dbSNP
rs1002684216 1038 dbSNP
rs1466043523 1042 dbSNP
rs117171059 1044 dbSNP
rs1185736692 1049 dbSNP
rs1472306668 1054 dbSNP
rs1237858514 1061 dbSNP
rs553023363 1065 dbSNP
rs1355954149 1080 dbSNP
rs1442268938 1083 dbSNP
rs538641752 1108 dbSNP
rs1257471371 1124 dbSNP
rs1199405830 1128 dbSNP
rs192168130 1130 dbSNP
rs1026314502 1134 dbSNP
rs951984366 1143 dbSNP
rs1380275755 1147 dbSNP
rs939277790 1149 dbSNP
rs1339086328 1155 dbSNP
rs185754029 1157 dbSNP
rs1330062280 1168 dbSNP
rs1465642993 1169 dbSNP
rs1275342851 1175 dbSNP
rs1017659852 1178 dbSNP
rs1308354218 1179 dbSNP
rs1210239488 1181 dbSNP
rs1164825274 1182 dbSNP
rs1255583297 1183 dbSNP
rs141064369 1185 dbSNP
rs1179531788 1189 dbSNP
rs1459093818 1201 dbSNP
rs1251229545 1212 dbSNP
rs1189913207 1214 dbSNP
rs1238009821 1215 dbSNP
rs1474940397 1216 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 6307.0
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 GSM714646. RNA binding protein: AGO2. Condition:mildMNase "PAR-CLIP data was present in GSM714647. RNA binding protein: AGO2. Condition:mildMNase ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' aucucuuccUGUCGACACUCGaga 5'
                   :|| || |||||   
Target 5' gcuguauuuGCA-CUUUGAGC--- 3'
 		14 - 33
Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM714646
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / mildMNase, repA
Location of target site ENST00000261507.6 | 3UTR | AAACUUUGUGAACUGACUUGCUGUAUUUGCACUUUGAGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM714647
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / mildMNase, repB
Location of target site ENST00000261507.6 | 3UTR | UGUGAACUGACUUGCUGUAUUUGCACUUUGAGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
40 hsa-miR-3670 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT094967 SEPT8 septin 8 2 17
MIRT115520 MAZ MYC associated zinc finger protein 2 2
MIRT164547 MSMO1 methylsterol monooxygenase 1 2 2
MIRT246182 TXNIP thioredoxin interacting protein 2 2
MIRT255139 SMYD1 SET and MYND domain containing 1 2 4
MIRT441534 TMEM185B transmembrane protein 185B 2 4
MIRT444547 UBE2D3 ubiquitin conjugating enzyme E2 D3 2 2
MIRT449681 CDR1 cerebellar degeneration related protein 1 2 2
MIRT450035 LEPROTL1 leptin receptor overlapping transcript like 1 2 2
MIRT466801 SUPT16H SPT16 homolog, facilitates chromatin remodeling subunit 2 2
MIRT468269 SFXN1 sideroflexin 1 2 2
MIRT470394 PPP1R16B protein phosphatase 1 regulatory subunit 16B 2 2
MIRT480056 CAND1 cullin associated and neddylation dissociated 1 2 2
MIRT480581 BUB3 BUB3, mitotic checkpoint protein 2 2
MIRT489189 KIF21B kinesin family member 21B 2 2
MIRT497178 ZBTB40 zinc finger and BTB domain containing 40 2 2
MIRT527654 CD300E CD300e molecule 2 2
MIRT529853 TMEM105 transmembrane protein 105 2 2
MIRT530037 SMC1A structural maintenance of chromosomes 1A 2 2
MIRT533264 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT534022 STXBP4 syntaxin binding protein 4 2 2
MIRT537345 FKBP15 FK506 binding protein 15 2 2
MIRT556604 LDOC1L retrotransposon Gag like 6 2 4
MIRT559945 TRMT112 tRNA methyltransferase subunit 11-2 2 2
MIRT569744 C2orf71 chromosome 2 open reading frame 71 2 2
MIRT570637 KLF13 Kruppel like factor 13 2 2
MIRT573064 TRIB1 tribbles pseudokinase 1 2 2
MIRT622727 PITPNM3 PITPNM family member 3 2 2
MIRT626726 TRIM65 tripartite motif containing 65 2 2
MIRT631824 TMEM154 transmembrane protein 154 2 2
MIRT638040 SHPK sedoheptulokinase 2 2
MIRT644096 SIAH3 siah E3 ubiquitin protein ligase family member 3 2 2
MIRT652233 TRAPPC3L trafficking protein particle complex 3 like 2 2
MIRT665387 WIZ widely interspaced zinc finger motifs 2 2
MIRT703560 FGFR1OP FGFR1 oncogene partner 2 2
MIRT713310 SNRNP25 small nuclear ribonucleoprotein U11/U12 subunit 25 2 2
MIRT717645 HLX H2.0 like homeobox 2 2
MIRT722259 POLQ DNA polymerase theta 2 2
MIRT723863 CD209 CD209 molecule 2 2
MIRT724656 PXDN peroxidasin 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3670 Cisplatin 5460033 NSC119875 approved sensitive cell line (CIS)
hsa-miR-3670 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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