miRTarBase - #MIRT528540


—
pre-miRNA Information
pre-miRNA hsa-mir-4650-1   
Genomic Coordinates chr7: 67114322 - 67114397
Description Homo sapiens miR-4650-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4650-2   
Genomic Coordinates chr7: 72697903 - 72697978
Description Homo sapiens miR-4650-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4650-5p
Sequence 15| UCAGGCCUCUUUCUACCUU |33
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1332063492 8 dbSNP
rs914649075 9 dbSNP
rs1452034829 10 dbSNP
rs1489220537 15 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol TTC22   
Synonyms -
Description tetratricopeptide repeat domain 22
Transcript NM_017904   
Other Transcripts NM_001114108   
Expression
Putative miRNA Targets on TTC22
3'UTR of TTC22
(miRNA target sites are highlighted)		 
>TTC22|NM_017904|3'UTR
   1 GCCACTACACCCAGCCCTGTAAGGTTTTTGAGTGAAAGAATGCAGGAGCCTCCACTCACTGCAGGAATCCCTTCTACAAT
  81 TCCTGGTCAGTGAGCCCCCAGCCTCTTCTGGATTGGCACGGGTGGAATCAGACTGACCAGAGTTGAAATCTGGCTTCTCC
 161 GCCTTGTGGAACTTGCAGCAAGCCACTTACCCCCACAAACTTCAGTTCCCAAATCTGTAAGATATAAATAACAACACTTT
 241 CCTTAAAATGTTGTCAACAGACACAGTGAGGTAGCATCTAAAGCACAGTGCCTTGGACATAGGGGGTGCTTTTCTGAAAG
 321 CCAGTAGAGGTCATTTAATATAGTGGATCAGAGCTCTGGCTCTGAACACAGACAGCCTTGGTTCAAATCCCACAACACCA
 401 CGTGCTACGGGACCTTTGGCAAAATACTCTTGCCCAGATTCTGAGCCTCAATTTCTTTATCTGTAGACTGGAGTTGTTAT
 481 GAGAATTACATTAGATTTTGTATGTAAAACTCAGCATCAAGCACACAGTAAGATTTCATAAGAGACTGACTGCTACTAAT
 561 TTAATATTAGGCATATTTTTGAATTATCTCACTGTCTCTTGATGCAGTCCACTGCATAGTCATTCAGCTCTGCAAGTTAC
 641 ACACTTAGGTGAGTTCTGCCTCCTGCTAGCTTCCCGCACTGGTCCCAGACCTGCCTCCTAGAGCCCACACAGAGCCCATG
 721 TGCTTGAGGAAGCCGACTCGGAGCTCCCAGTTTACTTCACTGCAAGCCGAAGAGTCCTCCCATCCCCTCATCTTCTCCAC
 801 TACTATCCACATGACCTAGTGGCAAATCTACTCCCAGTCTTGGTCTCAGTGGCTTAATTACTTTGCCAGCAGGTACGAGG
 881 CAGGAGTGAAATTCCTTCACTGTCGTGGATGTGGTTATTATTCTAGATAATAATGACATTAACCATAATAGTAAATAATA
 961 AAATATCTCTATAAAATTCTGCATTTCATCAAGCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' uucCAUCU-UUCUCCGGACu 5'
             ||:||  |||| :||| 
Target 5' ataGTGGATCAGAGCTCTGg 3'
 340 - 359 112.00 -14.70
2 
miRNA  3' uuccAUCUUUCUCCGGACu 5'
              || |   || |||| 
Target 5' ccacTACACCCAGCCCTGt 3'
 2 - 20 111.00 -5.60
3 
miRNA  3' uuccaucuuucUCCGGACu 5'
                     || |||| 
Target 5' gcactggtcccAGACCTGc 3'
 676 - 694 108.00 -8.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30538806 24 COSMIC
COSN26584488 46 COSMIC
COSN30543762 70 COSMIC
COSN23755450 159 COSMIC
COSN23882266 384 COSMIC
COSN26638437 660 COSMIC
COSN28840225 675 COSMIC
COSN26601973 694 COSMIC
COSN18184102 705 COSMIC
COSN26566395 710 COSMIC
COSN23014394 740 COSMIC
COSN30513006 760 COSMIC
COSN15626837 769 COSMIC
COSN30533424 780 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1050113399 2 dbSNP
rs931177537 4 dbSNP
rs1412515985 15 dbSNP
rs530138984 17 dbSNP
rs781100937 25 dbSNP
rs1230767117 30 dbSNP
rs1196016644 33 dbSNP
rs1182498874 34 dbSNP
rs771021285 38 dbSNP
rs982115548 50 dbSNP
rs961340709 55 dbSNP
rs908661115 59 dbSNP
rs919774414 61 dbSNP
rs1036896801 62 dbSNP
rs939819371 64 dbSNP
rs952788326 65 dbSNP
rs1409437895 66 dbSNP
rs777340542 76 dbSNP
rs1352658803 83 dbSNP
rs1174882453 85 dbSNP
rs75262342 86 dbSNP
rs1230583330 97 dbSNP
rs1251258196 105 dbSNP
rs1270238838 116 dbSNP
rs1306484652 119 dbSNP
rs544603972 120 dbSNP
rs1253541443 133 dbSNP
rs926270285 140 dbSNP
rs1486335299 143 dbSNP
rs1237890065 145 dbSNP
rs1473718290 150 dbSNP
rs1166154933 151 dbSNP
rs998553093 155 dbSNP
rs979672580 159 dbSNP
rs117767003 160 dbSNP
rs1314973366 161 dbSNP
rs1021148654 172 dbSNP
rs761746303 174 dbSNP
rs758182645 176 dbSNP
rs1349387511 177 dbSNP
rs1268993507 182 dbSNP
rs1300649476 183 dbSNP
rs988290869 190 dbSNP
rs1228503047 191 dbSNP
rs1362226356 192 dbSNP
rs1290940092 194 dbSNP
rs1279060294 196 dbSNP
rs1056065642 197 dbSNP
rs938524975 211 dbSNP
rs1190861038 215 dbSNP
rs966234211 223 dbSNP
rs1019481483 225 dbSNP
rs1036224009 226 dbSNP
rs940583404 237 dbSNP
rs1172284598 248 dbSNP
rs908552999 249 dbSNP
rs1416533025 251 dbSNP
rs1360365795 253 dbSNP
rs1316775158 258 dbSNP
rs1007605895 288 dbSNP
rs931423865 291 dbSNP
rs1299138644 300 dbSNP
rs559201293 303 dbSNP
rs1027632099 305 dbSNP
rs921356585 332 dbSNP
rs1267368381 339 dbSNP
rs1465277631 350 dbSNP
rs976010792 354 dbSNP
rs1210564486 359 dbSNP
rs111750868 363 dbSNP
rs192961777 364 dbSNP
rs1198358026 368 dbSNP
rs1378430083 377 dbSNP
rs1479187082 382 dbSNP
rs1157215003 384 dbSNP
rs995434519 395 dbSNP
rs2286201 396 dbSNP
rs759486558 398 dbSNP
rs1036949381 401 dbSNP
rs144873316 402 dbSNP
rs1421903207 408 dbSNP
rs535912632 409 dbSNP
rs1357098218 413 dbSNP
rs1329695739 421 dbSNP
rs1011231062 422 dbSNP
rs1056619425 430 dbSNP
rs1487509245 453 dbSNP
rs187266471 455 dbSNP
rs1209350898 471 dbSNP
rs753851967 472 dbSNP
rs1034082689 473 dbSNP
rs926296506 477 dbSNP
rs1411672750 480 dbSNP
rs1003146760 481 dbSNP
rs1161914652 487 dbSNP
rs182923732 489 dbSNP
rs1456922344 493 dbSNP
rs76715802 503 dbSNP
rs1211441631 504 dbSNP
rs1389321018 510 dbSNP
rs1307090795 512 dbSNP
rs1350823162 515 dbSNP
rs940619661 520 dbSNP
rs946366977 525 dbSNP
rs1321071637 531 dbSNP
rs2286202 535 dbSNP
rs571497085 549 dbSNP
rs1048915208 550 dbSNP
rs551612779 551 dbSNP
rs372547961 555 dbSNP
rs1297267610 556 dbSNP
rs745818326 572 dbSNP
rs966618742 581 dbSNP
rs1212483280 587 dbSNP
rs1251364661 596 dbSNP
rs1483561973 598 dbSNP
rs1184810781 601 dbSNP
rs931313824 615 dbSNP
rs1423715312 617 dbSNP
rs1019071101 620 dbSNP
rs1205748787 622 dbSNP
rs528278842 625 dbSNP
rs1369683302 629 dbSNP
rs1233414092 633 dbSNP
rs975538829 642 dbSNP
rs1276357226 644 dbSNP
rs944082258 646 dbSNP
rs777431423 648 dbSNP
rs1346474746 649 dbSNP
rs1180762007 653 dbSNP
rs912735515 654 dbSNP
rs953458007 656 dbSNP
rs977549813 667 dbSNP
rs1396523759 669 dbSNP
rs757915562 675 dbSNP
rs1278666747 676 dbSNP
rs1442679362 679 dbSNP
rs1342272650 687 dbSNP
rs1356446644 690 dbSNP
rs1311326059 694 dbSNP
rs1434381267 697 dbSNP
rs1021873554 701 dbSNP
rs1274126232 703 dbSNP
rs1343105228 705 dbSNP
rs778485777 710 dbSNP
rs774118482 712 dbSNP
rs1417852072 718 dbSNP
rs990244428 718 dbSNP
rs994880556 719 dbSNP
rs1182894241 723 dbSNP
rs565839685 729 dbSNP
rs547132186 735 dbSNP
rs958384798 737 dbSNP
rs111350490 739 dbSNP
rs78948067 740 dbSNP
rs1056272629 741 dbSNP
rs772220402 755 dbSNP
rs767829389 760 dbSNP
rs536955715 768 dbSNP
rs1314995102 769 dbSNP
rs757897605 772 dbSNP
rs1224092138 775 dbSNP
rs1434337694 781 dbSNP
rs904973851 782 dbSNP
rs1352064381 785 dbSNP
rs756907259 797 dbSNP
rs1414386421 800 dbSNP
rs762231672 801 dbSNP
rs1043451127 820 dbSNP
rs1304594266 825 dbSNP
rs1408592130 831 dbSNP
rs946417728 837 dbSNP
rs1451742997 839 dbSNP
rs1258237199 842 dbSNP
rs1463917952 846 dbSNP
rs1345070265 847 dbSNP
rs1471482050 848 dbSNP
rs149873616 850 dbSNP
rs1450808098 859 dbSNP
rs1052639336 865 dbSNP
rs774912655 873 dbSNP
rs1392534321 876 dbSNP
rs944952795 877 dbSNP
rs912059296 886 dbSNP
rs1177938204 893 dbSNP
rs1296551506 894 dbSNP
rs887715791 895 dbSNP
rs1048960304 901 dbSNP
rs1395506330 904 dbSNP
rs769226478 905 dbSNP
rs1367199566 914 dbSNP
rs1220085207 928 dbSNP
rs1303821648 935 dbSNP
rs986343674 937 dbSNP
rs1327608756 938 dbSNP
rs748942370 951 dbSNP
rs1462813505 957 dbSNP
rs1465827367 961 dbSNP
rs1218767217 967 dbSNP
rs1245669600 967 dbSNP
rs899852656 988 dbSNP
rs1192630455 992 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 55001.0
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uuccaucuuucUCCGGACu 5'
                     ||||||| 
Target 5' -----------AGGCCUGg 3'
 		1 - 8
Article - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al.
- Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
CLIP-seq Support 1 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000371276.4 | 3UTR | AGGCCUGGCUAAUUUUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22012620 / SRX103431
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-4650-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT064263 KIAA1804 mitogen-activated protein kinase kinase kinase 21 2 2
MIRT082508 CALM3 calmodulin 3 2 10
MIRT456061 SLC25A28 solute carrier family 25 member 28 2 2
MIRT463521 ZBTB7B zinc finger and BTB domain containing 7B 2 2
MIRT465449 TP53 tumor protein p53 2 2
MIRT469517 RBFOX2 RNA binding protein, fox-1 homolog 2 2 8
MIRT470967 PKM pyruvate kinase, muscle 2 2
MIRT471902 NUAK2 NUAK family kinase 2 2 2
MIRT479924 CBX5 chromobox 5 2 2
MIRT483045 C15orf52 chromosome 15 open reading frame 52 2 13
MIRT493184 MKNK2 MAP kinase interacting serine/threonine kinase 2 2 2
MIRT496615 IKZF2 IKAROS family zinc finger 2 2 2
MIRT496980 DNAJC27 DnaJ heat shock protein family (Hsp40) member C27 2 2
MIRT522489 MFSD9 major facilitator superfamily domain containing 9 2 2
MIRT527859 SMOC1 SPARC related modular calcium binding 1 2 2
MIRT528540 TTC22 tetratricopeptide repeat domain 22 2 2
MIRT528860 PKP1 plakophilin 1 2 2
MIRT529389 NSFL1C NSFL1 cofactor 2 2
MIRT533523 TRIM13 tripartite motif containing 13 2 2
MIRT538056 DNAH3 dynein axonemal heavy chain 3 2 2
MIRT541480 ARF3 ADP ribosylation factor 3 2 6
MIRT576737 Wars tryptophanyl-tRNA synthetase 2 2
MIRT610462 SYNPO2L synaptopodin 2 like 2 4
MIRT614189 GGT7 gamma-glutamyltransferase 7 2 2
MIRT626341 PCSK7 proprotein convertase subtilisin/kexin type 7 2 2
MIRT627547 SNIP1 Smad nuclear interacting protein 1 2 2
MIRT628605 TMEM251 transmembrane protein 251 2 2
MIRT630827 YTHDC1 YTH domain containing 1 2 4
MIRT633419 TMEM120B transmembrane protein 120B 2 2
MIRT635354 CSMD2 CUB and Sushi multiple domains 2 2 2
MIRT636418 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT637031 SPTLC3 serine palmitoyltransferase long chain base subunit 3 2 2
MIRT638032 TMEM109 transmembrane protein 109 2 2
MIRT642847 ZBTB7C zinc finger and BTB domain containing 7C 2 2
MIRT644389 CD59 CD59 molecule (CD59 blood group) 2 2
MIRT645167 NOL9 nucleolar protein 9 2 2
MIRT645601 MRPS15 mitochondrial ribosomal protein S15 2 2
MIRT649169 IQSEC1 IQ motif and Sec7 domain 1 2 2
MIRT659166 DCTN5 dynactin subunit 5 2 4
MIRT660814 AHCY adenosylhomocysteinase 2 2
MIRT663640 HM13 histocompatibility minor 13 2 2
MIRT663848 TRIM72 tripartite motif containing 72 2 2
MIRT666535 RNF157 ring finger protein 157 2 2
MIRT667885 IP6K1 inositol hexakisphosphate kinase 1 2 2
MIRT671613 C6orf25 megakaryocyte and platelet inhibitory receptor G6b 2 2
MIRT673800 MALL mal, T-cell differentiation protein like 2 2
MIRT676281 ZNF260 zinc finger protein 260 2 2
MIRT687008 RPL35 ribosomal protein L35 2 2
MIRT689090 ACVR1 activin A receptor type 1 2 2
MIRT689259 WDR83OS WD repeat domain 83 opposite strand 2 2
MIRT697458 ZC3H4 zinc finger CCCH-type containing 4 2 2
MIRT699223 SLCO3A1 solute carrier organic anion transporter family member 3A1 2 2
MIRT710222 JMJD4 jumonji domain containing 4 2 2
MIRT710935 ING5 inhibitor of growth family member 5 2 2
MIRT715830 ZNF598 zinc finger protein 598 2 2
MIRT716134 THOC5 THO complex 5 2 2
MIRT717518 HRNR hornerin 2 2
MIRT717918 LRRC15 leucine rich repeat containing 15 2 2
MIRT718307 XPOT exportin for tRNA 2 2
MIRT721350 LIF LIF, interleukin 6 family cytokine 2 2
MIRT724503 MSMO1 methylsterol monooxygenase 1 2 2
MIRT724993 FSTL3 follistatin like 3 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4650 Gemcitabine 60750 NSC613327 approved resistant Low Pancreatic Cancer cell line (SW1990)
hsa-miR-4650 Gemcitabine 60750 NSC613327 approved sensitive High Pancreatic Cancer cell line (SW1990)
hsa-miR-4650-5p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-4650-5p Tripterygium wilfordii Hook F resistant tissue

Error report submission