miRTarBase - #MIRT693599


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pre-miRNA Information
pre-miRNA hsa-mir-3655   
Genomic Coordinates chr5: 140647844 - 140647926
Description Homo sapiens miR-3655 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3655
Sequence 1| GCUUGUCGCUGCGGUGUUGCU |21
Evidence Experimental
Experiments 454
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
1205148 20 ClinVar
COSN18432447 7 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs146400503 7 dbSNP
rs1211510736 8 dbSNP
rs1330079470 10 dbSNP
rs747265872 12 dbSNP
rs1450468780 13 dbSNP
rs749013145 14 dbSNP
rs770798087 18 dbSNP
rs139482464 20 dbSNP
rs1179617725 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol SLC39A1   
Synonyms ZIP1, ZIRTL
Description solute carrier family 39 member 1
Transcript NM_014437   
Expression
Putative miRNA Targets on SLC39A1
3'UTR of SLC39A1
(miRNA target sites are highlighted)		 
>SLC39A1|NM_014437|3'UTR
   1 GGGGCTTCAAGAGAGGGGCAGGGGAGATTGATGATCAGGTGCCCCTGTTCTCCCTTCCCTCCCCCAGTTGTGGGGAATAG
  81 GAAGGAAAGGGGAAGGGAAATACTGAGGACCAAAAAGTTCTCTGGGAGCTAAAGATAGAGCCTTTGGGGCTATCTGACTA
 161 ATGAGAGGGAAGTGGGCAGACAAGAGGCTGGCCCCAGTCCCAAGGAACAAGAGATGGTCAAGTCGCTAGAGACATATCAG
 241 GGGACATTAGGATTGGGGAAGACACTTGACTGCTAGAATCAGAGGTTGGACACTATACATAAGGACAGGCTCACATGGGA
 321 GGCTGGAGGTGGGTACCCAGCTGCTGTGGAACGGGTATGGACAGGTCATAAACCTAGAGTCAGTGTCCTGTTGGTCCTAG
 401 CCCATTTCAGCACCCTGCCACTTGGAGTGGACCCCTCCTACTCTTCTTAGCGCCTACCCTCATACCTATCTCCCTCCTCC
 481 CATCTCCTAGGGGACTGGCGCCAAATGGTCTCTCCCTGCCAATTTTGGTATCTTCTCTGGCCTCTCCAGTCCTGCTTACT
 561 CCTCTATTTTTAAAGTGCCAAACAAATCCCCTTCCTCTTTCTCAAAGCACAGTAATGTGGCACTGAGCCCTACCCAGCAC
 641 CTCAGTGAAGGGGGCCTGCTTGCTCTTTATTTTGGTCCCGGATCCTGGGGTGGGGCAGAAATATTTTCTGGGCTGGGGTA
 721 GGAGGAAGGTTGTTGCAGCCATCTACTGCTGCTGTACCCTAGGAATATGGGGACATGGACATGGTGTCCCATGCCCAGAT
 801 GATAAACACTGAGCTGCCAAAACATTTTTTTAAATACACCCGAGGAGCCCAAGGGGGAAGGGCAATGCCTACCCCCAGCG
 881 TTATTTTTGGGGAGGGAGGGCTGTGCATAGGGACATATTCTTTAGAATCTATTTTATTAACTGACCTGTTTTGGGACCTG
 961 TTACCCAAATAAAAGATGTTTCTAGACATCTGTACAGTAAA
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' ucguuguggcgucgCUGUUCg 5'
                        |||||| 
Target 5' gagggaagtgggcaGACAAGa 3'
 165 - 185 120.00 -11.60
2 
miRNA  3' ucGUUGUGGCGUC-GCUGUUcg 5'
            | |::|| ||| :||:||  
Target 5' tcCCATGCC-CAGATGATAAac 3'
 787 - 807 106.00 -9.00
3 
miRNA  3' ucgUUGUGGCGUCGCUGUUCg 5'
             |||:  |:|  ||||:| 
Target 5' tggAACG-GGTATGGACAGGt 3'
 347 - 366 105.00 -10.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN8643229 2 COSMIC
COSN30184055 18 COSMIC
COSN30460099 36 COSMIC
COSN26679378 42 COSMIC
COSN31598811 42 COSMIC
COSN31509891 48 COSMIC
COSN30453260 53 COSMIC
COSN30483420 57 COSMIC
COSN31500782 64 COSMIC
COSN30145192 78 COSMIC
COSN30185154 90 COSMIC
COSN30136658 120 COSMIC
COSN31489030 134 COSMIC
COSN28680819 362 COSMIC
COSN31588327 430 COSMIC
COSN31488468 625 COSMIC
COSN30176768 643 COSMIC
COSN30360142 708 COSMIC
COSN26587051 757 COSMIC
COSN17182072 796 COSMIC
COSN31543443 813 COSMIC
COSN26668050 908 COSMIC
COSN31589651 914 COSMIC
COSN30542601 929 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs776943451 1 dbSNP
rs1396963609 8 dbSNP
rs769177716 10 dbSNP
rs780170736 16 dbSNP
rs747461078 17 dbSNP
rs1428017040 18 dbSNP
rs368904443 21 dbSNP
rs771633038 22 dbSNP
rs745368076 28 dbSNP
rs758343151 36 dbSNP
rs749962713 38 dbSNP
rs1388837235 40 dbSNP
rs778475583 43 dbSNP
rs756901813 46 dbSNP
rs781391340 47 dbSNP
rs1323661043 54 dbSNP
rs1290508383 58 dbSNP
rs749859061 59 dbSNP
rs201892160 62 dbSNP
rs1260016814 74 dbSNP
rs777878577 75 dbSNP
rs199577325 104 dbSNP
rs1266474162 108 dbSNP
rs1396923960 120 dbSNP
rs1420129892 124 dbSNP
rs1379420182 125 dbSNP
rs1182442482 126 dbSNP
rs758321658 135 dbSNP
rs1023871125 141 dbSNP
rs1478978707 142 dbSNP
rs548112156 161 dbSNP
rs1162277095 171 dbSNP
rs1365327420 177 dbSNP
rs895472564 181 dbSNP
rs1490205040 185 dbSNP
rs145264223 200 dbSNP
rs1371477374 203 dbSNP
rs1390847149 215 dbSNP
rs562484253 219 dbSNP
rs112657271 224 dbSNP
rs942764142 225 dbSNP
rs888541160 228 dbSNP
rs572809435 233 dbSNP
rs6413528 233 dbSNP
rs1205622998 236 dbSNP
rs191678589 237 dbSNP
rs992745950 238 dbSNP
rs1222368621 240 dbSNP
rs1347760250 245 dbSNP
rs1256215161 247 dbSNP
rs374697465 251 dbSNP
rs562380176 253 dbSNP
rs947184556 258 dbSNP
rs751746281 263 dbSNP
rs910408909 265 dbSNP
rs1385166742 267 dbSNP
rs985997859 274 dbSNP
rs1430739774 278 dbSNP
rs756712927 285 dbSNP
rs1173020828 292 dbSNP
rs1352943034 298 dbSNP
rs187279933 299 dbSNP
rs6413529 304 dbSNP
rs546051587 310 dbSNP
rs1299696384 314 dbSNP
rs183598634 320 dbSNP
rs6413530 324 dbSNP
rs117139030 325 dbSNP
rs968474061 329 dbSNP
rs972000301 338 dbSNP
rs374770953 344 dbSNP
rs1228814380 348 dbSNP
rs117794427 352 dbSNP
rs6413531 359 dbSNP
rs6724 362 dbSNP
rs556335883 365 dbSNP
rs998407187 373 dbSNP
rs192977788 383 dbSNP
rs1450673593 388 dbSNP
rs1023840115 397 dbSNP
rs1195878692 400 dbSNP
rs752990141 404 dbSNP
rs1478278843 405 dbSNP
rs1176972459 419 dbSNP
rs1018244066 420 dbSNP
rs1468251135 427 dbSNP
rs1336195913 428 dbSNP
rs1013840656 430 dbSNP
rs1214179411 434 dbSNP
rs1007318782 440 dbSNP
rs1444477675 449 dbSNP
rs1213779529 451 dbSNP
rs1301467050 456 dbSNP
rs888519796 457 dbSNP
rs1048498362 458 dbSNP
rs896697970 463 dbSNP
rs1261936059 466 dbSNP
rs1280009997 468 dbSNP
rs749893614 473 dbSNP
rs1240866306 481 dbSNP
rs189037201 485 dbSNP
rs761053754 487 dbSNP
rs1031263882 489 dbSNP
rs1431665379 492 dbSNP
rs1479560235 498 dbSNP
rs75940909 499 dbSNP
rs762360606 500 dbSNP
rs1043180109 512 dbSNP
rs1218646327 519 dbSNP
rs1320130467 520 dbSNP
rs1360838445 521 dbSNP
rs1011353613 522 dbSNP
rs1386914918 528 dbSNP
rs1255044772 530 dbSNP
rs938584031 532 dbSNP
rs1402699629 541 dbSNP
rs1335796429 542 dbSNP
rs927221412 545 dbSNP
rs1225032545 547 dbSNP
rs888941337 552 dbSNP
rs979773561 554 dbSNP
rs947070164 559 dbSNP
rs1316887928 566 dbSNP
rs1050261327 587 dbSNP
rs376321142 595 dbSNP
rs933158717 596 dbSNP
rs534057225 598 dbSNP
rs1489966012 601 dbSNP
rs1468191601 602 dbSNP
rs1036295713 608 dbSNP
rs940664656 617 dbSNP
rs1156948974 621 dbSNP
rs909239848 622 dbSNP
rs1405660088 624 dbSNP
rs566819817 626 dbSNP
rs1410601624 631 dbSNP
rs1164153542 640 dbSNP
rs1367139220 645 dbSNP
rs774636294 651 dbSNP
rs1419149851 652 dbSNP
rs1184979002 653 dbSNP
rs1474000527 654 dbSNP
rs1336037973 657 dbSNP
rs764516192 658 dbSNP
rs554740295 662 dbSNP
rs183642450 668 dbSNP
rs1372012266 677 dbSNP
rs992291282 679 dbSNP
rs1294593448 680 dbSNP
rs960875753 688 dbSNP
rs988598359 690 dbSNP
rs1460382915 703 dbSNP
rs1260472620 712 dbSNP
rs1275592119 725 dbSNP
rs763346230 736 dbSNP
rs1179962439 738 dbSNP
rs74321826 739 dbSNP
rs967434056 749 dbSNP
rs1021324875 756 dbSNP
rs1275514974 763 dbSNP
rs1184050523 774 dbSNP
rs977335196 777 dbSNP
rs1442525906 782 dbSNP
rs1162742943 788 dbSNP
rs1396990415 801 dbSNP
rs1011739501 807 dbSNP
rs1411250857 812 dbSNP
rs374637493 813 dbSNP
rs1018973580 814 dbSNP
rs1050142965 816 dbSNP
rs1317761121 821 dbSNP
rs997276298 831 dbSNP
rs1006886673 832 dbSNP
rs952756019 837 dbSNP
rs1271093875 839 dbSNP
rs901704315 842 dbSNP
rs1194236725 844 dbSNP
rs753375819 847 dbSNP
rs1036671629 852 dbSNP
rs550375339 854 dbSNP
rs1450111010 863 dbSNP
rs1461819861 864 dbSNP
rs775871983 868 dbSNP
rs1205708961 870 dbSNP
rs994179023 887 dbSNP
rs940649376 892 dbSNP
rs41310879 894 dbSNP
rs7704 895 dbSNP
rs1476274069 902 dbSNP
rs948041149 907 dbSNP
rs1044740896 909 dbSNP
rs533947905 912 dbSNP
rs1469846399 918 dbSNP
rs1338179097 930 dbSNP
rs771958591 931 dbSNP
rs1407313485 940 dbSNP
rs748108478 945 dbSNP
rs1225776830 955 dbSNP
rs1269809126 957 dbSNP
rs1324590732 978 dbSNP
rs1225617564 986 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 GSM1048187. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_control ...

- Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al., 2013, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ucguuguggcgucgCUGUUCg 5'
                        |||||| 
Target 5' gagggaagugggcaGACAAGa 3'
 		5 - 25
Article - Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al.
- Cell, 2013
The induction of pluripotency or trans-differentiation of one cell type to another can be accomplished with cell-lineage-specific transcription factors. Here, we report that repression of a single RNA binding polypyrimidine-tract-binding (PTB) protein, which occurs during normal brain development via the action of miR-124, is sufficient to induce trans-differentiation of fibroblasts into functional neurons. Besides its traditional role in regulated splicing, we show that PTB has a previously undocumented function in the regulation of microRNA functions, suppressing or enhancing microRNA targeting by competitive binding on target mRNA or altering local RNA secondary structure. A key event during neuronal induction is the relief of PTB-mediated blockage of microRNA action on multiple components of the REST complex, thereby derepressing a large array of neuronal genes, including miR-124 and multiple neuronal-specific transcription factors, in nonneuronal cells. This converts a negative feedback loop to a positive one to elicit cellular reprogramming to the neuronal lineage.
LinkOut: [PMID: 23313552]
CLIP-seq Support 1 for dataset GSM4903826
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID21_NS
Location of target site NM_014437 | 3UTR | AAUGAGAGGGAAGUGGGCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1048187
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Hela / Hela_AGO2_CLIP_control
Location of target site ENST00000356205.4 | 3UTR | AUGAGAGGGAAGUGGGCAGACAAGAGGCUGGCCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23313552 / GSE42701
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
LUSC -0.745 0.01 -0.700 0.02 9 Click to see details
KIRC -0.998 0.02 -1.000 0.5 3 Click to see details
STAD -0.992 0.04 -1.000 0.5 3 Click to see details
BRCA -0.758 0.12 -0.400 0.3 4 Click to see details
THCA -0.242 0.17 -0.147 0.29 17 Click to see details
LIHC 0.554 0.31 0.500 0.33 3 Click to see details
KICH 0.29 0.36 -0.400 0.3 4 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
CHOL 0.234 0.42 -0.500 0.33 3 Click to see details
32 hsa-miR-3655 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT446335 ATP5C1 ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 2 2
MIRT476874 FEM1B fem-1 homolog B 2 2
MIRT500976 SPPL2A signal peptide peptidase like 2A 2 4
MIRT558681 CNEP1R1 CTD nuclear envelope phosphatase 1 regulatory subunit 1 2 2
MIRT617898 PTCHD3 patched domain containing 3 2 2
MIRT620111 HARBI1 harbinger transposase derived 1 2 2
MIRT620647 CXCL5 C-X-C motif chemokine ligand 5 2 2
MIRT630797 FAM46A family with sequence similarity 46 member A 2 2
MIRT632226 WDR37 WD repeat domain 37 2 2
MIRT638561 KCNJ10 potassium voltage-gated channel subfamily J member 10 2 2
MIRT639110 MMAB methylmalonic aciduria (cobalamin deficiency) cblB type 2 2
MIRT640352 C1orf210 chromosome 1 open reading frame 210 2 2
MIRT642520 CNTROB centrobin, centriole duplication and spindle assembly protein 2 2
MIRT642646 PTGR2 prostaglandin reductase 2 2 2
MIRT643505 ZNF28 zinc finger protein 28 2 2
MIRT645690 TBC1D13 TBC1 domain family member 13 2 2
MIRT645936 HIPK1 homeodomain interacting protein kinase 1 2 2
MIRT647643 FAIM2 Fas apoptotic inhibitory molecule 2 2 2
MIRT648513 PIGG phosphatidylinositol glycan anchor biosynthesis class G 2 2
MIRT649163 IQSEC1 IQ motif and Sec7 domain 1 2 2
MIRT651442 XKR4 XK related 4 2 2
MIRT654151 RPAP2 RNA polymerase II associated protein 2 2 2
MIRT657780 GLIS3 GLIS family zinc finger 3 2 2
MIRT661242 ARL17B ADP ribosylation factor like GTPase 17B 2 2
MIRT664082 METTL2B methyltransferase like 2B 2 2
MIRT671672 HEYL hes related family bHLH transcription factor with YRPW motif-like 2 2
MIRT672199 F2 coagulation factor II, thrombin 2 2
MIRT693599 SLC39A1 solute carrier family 39 member 1 2 2
MIRT714567 GALNT10 polypeptide N-acetylgalactosaminyltransferase 10 2 2
MIRT721589 LRRC2 leucine rich repeat containing 2 2 2
MIRT722888 MOB3A MOB kinase activator 3A 2 2
MIRT724762 PSG4 pregnancy specific beta-1-glycoprotein 4 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3655 Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-miR-3655 Palbociclib 5330286 NSC758247 approved sensitive tissue (breast cancer)
hsa-miR-3655 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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