miRTarBase - #MIRT094805


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pre-miRNA Information
pre-miRNA hsa-mir-3123   
Genomic Coordinates chr1: 241132272 - 241132346
Description Homo sapiens miR-3123 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3123
Sequence 49| CAGAGAAUUGUUUAAUC |65
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 4 1 + 241132323 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1453759221 1 dbSNP
rs968575171 5 dbSNP
rs979407933 9 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol LMNB1   
Synonyms ADLD, LMN, LMN2, LMNB
Description lamin B1
Transcript NM_005573   
Expression
Putative miRNA Targets on LMNB1
3'UTR of LMNB1
(miRNA target sites are highlighted)		 
>LMNB1|NM_005573|3'UTR
   1 AATTTTCAACTGTCTTCCTCAAAATAAAGAAGTATGGTAATCTTTACCTGTATACAGTGCAGAGCCTTCTCAGAAGCACA
  81 GAATATTTTTATATTTCCTTTATGTGAATTTTTAAGCTGCAAATCTGATGGCCTTAATTTCCTTTTTGACACTGAAAGTT
 161 TTGTAAAAGAAATCATGTCCATACACTTTGTTGCAAGATGTGAATTATTGACACTGAACTTAATAACTGTGTACTGTTCG
 241 GAAGGGGTTCCTCAAATTTTTTGACTTTTTTTGTATGTGTGTTTTTTCTTTTTTTTTAAGTTCTTATGAGGAGGGGAGGG
 321 TAAATAAACCACTGTGCGTCTTGGTGTAATTTGAAGATTGCCCCATCTAGACTAGCAATCTCTTCATTATTCTCTGCTAT
 401 ATATAAAACGGTGCTGTGAGGGAGGGGAAAAGCATTTTTCAATATATTGAACTTTTGTACTGAATTTTTTTGTAATAAGC
 481 AATCAAGGTTATAATTTTTTTTAAAATAGAAATTTTGTAAGAAGGCAATATTAACCTAATCACCATGTAAGCACTCTGGA
 561 TGATGGATTCCACAAAACTTGGTTTTATGGTTACTTCTTCTCTTAGATTCTTAATTCATGAGGAGGGTGGGGGAGGGAGG
 641 TGGAGGGAGGGAAGGGTTTCTCTATTAAAATGCATTCGTTGTGTTTTTTAAGATAGTGTAACTTGCTTAAATTTCTTATG
 721 TGACATTAACAAATAAAAAAGCTCTTTTAATATTGAAAAAAAAAAAAAAAAAA
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' cuaauuUGUUAAGAGAc 5'
                |: ||||||| 
Target 5' ctcttcATTATTCTCTg 3'
 380 - 396 143.00 -9.40
2 
miRNA  3' cuaauuuguuAAGAGAc 5'
                    |||||| 
Target 5' tggttacttcTTCTCTt 3'
 588 - 604 120.00 -5.10
3 
miRNA  3' cuaauuuguuAAGAGAc 5'
                    |||||| 
Target 5' agggaagggtTTCTCTa 3'
 648 - 664 120.00 -5.10
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
350621 16 ClinVar
66612 19 ClinVar
350622 44 ClinVar
905851 55 ClinVar
905852 190 ClinVar
350623 240 ClinVar
905853 271 ClinVar
905854 285 ClinVar
906362 302 ClinVar
350624 504 ClinVar
350625 519 ClinVar
350626 630 ClinVar
350627 630 ClinVar
906363 632 ClinVar
906364 635 ClinVar
906365 641 ClinVar
350628 692 ClinVar
COSN30470623 8 COSMIC
COSN26982648 19 COSMIC
COSN30710254 29 COSMIC
COSN31614139 39 COSMIC
COSN31533503 49 COSMIC
COSN30449176 70 COSMIC
COSN30480900 99 COSMIC
COSN31594302 148 COSMIC
COSN20075346 196 COSMIC
COSN31558292 197 COSMIC
COSN23016532 240 COSMIC
COSN28492045 298 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs370047429 4 dbSNP
rs1362182644 8 dbSNP
rs556613663 10 dbSNP
rs776936623 12 dbSNP
rs1410466764 15 dbSNP
rs745952572 15 dbSNP
rs140296800 16 dbSNP
rs2230151 19 dbSNP
rs769939892 27 dbSNP
rs1049677529 33 dbSNP
rs1175520211 34 dbSNP
rs752623626 35 dbSNP
rs1446320905 37 dbSNP
rs1164171726 41 dbSNP
rs1313788032 42 dbSNP
rs1051643 44 dbSNP
rs1403410277 46 dbSNP
rs1172344637 48 dbSNP
rs999965925 49 dbSNP
rs370551700 55 dbSNP
rs1217766714 69 dbSNP
rs183599772 104 dbSNP
rs1284470110 119 dbSNP
rs893757220 120 dbSNP
rs1012303389 121 dbSNP
rs1023645703 123 dbSNP
rs111918274 129 dbSNP
rs1485892445 131 dbSNP
rs1003311910 132 dbSNP
rs541255034 153 dbSNP
rs961979280 156 dbSNP
rs997445264 158 dbSNP
rs1421421914 159 dbSNP
rs1420845542 163 dbSNP
rs1192257537 165 dbSNP
rs1182617540 178 dbSNP
rs1031620320 180 dbSNP
rs1363359079 182 dbSNP
rs1468748257 184 dbSNP
rs1207660575 186 dbSNP
rs564408766 191 dbSNP
rs1175767351 197 dbSNP
rs1376405061 198 dbSNP
rs1434512871 199 dbSNP
rs1442205661 200 dbSNP
rs953139499 209 dbSNP
rs1311495790 221 dbSNP
rs1316550728 224 dbSNP
rs1215174038 228 dbSNP
rs1278123222 228 dbSNP
rs533459477 237 dbSNP
rs1051644 240 dbSNP
rs1282635331 247 dbSNP
rs911633027 248 dbSNP
rs1392536849 249 dbSNP
rs1337098283 252 dbSNP
rs1328877957 254 dbSNP
rs1334664406 257 dbSNP
rs1011453198 266 dbSNP
rs1397942012 266 dbSNP
rs1021872186 271 dbSNP
rs1348208749 272 dbSNP
rs1421107984 273 dbSNP
rs1233249575 276 dbSNP
rs968170424 277 dbSNP
rs1179726844 282 dbSNP
rs550205958 285 dbSNP
rs1205897329 289 dbSNP
rs924069218 289 dbSNP
rs926664461 290 dbSNP
rs1257960275 298 dbSNP
rs1205909891 301 dbSNP
rs960666703 302 dbSNP
rs369077478 308 dbSNP
rs1310734280 310 dbSNP
rs562344873 312 dbSNP
rs1383755924 319 dbSNP
rs1317437334 320 dbSNP
rs189501381 333 dbSNP
rs893819678 333 dbSNP
rs1395898442 338 dbSNP
rs1454031957 339 dbSNP
rs547972747 344 dbSNP
rs919533631 352 dbSNP
rs1356228265 353 dbSNP
rs558827827 360 dbSNP
rs1045149991 374 dbSNP
rs533956087 379 dbSNP
rs547636369 382 dbSNP
rs1385405542 383 dbSNP
rs1167877168 390 dbSNP
rs878921496 391 dbSNP
rs1395076586 395 dbSNP
rs1003365748 396 dbSNP
rs145377246 398 dbSNP
rs539753911 402 dbSNP
rs962148032 410 dbSNP
rs994785170 412 dbSNP
rs909332496 417 dbSNP
rs1481879846 423 dbSNP
rs1264238182 424 dbSNP
rs1439785638 433 dbSNP
rs943150493 440 dbSNP
rs1027957834 448 dbSNP
rs1298849517 459 dbSNP
rs1238334916 465 dbSNP
rs556474503 465 dbSNP
rs901578793 466 dbSNP
rs932995584 480 dbSNP
rs1309047752 481 dbSNP
rs534259845 489 dbSNP
rs1375354187 490 dbSNP
rs1291729194 495 dbSNP
rs891748997 495 dbSNP
rs985777829 495 dbSNP
rs1228020671 497 dbSNP
rs1011876887 500 dbSNP
rs1021463990 503 dbSNP
rs181936031 504 dbSNP
rs1421259684 508 dbSNP
rs1215605028 510 dbSNP
rs1265820476 518 dbSNP
rs185784874 519 dbSNP
rs1490533142 522 dbSNP
rs1033754906 529 dbSNP
rs1214701534 530 dbSNP
rs1350173748 538 dbSNP
rs1191989151 540 dbSNP
rs1239426477 546 dbSNP
rs960761092 548 dbSNP
rs935468812 553 dbSNP
rs1299094834 555 dbSNP
rs1222866743 556 dbSNP
rs1345567537 558 dbSNP
rs1264252583 569 dbSNP
rs776459618 573 dbSNP
rs1429504157 582 dbSNP
rs1383716204 588 dbSNP
rs989776572 594 dbSNP
rs1371810527 597 dbSNP
rs555556074 608 dbSNP
rs780104435 618 dbSNP
rs1176298943 624 dbSNP
rs1394601507 625 dbSNP
rs1460536139 629 dbSNP
rs761208282 630 dbSNP
rs569902214 632 dbSNP
rs1382551348 635 dbSNP
rs1294635743 641 dbSNP
rs1261072866 646 dbSNP
rs992159296 647 dbSNP
rs1202818725 655 dbSNP
rs1026238575 657 dbSNP
rs1045038244 663 dbSNP
rs906510380 664 dbSNP
rs1419361552 665 dbSNP
rs950970187 674 dbSNP
rs985422275 675 dbSNP
rs1295841314 678 dbSNP
rs1235073135 682 dbSNP
rs1273815816 683 dbSNP
rs1383602769 685 dbSNP
rs77429268 692 dbSNP
rs943561241 693 dbSNP
rs1219587580 703 dbSNP
rs897672746 705 dbSNP
rs541191297 713 dbSNP
rs995067861 716 dbSNP
rs1262687323 718 dbSNP
rs1475123221 720 dbSNP
rs1195561803 731 dbSNP
rs1373753683 731 dbSNP
rs1027599721 735 dbSNP
rs974919668 740 dbSNP
rs1242800238 741 dbSNP
rs1202727796 742 dbSNP
rs923052674 743 dbSNP
rs1264916998 744 dbSNP
rs933047897 754 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 4001.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 "PAR-CLIP data was present in GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

- 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' cuaauuUGUUAAGAGAc 5'
                |: ||||||| 
Target 5' --cuucAUUAUUCUCUg 3'
 		1 - 15
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 GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000261366.5 | 3UTR | CAAUCUCUUCAUUAUUCUCUGCUAUAUAUAAAACGGUGCUG
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 GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000261366.5 | 3UTR | CUUCAUUAUUCUCUGCUAUAUAUAAAACGGUGCU
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
113 hsa-miR-3123 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT058369 TBCEL tubulin folding cofactor E like 2 4
MIRT059816 EFNA1 ephrin A1 2 2
MIRT066850 TMEM19 transmembrane protein 19 2 2
MIRT071503 CALM1 calmodulin 1 2 6
MIRT073758 NUBP1 nucleotide binding protein 1 2 2
MIRT074324 TNRC6A trinucleotide repeat containing 6A 2 10
MIRT094805 LMNB1 lamin B1 2 2
MIRT099173 MAP3K4 mitogen-activated protein kinase kinase kinase 4 2 2
MIRT099545 ID4 inhibitor of DNA binding 4, HLH protein 2 2
MIRT122643 E2F3 E2F transcription factor 3 2 2
MIRT180918 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 8
MIRT192844 BLOC1S6 biogenesis of lysosomal organelles complex 1 subunit 6 2 2
MIRT224984 BAG4 BCL2 associated athanogene 4 2 2
MIRT246065 NRAS NRAS proto-oncogene, GTPase 2 2
MIRT357085 PRRC1 proline rich coiled-coil 1 2 2
MIRT378170 C5ORF51 chromosome 5 open reading frame 51 2 2
MIRT441636 KDM5A lysine demethylase 5A 2 2
MIRT441802 BCAS1 breast carcinoma amplified sequence 1 2 2
MIRT443019 C21orf91 chromosome 21 open reading frame 91 2 2
MIRT443445 SERPINB4 serpin family B member 4 2 2
MIRT443661 SERPINB3 serpin family B member 3 2 2
MIRT443776 STS steroid sulfatase 2 2
MIRT444663 TSPAN14 tetraspanin 14 2 2
MIRT444924 KIAA1522 KIAA1522 2 2
MIRT445378 FOXO1 forkhead box O1 2 2
MIRT447920 PAIP2B poly(A) binding protein interacting protein 2B 2 2
MIRT449202 PTPLAD2 3-hydroxyacyl-CoA dehydratase 4 1 1
MIRT449713 TSPYL1 TSPY like 1 2 2
MIRT450403 TMEM47 transmembrane protein 47 2 2
MIRT450787 PAPOLG poly(A) polymerase gamma 2 2
MIRT451381 C19orf43 telomerase RNA component interacting RNase 2 2
MIRT452507 WDR1 WD repeat domain 1 2 2
MIRT453264 PARP11 poly(ADP-ribose) polymerase family member 11 2 2
MIRT454642 FAM83H family with sequence similarity 83 member H 2 2
MIRT455513 C6orf106 chromosome 6 open reading frame 106 2 2
MIRT456709 LDB1 LIM domain binding 1 2 2
MIRT457231 AP3D1 adaptor related protein complex 3 delta 1 subunit 2 2
MIRT459235 MRPS21 mitochondrial ribosomal protein S21 2 2
MIRT460553 IFNAR1 interferon alpha and beta receptor subunit 1 2 4
MIRT461424 CTSL2 cathepsin V 2 3
MIRT462869 CYP51A1 cytochrome P450 family 51 subfamily A member 1 2 2
MIRT467178 SPTY2D1 SPT2 chromatin protein domain containing 1 2 2
MIRT469233 RHOBTB3 Rho related BTB domain containing 3 2 2
MIRT474125 LIPC lipase C, hepatic type 2 2
MIRT475509 HSP90B1 heat shock protein 90 beta family member 1 2 4
MIRT478134 DHX36 DEAH-box helicase 36 2 2
MIRT481326 ATP5A1 ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle 2 2
MIRT482003 AMOTL2 angiomotin like 2 2 2
MIRT482230 AHCYL2 adenosylhomocysteinase like 2 2 2
MIRT483436 RHOXF2B Rhox homeobox family member 2B 2 2
MIRT483824 ZC3H12B zinc finger CCCH-type containing 12B 2 2
MIRT492051 TNFSF9 TNF superfamily member 9 2 2
MIRT494114 DLX6 distal-less homeobox 6 2 2
MIRT498882 ZNF12 zinc finger protein 12 2 10
MIRT499674 NPHP3 nephrocystin 3 2 2
MIRT506932 IGDCC4 immunoglobulin superfamily DCC subclass member 4 2 6
MIRT509461 ZNF587 zinc finger protein 587 2 6
MIRT510048 AKR1B10 aldo-keto reductase family 1 member B10 2 4
MIRT514807 NWD1 NACHT and WD repeat domain containing 1 2 2
MIRT515217 CRCP CGRP receptor component 2 2
MIRT515486 INCENP inner centromere protein 2 4
MIRT517765 ZNF366 zinc finger protein 366 2 4
MIRT518216 TRMT10B tRNA methyltransferase 10B 2 2
MIRT519602 ZNF805 zinc finger protein 805 2 2
MIRT523570 GGCX gamma-glutamyl carboxylase 2 4
MIRT525795 SOD2 superoxide dismutase 2 2 2
MIRT533055 ZBTB37 zinc finger and BTB domain containing 37 2 2
MIRT534218 SLC37A3 solute carrier family 37 member 3 2 4
MIRT535633 NR2E1 nuclear receptor subfamily 2 group E member 1 2 2
MIRT535863 MRPL17 mitochondrial ribosomal protein L17 2 2
MIRT536344 LEFTY1 left-right determination factor 1 2 2
MIRT537923 DSTYK dual serine/threonine and tyrosine protein kinase 2 2
MIRT543114 SKA2 spindle and kinetochore associated complex subunit 2 2 2
MIRT544717 ZNF529 zinc finger protein 529 2 2
MIRT544847 BASP1 brain abundant membrane attached signal protein 1 2 4
MIRT545536 ARF3 ADP ribosylation factor 3 2 2
MIRT547124 PHLPP2 PH domain and leucine rich repeat protein phosphatase 2 2 2
MIRT548070 GIGYF1 GRB10 interacting GYF protein 1 2 2
MIRT548446 EIF1AX eukaryotic translation initiation factor 1A, X-linked 2 2
MIRT548626 DAZAP1 DAZ associated protein 1 2 4
MIRT550259 FAM120AOS family with sequence similarity 120A opposite strand 2 2
MIRT551940 AKAP8 A-kinase anchoring protein 8 2 4
MIRT552511 ZIK1 zinc finger protein interacting with K protein 1 2 4
MIRT554015 SPIRE1 spire type actin nucleation factor 1 2 2
MIRT556647 KPNA2 karyopherin subunit alpha 2 2 4
MIRT559744 ACOX1 acyl-CoA oxidase 1 2 2
MIRT560393 TMEM254 transmembrane protein 254 2 2
MIRT562234 HMGB2 high mobility group box 2 2 2
MIRT563325 ORC4 origin recognition complex subunit 4 2 2
MIRT563697 RPS26 ribosomal protein S26 2 2
MIRT565066 USP25 ubiquitin specific peptidase 25 2 2
MIRT565349 TMED2 transmembrane p24 trafficking protein 2 2 2
MIRT565624 SLC31A1 solute carrier family 31 member 1 2 2
MIRT566379 PNISR PNN interacting serine and arginine rich protein 2 2
MIRT567575 FEM1C fem-1 homolog C 2 2
MIRT569383 DDX20 DEAD-box helicase 20 2 2
MIRT570037 FAM228A family with sequence similarity 228 member A 2 2
MIRT573269 DCAF10 DDB1 and CUL4 associated factor 10 2 2
MIRT573912 PARP1 poly(ADP-ribose) polymerase 1 2 2
MIRT620034 ST6GALNAC3 ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 3 2 2
MIRT635606 ZWILCH zwilch kinetochore protein 2 2
MIRT644413 FRMD6 FERM domain containing 6 2 2
MIRT652528 TM9SF4 transmembrane 9 superfamily member 4 2 2
MIRT656238 MFSD6 major facilitator superfamily domain containing 6 2 2
MIRT661373 DYRK4 dual specificity tyrosine phosphorylation regulated kinase 4 2 2
MIRT662530 PNPLA4 patatin like phospholipase domain containing 4 2 2
MIRT675551 MALL mal, T-cell differentiation protein like 2 2
MIRT693650 ACBD7 acyl-CoA binding domain containing 7 2 2
MIRT696348 SLC35D2 solute carrier family 35 member D2 2 2
MIRT705815 AKNA AT-hook transcription factor 2 2
MIRT707632 TARDBP TAR DNA binding protein 2 2
MIRT717902 COPS8 COP9 signalosome subunit 8 2 2
MIRT723626 SOBP sine oculis binding protein homolog 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3123 Doxorubicin 31703 NSC123127 approved sensitive High Triple-Negative Breast Cancer cell line (MDA-MB-231, MDA-MB-468)
hsa-mir-3123 Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-miR-3123 Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-3123 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3123 Vemurafenib 42611257 NSC761431 approved resistant cell line (LM16)

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