pre-miRNA Information
pre-miRNA hsa-mir-4280   
Genomic Coordinates chr5: 87114879 - 87114954
Description Homo sapiens miR-4280 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4280
Sequence 11| GAGUGUAGUUCUGAGCAGAGC |31
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1267452683 6 dbSNP
rs921418201 13 dbSNP
rs975577876 15 dbSNP
rs562687273 20 dbSNP
rs968639930 21 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol HSD17B12   
Synonyms KAR, SDR12C1
Description hydroxysteroid 17-beta dehydrogenase 12
Transcript NM_016142   
Expression
Putative miRNA Targets on HSD17B12
3'UTR of HSD17B12
(miRNA target sites are highlighted)
>HSD17B12|NM_016142|3'UTR
   1 GCATTGATAACTGCATTGTAACTTGGCCAGATGCTCCAGCATATGCACGTTCACTGCAAAGCACCCTACTGGTTTTGAAA
  81 ATCTGACCTTGTCATTTCAATAGTTATTAACATGACTAAATATTATCTTAATTAAGAGGAAAATAGAAGTTGCTTTTAGG
 161 GGTTTCTGACATATATTCTGGATACTATCCGAGGTAATTTTGAAGTTTAATATAAATGCTCATATCAAATGAATATAGAA
 241 CTAATATTGTCGGGAACACCTAATAGAAAGGAATACTATTATAGCAAATCACAGAATGATAGACTCAAGCATAAAACTTG
 321 GCAGTTTTATCTGCTTCAAAATGCCATTGATCATTATTCCTGTATTTTCTCTGAAACTGATTATAAAAACCAATGTCCAG
 401 CTACTCTTTTGTTTTTGACACTTGAAGAAATGGAGATCGATTTGATTTGTTTATAAGCAGACACACTGCAATTTACAAAG
 481 ATCTCTTTACGGTTTTATAAAATTATCTTCCAGTTTGTACATTTATATGGAATTGTTCTTTATCAAGGGTAGCTAATGAC
 561 ATGAAAATAATTGTGAAATATGGAATTATTTCTGACACATGAAGCCCACTAAACTATGCTTTCTTATAATGCATATTTCT
 641 TCTCAGTTTAAATGTATGTAAATATCGAAGCTATATGGTATGATTTATAAAGATAAATGGGCCAAAGTGTACATTGAGAC
 721 TGGCAGCCATCTATGGTACCACTGAAACCCTGACCCAGAAAAGTGGCTTGCTTGGACACCCAGCTGCCTTTGTTTCTGCA
 801 TTAAACCAATATTGATCACACATATGACACAGGCTAGTCCTATAAAAGTAATGACTTCATAGAAATGGCATTATAATTTT
 881 TAAGTTGATACTCTACAGGTAGCTATTGATATAATTAGTTTTAATAAAACATGCTGCAACCATGGTATACAACAAAAATA
 961 CATTTCTTTGGTGATTGAAATTAAGGCCGTATTTACAATGACTTAATATAAGACTGACTTTTATCCTGCTTCATAACTTG
1041 TATGGAGAACTCACCAAGAAAGAATTCAATACTGTGAAATATGCAGCAAGAAGATTGGTCTTTACCTAGGCTGTGTTTCC
1121 TAAGCTCTGAGTTTTCAGCACCAGTAGATTTGTATTAAAAGAAAAAAAAATGGGGCCTTAGCTTCTGGCTTTTAATTTTG
1201 CCAGCTAAGGACATAAAACAAAAATAAACAAACAAAAACAAATAGCCATCTGCTATCAGCATCATTATGTAAAAGAAAAT
1281 ATATTTTAGCCCCTAAAATTAGGAAGAATGTAATCTCAGAATAAAGGTTGTCATTTAAGTTGAATAAATATATAGCTTTA
1361 TGAAAAACACAAAAAAAAAAAA
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' cgagacGAGUCUUGAUGUGAg 5'
                :| | ||||:||:| 
Target 5' ---gcaTTGATAACTGCATTg 3'
1 - 18 123.00 -8.00
2
miRNA  3' cgAGAC-GAGU-CU-----UGAUGUGAg 5'
            |||| | || ||     |||| ||| 
Target 5' ttTCTGACACATGAAGCCCACTAAACTa 3'
589 - 616 123.00 -8.74
3
miRNA  3' cgagACGAGUCUUGAUGUGAg 5'
              ||: |||  |||| || 
Target 5' ccaaTGTCCAG--CTACTCTt 3'
390 - 408 121.00 -8.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30145670 78 COSMIC
COSN30171537 78 COSMIC
COSN31554819 111 COSMIC
COSN505734 163 COSMIC
COSN30130079 303 COSMIC
COSN17181619 325 COSMIC
COSN18976139 413 COSMIC
COSN20108166 413 COSMIC
COSN32062544 439 COSMIC
COSN30172050 481 COSMIC
COSN31539157 491 COSMIC
COSN30543462 553 COSMIC
COSN15804837 720 COSMIC
COSN17290300 1251 COSMIC
COSN26157499 1254 COSMIC
COSN1534902 1344 COSMIC
rs1061810 1137 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs750830046 4 dbSNP
rs753804701 13 dbSNP
rs573019251 14 dbSNP
rs11037683 16 dbSNP
rs751079549 17 dbSNP
rs754668712 25 dbSNP
rs780805754 26 dbSNP
rs1171800028 31 dbSNP
rs11037684 32 dbSNP
rs769508734 42 dbSNP
rs182511068 49 dbSNP
rs187110642 50 dbSNP
rs751153565 53 dbSNP
rs1480383833 56 dbSNP
rs753519790 57 dbSNP
rs1440988974 61 dbSNP
rs563672988 62 dbSNP
rs1380690691 67 dbSNP
rs1226060321 71 dbSNP
rs1245009693 83 dbSNP
rs191217025 85 dbSNP
rs1383214535 91 dbSNP
rs755397213 94 dbSNP
rs552336983 102 dbSNP
rs549013875 104 dbSNP
rs1372063192 112 dbSNP
rs1298255732 117 dbSNP
rs1431042668 122 dbSNP
rs887022493 126 dbSNP
rs1163471985 145 dbSNP
rs781645581 146 dbSNP
rs1272179776 148 dbSNP
rs1016997081 152 dbSNP
rs560951749 162 dbSNP
rs1418731319 164 dbSNP
rs763291488 171 dbSNP
rs1251446235 173 dbSNP
rs898175913 173 dbSNP
rs996573120 191 dbSNP
rs1289552102 192 dbSNP
rs1221619570 208 dbSNP
rs1028077572 214 dbSNP
rs111650837 221 dbSNP
rs1266983141 227 dbSNP
rs1236528321 233 dbSNP
rs748676184 239 dbSNP
rs1204082530 241 dbSNP
rs987364242 251 dbSNP
rs1031880757 252 dbSNP
rs528727998 253 dbSNP
rs1473902429 260 dbSNP
rs990447062 264 dbSNP
rs1180154284 265 dbSNP
rs528539782 266 dbSNP
rs755199252 271 dbSNP
rs1384715942 279 dbSNP
rs1450618389 283 dbSNP
rs1453440998 283 dbSNP
rs948741876 287 dbSNP
rs541334060 297 dbSNP
rs980117950 307 dbSNP
rs938802722 308 dbSNP
rs182661482 318 dbSNP
rs1335292071 319 dbSNP
rs778419070 335 dbSNP
rs1360464312 338 dbSNP
rs1203186701 340 dbSNP
rs1485403944 344 dbSNP
rs1268424887 347 dbSNP
rs1229840663 365 dbSNP
rs551633681 391 dbSNP
rs1445396914 395 dbSNP
rs1282099385 405 dbSNP
rs146635402 407 dbSNP
rs367793452 407 dbSNP
rs768994653 407 dbSNP
rs939902270 410 dbSNP
rs1038307637 411 dbSNP
rs898122097 414 dbSNP
rs996520793 425 dbSNP
rs1322869974 427 dbSNP
rs1468425732 432 dbSNP
rs1028023687 436 dbSNP
rs1230477469 437 dbSNP
rs749441064 440 dbSNP
rs1379340278 451 dbSNP
rs1190909916 460 dbSNP
rs1446272205 461 dbSNP
rs1248407318 464 dbSNP
rs1210293316 472 dbSNP
rs570535682 479 dbSNP
rs1295397174 491 dbSNP
rs1338487393 492 dbSNP
rs1200570038 504 dbSNP
rs762691130 506 dbSNP
rs187660681 543 dbSNP
rs1008003028 546 dbSNP
rs1366456277 549 dbSNP
rs550582224 563 dbSNP
rs1450834000 564 dbSNP
rs1487372611 582 dbSNP
rs569212595 590 dbSNP
rs1335055681 594 dbSNP
rs956247733 599 dbSNP
rs1012219479 610 dbSNP
rs193205496 615 dbSNP
rs1242582030 617 dbSNP
rs1390653847 627 dbSNP
rs1270527990 653 dbSNP
rs1465454459 654 dbSNP
rs1191042468 655 dbSNP
rs1388796682 658 dbSNP
rs1475376278 659 dbSNP
rs1190302880 668 dbSNP
rs969997315 674 dbSNP
rs980065321 675 dbSNP
rs752905430 677 dbSNP
rs1270264284 680 dbSNP
rs928663030 686 dbSNP
rs1343513877 687 dbSNP
rs1277333312 698 dbSNP
rs960387165 702 dbSNP
rs759637391 710 dbSNP
rs1285067630 718 dbSNP
rs1450462614 730 dbSNP
rs983567975 732 dbSNP
rs1328289271 733 dbSNP
rs1430436738 734 dbSNP
rs908347374 734 dbSNP
rs1170385492 738 dbSNP
rs1422564497 739 dbSNP
rs1384361148 752 dbSNP
rs757553876 752 dbSNP
rs1473576610 753 dbSNP
rs1038659465 755 dbSNP
rs554557084 759 dbSNP
rs1483074005 761 dbSNP
rs1254644303 762 dbSNP
rs566482460 767 dbSNP
rs908517665 771 dbSNP
rs533617306 772 dbSNP
rs1359259239 782 dbSNP
rs932592520 783 dbSNP
rs1230333503 786 dbSNP
rs1348842664 786 dbSNP
rs1279151310 789 dbSNP
rs1410562814 804 dbSNP
rs1049407709 810 dbSNP
rs558641381 813 dbSNP
rs1309835820 815 dbSNP
rs1403019569 822 dbSNP
rs1325746163 840 dbSNP
rs1437137607 844 dbSNP
rs1165232148 852 dbSNP
rs890826285 852 dbSNP
rs758525090 853 dbSNP
rs1405380898 857 dbSNP
rs1157916228 861 dbSNP
rs1472666264 868 dbSNP
rs1413527453 871 dbSNP
rs970956242 885 dbSNP
rs1052893358 886 dbSNP
rs891921395 907 dbSNP
rs1221907205 910 dbSNP
rs1224283421 919 dbSNP
rs1011755670 920 dbSNP
rs578099036 929 dbSNP
rs1229226253 931 dbSNP
rs1331389481 932 dbSNP
rs545624373 943 dbSNP
rs1259778429 947 dbSNP
rs1446877168 948 dbSNP
rs1021782625 975 dbSNP
rs1343191667 976 dbSNP
rs557230073 989 dbSNP
rs549385406 990 dbSNP
rs1001770246 997 dbSNP
rs1413638814 1009 dbSNP
rs1173660644 1019 dbSNP
rs11555763 1020 dbSNP
rs1426530811 1032 dbSNP
rs11555765 1041 dbSNP
rs542925576 1042 dbSNP
rs1241890452 1058 dbSNP
rs1209683002 1060 dbSNP
rs1198217945 1066 dbSNP
rs1412172612 1070 dbSNP
rs1261445460 1083 dbSNP
rs1203148829 1092 dbSNP
rs1312816205 1095 dbSNP
rs960085110 1096 dbSNP
rs983901267 1101 dbSNP
rs1359696025 1113 dbSNP
rs1061810 1137 dbSNP
rs144353338 1138 dbSNP
rs1182285910 1145 dbSNP
rs555290841 1148 dbSNP
rs1334247653 1153 dbSNP
rs1465148428 1155 dbSNP
rs1405855068 1157 dbSNP
rs1359218565 1158 dbSNP
rs919779315 1162 dbSNP
rs973896924 1162 dbSNP
rs1189640029 1175 dbSNP
rs1451676063 1194 dbSNP
rs1325526017 1196 dbSNP
rs1181476088 1197 dbSNP
rs1483653303 1210 dbSNP
rs932545345 1212 dbSNP
rs1329125431 1221 dbSNP
rs1404046184 1226 dbSNP
rs1305715349 1227 dbSNP
rs1288756024 1231 dbSNP
rs1228915821 1233 dbSNP
rs1367062541 1234 dbSNP
rs540343616 1235 dbSNP
rs565415301 1249 dbSNP
rs1395083962 1255 dbSNP
rs1230486111 1261 dbSNP
rs1259015745 1265 dbSNP
rs1379364917 1269 dbSNP
rs1304096448 1275 dbSNP
rs1350095584 1294 dbSNP
rs1210950938 1302 dbSNP
rs1292708224 1328 dbSNP
rs1432069202 1340 dbSNP
rs1383759719 1342 dbSNP
rs1164437699 1343 dbSNP
rs1424628959 1343 dbSNP
rs1490006034 1351 dbSNP
rs1258469132 1352 dbSNP
rs1175585672 1353 dbSNP
rs1482750389 1361 dbSNP
rs944381882 1364 dbSNP
rs1205764169 1365 dbSNP
rs1253019421 1368 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 51144.0
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.

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 ENST00000278353.4 | 3UTR | ACUACUGAAAUCAGUUUGUUUC
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
67 hsa-miR-4280 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT065612 DAZAP2 DAZ associated protein 2 2 10
MIRT084985 BACH1 BTB domain and CNC homolog 1 2 2
MIRT088053 UBXN2A UBX domain protein 2A 2 4
MIRT097327 SCAMP1 secretory carrier membrane protein 1 2 2
MIRT099148 MYLIP myosin regulatory light chain interacting protein 2 12
MIRT127042 FAM208B family with sequence similarity 208 member B 2 4
MIRT140479 BNIP2 BCL2 interacting protein 2 2 6
MIRT154889 GNAS GNAS complex locus 2 4
MIRT187983 MBD6 methyl-CpG binding domain protein 6 2 2
MIRT190440 EIF5 eukaryotic translation initiation factor 5 2 2
MIRT240673 GAPVD1 GTPase activating protein and VPS9 domains 1 2 2
MIRT295049 EVI5L ecotropic viral integration site 5 like 2 2
MIRT324749 ACER2 alkaline ceramidase 2 2 2
MIRT366075 FAM127A retrotransposon Gag like 8C 2 4
MIRT442625 LOX lysyl oxidase 2 2
MIRT445224 TYRP1 tyrosinase related protein 1 2 2
MIRT448967 CCNT2 cyclin T2 2 4
MIRT450137 PFN4 profilin family member 4 2 2
MIRT464350 USP46 ubiquitin specific peptidase 46 2 2
MIRT470460 PPP1R15B protein phosphatase 1 regulatory subunit 15B 2 2
MIRT473691 MAPK8 mitogen-activated protein kinase 8 2 4
MIRT480188 CALM2 calmodulin 2 2 6
MIRT486355 PCBD2 pterin-4 alpha-carbinolamine dehydratase 2 2 2
MIRT486708 TROVE2 TROVE domain family member 2 2 4
MIRT488337 SCD stearoyl-CoA desaturase 2 2
MIRT489322 PEX26 peroxisomal biogenesis factor 26 2 2
MIRT491791 ZNF24 zinc finger protein 24 2 2
MIRT491970 USP37 ubiquitin specific peptidase 37 2 2
MIRT492029 TWF1 twinfilin actin binding protein 1 2 4
MIRT492063 TMEM245 transmembrane protein 245 2 2
MIRT492247 SLC39A9 solute carrier family 39 member 9 2 2
MIRT492254 SLC35F5 solute carrier family 35 member F5 2 2
MIRT492592 PPIL4 peptidylprolyl isomerase like 4 2 2
MIRT493436 KAT7 lysine acetyltransferase 7 2 2
MIRT493470 IPMK inositol polyphosphate multikinase 2 2
MIRT493639 HECTD1 HECT domain E3 ubiquitin protein ligase 1 2 2
MIRT493919 FAM127B retrotransposon Gag like 8A 2 4
MIRT494639 ARNTL aryl hydrocarbon receptor nuclear translocator like 2 2
MIRT500032 ABCF2 ATP binding cassette subfamily F member 2 2 8
MIRT504589 ADH1B alcohol dehydrogenase 1B (class I), beta polypeptide 2 4
MIRT505535 SP4 Sp4 transcription factor 2 6
MIRT507539 DNAJB6 DnaJ heat shock protein family (Hsp40) member B6 2 6
MIRT508846 TMCO1 transmembrane and coiled-coil domains 1 2 4
MIRT510488 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta 2 2
MIRT511402 IFNAR2 interferon alpha and beta receptor subunit 2 2 6
MIRT523252 HIST1H2AH histone cluster 1 H2A family member h 2 2
MIRT525939 C11orf74 chromosome 11 open reading frame 74 2 2
MIRT531453 HSD17B12 hydroxysteroid 17-beta dehydrogenase 12 2 2
MIRT533317 UNKL unkempt family like zinc finger 2 2
MIRT541034 STRBP spermatid perinuclear RNA binding protein 2 8
MIRT546734 RNF217 ring finger protein 217 2 2
MIRT555125 PTPRJ protein tyrosine phosphatase, receptor type J 2 2
MIRT556105 MOAP1 modulator of apoptosis 1 2 2
MIRT560205 AK4 adenylate kinase 4 2 2
MIRT561087 LLPH LLP homolog, long-term synaptic facilitation 2 2
MIRT566967 LBR lamin B receptor 2 2
MIRT567344 H3F3B H3 histone family member 3B 2 2
MIRT567863 DCAF12 DDB1 and CUL4 associated factor 12 2 2
MIRT574449 SCML2 Scm polycomb group protein like 2 2 2
MIRT575700 Map1b microtubule-associated protein 1B 2 2
MIRT651432 YIPF6 Yip1 domain family member 6 2 2
MIRT659728 CCDC93 coiled-coil domain containing 93 2 2
MIRT686937 SFT2D3 SFT2 domain containing 3 2 2
MIRT699385 SLC30A6 solute carrier family 30 member 6 2 2
MIRT710287 CSNK1G3 casein kinase 1 gamma 3 2 2
MIRT715123 PANK3 pantothenate kinase 3 2 2
MIRT721847 VLDLR very low density lipoprotein receptor 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4280 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4280 Platinum 23939 resistant tissue
hsa-miR-4280 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4280 Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4280 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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