pre-miRNA Information
pre-miRNA hsa-mir-4707   
Genomic Coordinates chr14: 22956950 - 22957029
Description Homo sapiens miR-4707 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4707-3p
Sequence 52| AGCCCGCCCCAGCCGAGGUUCU |73
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1180125593 2 dbSNP
rs1390998288 5 dbSNP
rs2273626 6 dbSNP
rs765507627 7 dbSNP
rs1299611135 9 dbSNP
rs1158707105 11 dbSNP
rs535691977 15 dbSNP
rs952013388 17 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol MFSD2A   
Synonyms MCPH15, MFSD2, NLS1
Description major facilitator superfamily domain containing 2A
Transcript NM_001136493   
Other Transcripts NM_032793   
Expression
Putative miRNA Targets on MFSD2A
3'UTR of MFSD2A
(miRNA target sites are highlighted)
>MFSD2A|NM_001136493|3'UTR
   1 GGCCCGCCACGTTGCCCGAAGCCACCATGCAGAAGGCCACAGAAGGGATCAGGACCTGTCTGCCGGCTTGCTGAGCAGCT
  81 GGACTGCAGGTGCTAGGAAGGGAACTGAAGACTCAAGGAGGTGGCCCAGGACACTTGCTGTGCTCACTGTGGGGCCGGCT
 161 GCTCTGTGGCCTCCTGCCTCCCCTCTGCCTGCCTGTGGGGCCAAGCCCTGGGGCTGCCACTGTGAATATGCCAAGGACTG
 241 ATCGGGCCTAGCCCGGAACACTAATGTAGAAACCTTTTTTTTTACAGAGCCTAATTAATAACTTAATGACTGTGTACATA
 321 GCAATGTGTGTGTATGTATATGTCTGTGAGCTATTAATGTTATTAATTTTCATAAAAGCTGGAAAGCAGCTGCCTGTTTC
 401 AAAAAAAAAAAAAAAAAA
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' ucuugGAGCCG-ACCCCGCCCGa 5'
               |||  : |||||| ||| 
Target 5' ctgtgCTCACTGTGGGGCCGGCt 3'
138 - 160 125.00 -19.30
2
miRNA  3' ucuuggagccgaccccGCCCGa 5'
                          ||||| 
Target 5' tatgccaaggactgatCGGGCc 3'
227 - 248 100.00 -16.60
3
miRNA  3' ucUUGGAGCCGACCCCGCCCGa 5'
            |:||    ||||||| | | 
Target 5' caAGCC----CTGGGGCTGCCa 3'
202 - 219 98.00 -14.90
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31540486 4 COSMIC
COSN17253206 7 COSMIC
COSN30635284 12 COSMIC
COSN26637097 59 COSMIC
COSN31526366 64 COSMIC
COSN30172922 69 COSMIC
COSN20074101 70 COSMIC
COSN31959117 131 COSMIC
COSN28667147 133 COSMIC
COSN30111319 139 COSMIC
COSN30528811 140 COSMIC
COSN20094724 284 COSMIC
COSN27283941 284 COSMIC
COSN22715049 295 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs369913833 4 dbSNP
rs556323307 6 dbSNP
rs755339581 7 dbSNP
rs1436536932 9 dbSNP
rs372966470 11 dbSNP
rs376322556 12 dbSNP
rs748657336 14 dbSNP
rs756683095 18 dbSNP
rs556597027 19 dbSNP
rs932945206 26 dbSNP
rs757376138 29 dbSNP
rs1304967159 32 dbSNP
rs1350079320 33 dbSNP
rs1211655895 34 dbSNP
rs779231099 37 dbSNP
rs1484972134 38 dbSNP
rs1207134918 41 dbSNP
rs1233752716 45 dbSNP
rs575790497 46 dbSNP
rs1239098844 49 dbSNP
rs1355519490 61 dbSNP
rs1051553550 64 dbSNP
rs371014536 65 dbSNP
rs544792370 66 dbSNP
rs1165749598 79 dbSNP
rs1424261213 80 dbSNP
rs760479058 98 dbSNP
rs1047321695 117 dbSNP
rs1471023785 134 dbSNP
rs1212670643 136 dbSNP
rs1274433166 137 dbSNP
rs908678241 137 dbSNP
rs1037192360 147 dbSNP
rs1316795214 150 dbSNP
rs1305536338 153 dbSNP
rs898637005 157 dbSNP
rs759265837 158 dbSNP
rs1037377557 167 dbSNP
rs905872419 171 dbSNP
rs898952238 172 dbSNP
rs1011864824 175 dbSNP
rs1044732580 177 dbSNP
rs1156814754 179 dbSNP
rs1450514778 180 dbSNP
rs906212582 183 dbSNP
rs1380683441 188 dbSNP
rs1035759966 192 dbSNP
rs956111021 199 dbSNP
rs1218794074 212 dbSNP
rs1003847527 214 dbSNP
rs1191230604 222 dbSNP
rs558657105 227 dbSNP
rs1485246010 238 dbSNP
rs1243771882 244 dbSNP
rs988826967 251 dbSNP
rs572193653 255 dbSNP
rs1279981332 256 dbSNP
rs541433670 257 dbSNP
rs1373416660 267 dbSNP
rs561100114 268 dbSNP
rs1388097366 269 dbSNP
rs200223176 273 dbSNP
rs1415241389 274 dbSNP
rs3215035 275 dbSNP
rs397767103 275 dbSNP
rs200800491 276 dbSNP
rs1333338121 277 dbSNP
rs575080623 285 dbSNP
rs974694010 286 dbSNP
rs1010780199 290 dbSNP
rs921834230 298 dbSNP
rs1404832043 301 dbSNP
rs1022387565 311 dbSNP
rs1347400788 325 dbSNP
rs1432666314 331 dbSNP
rs1432114985 332 dbSNP
rs565081043 336 dbSNP
rs1320258626 337 dbSNP
rs1176316583 338 dbSNP
rs987118446 340 dbSNP
rs1258973857 342 dbSNP
rs1187774375 344 dbSNP
rs907655823 359 dbSNP
rs940436992 364 dbSNP
rs1037433705 371 dbSNP
rs920094354 372 dbSNP
rs1226966189 374 dbSNP
rs964149381 379 dbSNP
rs577168903 380 dbSNP
rs931440127 380 dbSNP
rs1297742520 387 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
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 GSM1084045. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep3 ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' ucuUGGAG----CCGACCCCGCCCGa 5'
             ||:|:    ||| | ||||||| 
Target 5' agcACUUUGGGAGGCCGAGGCGGGCa 3'
3 - 28
Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084045
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep3
Location of target site ENST00000372811.5 | 3UTR | CCAGCACUUUGGGAGGCCGAGGCGGGCAGAUCACCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
91 hsa-miR-4707-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT442514 SYT7 synaptotagmin 7 2 4
MIRT457799 NQO2 N-ribosyldihydronicotinamide:quinone reductase 2 2 2
MIRT466318 THRA thyroid hormone receptor, alpha 2 2
MIRT486129 TRAF3 TNF receptor associated factor 3 2 2
MIRT492341 SEPT8 septin 8 2 2
MIRT495690 KCNC3 potassium voltage-gated channel subfamily C member 3 2 2
MIRT496928 DPYSL5 dihydropyrimidinase like 5 2 2
MIRT499518 MAFK MAF bZIP transcription factor K 2 2
MIRT501367 REXO1 RNA exonuclease 1 homolog 2 4
MIRT501636 PIAS4 protein inhibitor of activated STAT 4 2 4
MIRT521071 SLC25A16 solute carrier family 25 member 16 2 2
MIRT525700 PCYT2 phosphate cytidylyltransferase 2, ethanolamine 2 2
MIRT532722 DDTL D-dopachrome tautomerase like 2 2
MIRT533137 WWC1 WW and C2 domain containing 1 2 4
MIRT537288 G3BP1 G3BP stress granule assembly factor 1 2 4
MIRT570555 PHF21B PHD finger protein 21B 2 2
MIRT573469 MTRNR2L9 MT-RNR2-like 9 2 2
MIRT576750 Tmem127 transmembrane protein 127 2 2
MIRT609342 DAAM2 dishevelled associated activator of morphogenesis 2 2 2
MIRT610638 PIGM phosphatidylinositol glycan anchor biosynthesis class M 2 2
MIRT612591 RANGAP1 Ran GTPase activating protein 1 2 2
MIRT614237 WDR53 WD repeat domain 53 2 4
MIRT622784 PGK1 phosphoglycerate kinase 1 2 2
MIRT628880 MED16 mediator complex subunit 16 2 2
MIRT629550 SPN sialophorin 2 2
MIRT634714 DDX19B DEAD-box helicase 19B 2 2
MIRT634932 GTF2H2C GTF2H2 family member C 2 4
MIRT635341 RBL1 RB transcriptional corepressor like 1 2 2
MIRT637838 CPT1A carnitine palmitoyltransferase 1A 2 2
MIRT644311 NFKBID NFKB inhibitor delta 2 2
MIRT649206 KIAA1715 lunapark, ER junction formation factor 2 2
MIRT657262 HSPA4L heat shock protein family A (Hsp70) member 4 like 2 2
MIRT658919 DPY19L4 dpy-19 like 4 2 2
MIRT663608 SEC23B Sec23 homolog B, coat complex II component 2 2
MIRT667425 MFAP2 microfibril associated protein 2 2 2
MIRT667667 KREMEN1 kringle containing transmembrane protein 1 2 2
MIRT668144 GDPD1 glycerophosphodiester phosphodiesterase domain containing 1 2 2
MIRT668540 ERGIC1 endoplasmic reticulum-golgi intermediate compartment 1 2 2
MIRT670039 NFRKB nuclear factor related to kappaB binding protein 2 2
MIRT670875 RAB10 RAB10, member RAS oncogene family 2 2
MIRT672694 ZNF677 zinc finger protein 677 2 2
MIRT673107 MFSD2A major facilitator superfamily domain containing 2A 2 2
MIRT673508 TNFAIP8L1 TNF alpha induced protein 8 like 1 2 4
MIRT674244 NUP62 nucleoporin 62 2 4
MIRT676541 IRGQ immunity related GTPase Q 2 2
MIRT676787 CXorf38 chromosome X open reading frame 38 2 4
MIRT677600 PRKX protein kinase, X-linked 2 2
MIRT678607 MRPL17 mitochondrial ribosomal protein L17 2 2
MIRT678940 MYADM myeloid associated differentiation marker 2 2
MIRT679104 CD99 CD99 molecule (Xg blood group) 2 2
MIRT679196 WNT2B Wnt family member 2B 2 2
MIRT679325 ZMYM4 zinc finger MYM-type containing 4 2 2
MIRT679634 BRMS1L breast cancer metastasis-suppressor 1 like 2 2
MIRT679819 TMEM106B transmembrane protein 106B 2 2
MIRT679898 FBXO48 F-box protein 48 2 2
MIRT680579 ZNF784 zinc finger protein 784 2 2
MIRT680600 SZT2 SZT2, KICSTOR complex subunit 2 2
MIRT682991 RNF40 ring finger protein 40 2 4
MIRT683483 ZNF7 zinc finger protein 7 2 2
MIRT683681 MICA MHC class I polypeptide-related sequence A 2 2
MIRT684122 CEP104 centrosomal protein 104 2 2
MIRT684774 MYO1F myosin IF 2 2
MIRT685698 BHMT2 betaine--homocysteine S-methyltransferase 2 2 2
MIRT686471 LINC00598 long intergenic non-protein coding RNA 598 2 2
MIRT687940 HMGB1 high mobility group box 1 2 2
MIRT688627 CRISPLD2 cysteine rich secretory protein LCCL domain containing 2 2 2
MIRT689110 ZBTB25 zinc finger and BTB domain containing 25 2 2
MIRT690063 MBD1 methyl-CpG binding domain protein 1 2 2
MIRT691067 NUGGC nuclear GTPase, germinal center associated 2 2
MIRT691317 KIAA1841 KIAA1841 2 2
MIRT692778 SYNPO2L synaptopodin 2 like 2 2
MIRT694087 KIAA0930 KIAA0930 2 2
MIRT696148 WDR59 WD repeat domain 59 2 2
MIRT696176 GNB5 G protein subunit beta 5 2 2
MIRT696434 SUGP1 SURP and G-patch domain containing 1 2 2
MIRT697974 TSPAN6 tetraspanin 6 2 2
MIRT698917 SPEM1 spermatid maturation 1 2 2
MIRT699312 SLC35F5 solute carrier family 35 member F5 2 4
MIRT700500 PTPN4 protein tyrosine phosphatase, non-receptor type 4 2 2
MIRT700557 PTBP1 polypyrimidine tract binding protein 1 2 2
MIRT701817 MRPL37 mitochondrial ribosomal protein L37 2 2
MIRT702045 METTL21A methyltransferase like 21A 2 2
MIRT702215 LPCAT1 lysophosphatidylcholine acyltransferase 1 2 2
MIRT702337 KLHL7 kelch like family member 7 2 2
MIRT704139 DNAL1 dynein axonemal light chain 1 2 2
MIRT704189 LDHD lactate dehydrogenase D 2 2
MIRT705344 ATP1B3 ATPase Na+/K+ transporting subunit beta 3 2 2
MIRT706097 ENTPD4 ectonucleoside triphosphate diphosphohydrolase 4 2 2
MIRT709068 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT717579 VTA1 vesicle trafficking 1 2 2
MIRT722440 ZBTB7B zinc finger and BTB domain containing 7B 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4707 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4707 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-mir-4707 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-4707 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-miR-4707-3p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4707-3p Tripterygium wilfordii Hook F sensitive tissue
hsa-miR-4707-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4707-3p Tamoxifen 2733525 NSC180973 approved resistant cell line (LCC2)
hsa-miR-4707-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)
hsa-miR-4707-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)

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