pre-miRNA Information
pre-miRNA hsa-mir-4524a   
Genomic Coordinates chr17: 69099564 - 69099632
Description Homo sapiens miR-4524a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4524a-5p
Sequence 6| AUAGCAGCAUGAACCUGUCUCA |27
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1322445998 8 dbSNP
rs1350790266 13 dbSNP
rs1263495678 21 dbSNP
Putative Targets

Gene Information
Gene Symbol BTN3A3   
Synonyms BTF3, BTN3.3
Description butyrophilin subfamily 3 member A3
Transcript NM_006994   
Other Transcripts NM_197974   
Expression
Putative miRNA Targets on BTN3A3
3'UTR of BTN3A3
(miRNA target sites are highlighted)
>BTN3A3|NM_006994|3'UTR
   1 TATTCATTCCATTATTCCATATGACAGTTGTTTTGAGTTTCGTACCACCTTATTGTCCCCTTATACAGATAAGGAAACTG
  81 GGGTGCAGAAAGGTGAATTAACTTTACAAAGTAGACATGACAAGTGAACAGCAGAGCTGGGATCTAAACAGCAATAACTA
 161 ACATTAACAGAGAATTTAAAATGTTCTTAGTGCTGTGTTATAAGCTTTGGTGGATGTCACTCCTTTAATCCTCACAACAC
 241 CCTGTCGGGTAGTCATATTTTGCAAGTATGGAAGCTGAGGCAGGGCAACATGAAGTAACTTACATAACTCATACAGTAAT
 321 TTGTGCAGTTGGGAGATGTTCAGCCTTAGTCCCTGGCTAATTGCCTGTTCTTTTCCAGCCTGATTTTTTTTCCCACAGGA
 401 AGAGCCCACATGTAGCCCTGAGGTTTCCTTCCCAGGACAGCTGCAGGGTAGAGATCATTTTAAGTGCTTGTGGAGTTGAC
 481 ATCCCTATTGACTCTTTCCCAGCTGATATCAGAGACTTAGACCCAGCACTCCTTGGATTAGCTCTGCAGAGTGTCTTGGT
 561 TGAGAGAATAACCTCATAGTACCAACATGACATGTGACTTGGAAAGAGACTAGAGGCCACACTTGATAAATCATGGGGCA
 641 CAGATATGTTCCCACCCAACAAATGTGATAAGTGATTGTGCAGCCAGAGCCAGCCTTCCTTCAATCAAGGTTTCCAGGCA
 721 GAGCAAATACCCTAGAGATTCTCTGTGATATAGGAAATTTGGATCAAGGAAGCTAAAAGAATTACAGGGATGTTTTTAAT
 801 CCCACTATGGACTCAGTCTCCTGGAAATAGGTCTGTCCACTCCTGGTCATTGGTGGATGTTAAACCCATATTCCTTTCAA
 881 CTGCTGCCTGCTAGGGAAAACTGCTCCTCATTATCATCACTATTATTGCTCACCACTGTATCCCCTCTACTTGGCAAGTG
 961 GTTGTCAAGTTCTAGTTGTTCAATAAATGTGTTAATAATGCTTAAAAAAAAAAAAAAAAAA
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' acucuguccaaguacGACGAUa 5'
                         |||||| 
Target 5' cctttcaactgctgcCTGCTAg 3'
873 - 894 120.00 -7.33
2
miRNA  3' acuCUGUCCAA--GUACGACGAUa 5'
             |||   ||  || |||| || 
Target 5' attGACTCTTTCCCA-GCTGATAt 3'
487 - 509 116.00 -6.20
3
miRNA  3' acucuGUCCAAGUACGACGaua 5'
               ||||  || |||||   
Target 5' cttccCAGG-ACA-GCTGCagg 3'
428 - 447 111.00 -10.82
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM5434467 1 COSMIC
COSN26165839 12 COSMIC
COSN28877643 42 COSMIC
COSN16841363 218 COSMIC
COSN22320878 264 COSMIC
COSN6590442 705 COSMIC
COSN22426339 857 COSMIC
COSN22372648 935 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1370367487 1 dbSNP
rs1219241975 4 dbSNP
rs1305739367 10 dbSNP
rs1015703066 11 dbSNP
rs755196232 15 dbSNP
rs779142531 16 dbSNP
rs748200081 18 dbSNP
rs1247409250 20 dbSNP
rs758968087 21 dbSNP
rs1248323911 22 dbSNP
rs145699923 23 dbSNP
rs1312219193 27 dbSNP
rs747520082 27 dbSNP
rs771257339 29 dbSNP
rs1237717109 31 dbSNP
rs1225609826 37 dbSNP
rs75997823 38 dbSNP
rs1160628160 39 dbSNP
rs748941263 42 dbSNP
rs545175228 43 dbSNP
rs1163137124 45 dbSNP
rs773869839 52 dbSNP
rs753770909 53 dbSNP
rs989131309 54 dbSNP
rs1360020657 64 dbSNP
rs1175588694 72 dbSNP
rs1022238647 76 dbSNP
rs1389409655 92 dbSNP
rs905815411 104 dbSNP
rs966599419 125 dbSNP
rs1430033054 135 dbSNP
rs1253853504 149 dbSNP
rs45622835 153 dbSNP
rs1001137658 159 dbSNP
rs1483359053 160 dbSNP
rs1259251016 168 dbSNP
rs1372112520 169 dbSNP
rs1236967167 172 dbSNP
rs1273045421 189 dbSNP
rs147740049 200 dbSNP
rs567931018 206 dbSNP
rs553884202 213 dbSNP
rs892879898 215 dbSNP
rs1253144828 219 dbSNP
rs1010368547 222 dbSNP
rs977250012 230 dbSNP
rs777614050 236 dbSNP
rs1408016294 238 dbSNP
rs533911338 239 dbSNP
rs1020035915 241 dbSNP
rs932664382 242 dbSNP
rs1463432990 247 dbSNP
rs955706522 248 dbSNP
rs1008410534 249 dbSNP
rs1190766320 258 dbSNP
rs553882831 277 dbSNP
rs1424245118 278 dbSNP
rs1419482057 286 dbSNP
rs1018526736 287 dbSNP
rs1454521465 293 dbSNP
rs1195292927 299 dbSNP
rs1251942347 308 dbSNP
rs41267923 309 dbSNP
rs1264275368 312 dbSNP
rs1481900411 312 dbSNP
rs1428997303 313 dbSNP
rs1171135239 315 dbSNP
rs1355761225 316 dbSNP
rs770873752 330 dbSNP
rs919889038 333 dbSNP
rs1393273889 334 dbSNP
rs557887326 338 dbSNP
rs140968699 339 dbSNP
rs1458166809 346 dbSNP
rs1292516242 352 dbSNP
rs190991772 354 dbSNP
rs556944775 358 dbSNP
rs1396438057 359 dbSNP
rs906710234 361 dbSNP
rs1394789183 365 dbSNP
rs1412332292 370 dbSNP
rs918020309 372 dbSNP
rs1183354663 380 dbSNP
rs1442710167 383 dbSNP
rs1430958340 384 dbSNP
rs949909589 392 dbSNP
rs1295816922 394 dbSNP
rs181403362 398 dbSNP
rs1209793236 400 dbSNP
rs1469157571 402 dbSNP
rs927209754 403 dbSNP
rs894870452 413 dbSNP
rs142399461 447 dbSNP
rs562127605 451 dbSNP
rs572320166 457 dbSNP
rs1021956097 465 dbSNP
rs1329427986 472 dbSNP
rs966651315 474 dbSNP
rs561338773 483 dbSNP
rs759568240 488 dbSNP
rs1373145814 493 dbSNP
rs1318284281 494 dbSNP
rs80165853 495 dbSNP
rs1388836375 500 dbSNP
rs1159957217 501 dbSNP
rs966286626 507 dbSNP
rs532212429 511 dbSNP
rs974579724 512 dbSNP
rs1199005605 516 dbSNP
rs1469977766 521 dbSNP
rs796467289 536 dbSNP
rs9393721 541 dbSNP
rs984122994 542 dbSNP
rs890909529 551 dbSNP
rs939982836 553 dbSNP
rs1285144763 561 dbSNP
rs1421578931 565 dbSNP
rs1037251853 567 dbSNP
rs151275014 571 dbSNP
rs1018495642 597 dbSNP
rs76504501 598 dbSNP
rs1349961842 602 dbSNP
rs1295325076 610 dbSNP
rs760872360 619 dbSNP
rs1163431773 623 dbSNP
rs1319837676 639 dbSNP
rs995718126 640 dbSNP
rs1027256756 647 dbSNP
rs951428827 652 dbSNP
rs764431031 674 dbSNP
rs1436114555 675 dbSNP
rs1318195485 676 dbSNP
rs982830519 678 dbSNP
rs1431937001 685 dbSNP
rs754198873 705 dbSNP
rs1243083669 707 dbSNP
rs970876002 716 dbSNP
rs981232871 725 dbSNP
rs1255822797 729 dbSNP
rs927096130 738 dbSNP
rs185627402 742 dbSNP
rs531651738 748 dbSNP
rs548162241 752 dbSNP
rs1337130180 753 dbSNP
rs866281862 754 dbSNP
rs1226786460 756 dbSNP
rs1339503763 758 dbSNP
rs1313117119 764 dbSNP
rs140483657 766 dbSNP
rs914504161 771 dbSNP
rs150406471 777 dbSNP
rs1216277611 782 dbSNP
rs751146117 783 dbSNP
rs1170006328 790 dbSNP
rs1472018260 793 dbSNP
rs902189159 797 dbSNP
rs1188953485 806 dbSNP
rs1486672185 809 dbSNP
rs1249674438 815 dbSNP
rs1204588686 817 dbSNP
rs1482216268 822 dbSNP
rs1438313314 827 dbSNP
rs537627748 828 dbSNP
rs1275112910 829 dbSNP
rs1207775501 830 dbSNP
rs1355394713 832 dbSNP
rs1417930106 832 dbSNP
rs1293476014 840 dbSNP
rs374762838 842 dbSNP
rs1348281654 845 dbSNP
rs367610347 847 dbSNP
rs1442374592 851 dbSNP
rs547557380 853 dbSNP
rs770137967 854 dbSNP
rs1039472934 863 dbSNP
rs1401597778 868 dbSNP
rs1403908896 870 dbSNP
rs1018892979 883 dbSNP
rs1166152893 887 dbSNP
rs551591128 888 dbSNP
rs965972325 894 dbSNP
rs113625452 897 dbSNP
rs995686302 904 dbSNP
rs1234476776 907 dbSNP
rs1357828589 914 dbSNP
rs570559136 920 dbSNP
rs887389502 921 dbSNP
rs1357385937 923 dbSNP
rs527383462 933 dbSNP
rs1025009225 934 dbSNP
rs984170518 935 dbSNP
rs909933857 947 dbSNP
rs971144420 950 dbSNP
rs9770 953 dbSNP
rs141194871 954 dbSNP
rs1033744916 956 dbSNP
rs928229027 958 dbSNP
rs1326982891 959 dbSNP
rs189698449 961 dbSNP
rs144928044 962 dbSNP
rs1158671976 973 dbSNP
rs914457831 976 dbSNP
rs946026171 985 dbSNP
rs555762025 990 dbSNP
rs912188634 991 dbSNP
rs946833428 999 dbSNP
rs41267925 1004 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 10384.0
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 ...

- 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' acucUGUCCAAGUACGACGAUa 5'
              || ||   : ||||||| 
Target 5' --uuACUGG---GAGCUGCUAu 3'
1 - 17
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 ENST00000380591.3 | 3UTR | UUACUGGGAGCUGCUAUUUUAUAUUAUGACUGCUUUUUAAG
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
180 hsa-miR-4524a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT055251 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT055826 PLEKHA1 pleckstrin homology domain containing A1 2 2
MIRT060573 CCND1 cyclin D1 2 2
MIRT061013 C1ORF21 chromosome 1 open reading frame 21 2 6
MIRT064694 CCND2 cyclin D2 2 4
MIRT075268 SNTB2 syntrophin beta 2 2 4
MIRT079668 NAPG NSF attachment protein gamma 2 12
MIRT081651 CCNE1 cyclin E1 2 4
MIRT082996 PNPLA6 patatin like phospholipase domain containing 6 2 2
MIRT083463 RALGAPB Ral GTPase activating protein non-catalytic beta subunit 2 4
MIRT085755 RIF1 replication timing regulatory factor 1 2 2
MIRT086022 UBR3 ubiquitin protein ligase E3 component n-recognin 3 (putative) 2 2
MIRT087431 ZNRF3 zinc and ring finger 3 2 2
MIRT088786 SOCS5 suppressor of cytokine signaling 5 2 2
MIRT089221 ACTR2 ARP2 actin related protein 2 homolog 2 2
MIRT093696 PI4K2B phosphatidylinositol 4-kinase type 2 beta 2 6
MIRT095090 SEC24A SEC24 homolog A, COPII coat complex component 2 4
MIRT096249 CANX calnexin 2 2
MIRT100215 PPP1R11 protein phosphatase 1 regulatory inhibitor subunit 11 2 2
MIRT100746 VEGFA vascular endothelial growth factor A 2 12
MIRT100904 CD2AP CD2 associated protein 2 2
MIRT102647 UBN2 ubinuclein 2 2 10
MIRT103882 FOXK1 forkhead box K1 2 2
MIRT104246 DMTF1 cyclin D binding myb like transcription factor 1 2 2
MIRT106310 ZFHX4 zinc finger homeobox 4 2 6
MIRT107696 RECK reversion inducing cysteine rich protein with kazal motifs 2 2
MIRT114943 CHAC1 ChaC glutathione specific gamma-glutamylcyclotransferase 1 2 2
MIRT117671 SCAMP4 secretory carrier membrane protein 4 2 2
MIRT133799 SKI SKI proto-oncogene 2 2
MIRT140167 SPRED1 sprouty related EVH1 domain containing 1 2 2
MIRT142279 DCTN5 dynactin subunit 5 2 8
MIRT143288 N4BP1 NEDD4 binding protein 1 2 2
MIRT165939 CREBRF CREB3 regulatory factor 2 2
MIRT175251 PSAT1 phosphoserine aminotransferase 1 2 6
MIRT186381 PNRC2 proline rich nuclear receptor coactivator 2 2 2
MIRT191470 PPM1A protein phosphatase, Mg2+/Mn2+ dependent 1A 2 2
MIRT196480 TAOK1 TAO kinase 1 2 2
MIRT201470 SNRPB2 small nuclear ribonucleoprotein polypeptide B2 2 8
MIRT204615 HSPE1-MOB4 HSPE1-MOB4 readthrough 2 8
MIRT204646 MOB4 MOB family member 4, phocein 2 8
MIRT204749 BZW1 basic leucine zipper and W2 domains 1 2 12