miRTarBase - #MIRT484963


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pre-miRNA Information
pre-miRNA hsa-mir-6737   
Genomic Coordinates chr1: 153962351 - 153962420
Description Homo sapiens miR-6737 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6737-5p
Sequence 6| UUGGGGUGGUCGGCCCUGGAG |26
Evidence Experimental
Experiments Meta-analysis
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs766338599 4 dbSNP
rs765728788 7 dbSNP
rs757341439 9 dbSNP
rs539511149 11 dbSNP
rs764259486 12 dbSNP
rs988937601 21 dbSNP
Putative Targets

Gene Information
Gene Symbol UCK1   
Synonyms URK1
Description uridine-cytidine kinase 1
Transcript NM_001135954   
Other Transcripts NM_031432   
Expression
Putative miRNA Targets on UCK1
3'UTR of UCK1
(miRNA target sites are highlighted)		 
>UCK1|NM_001135954|3'UTR
   1 CATCTGCAAATGGCACCGAGGAGGGTCCAATGGGCGGAGCTACAAGCGGACCTTTTCTGAGCCAGGGGACCACCCTGGGA
  81 TGCTGACCTCTGGCAAACGGTCACATTTGGAGTCCAGCAGCAGACCCCACTGAGGGGCTGCCGAGCCTCAGGGCAGGTCT
 161 CCCGCCCGGCATGTGTGTTCAGGGACTGAGCCTGGGGACGCCCACCCACACCCACTGCTTCCTCTCGGCGCACCCCAGGG
 241 GAGTGTTAGCAGCGAGGCCTTCCTCACTCAGGAGTGGAAACTCAGATGTGTCACTCAGACTCAACTTGCTGGGACACTGA
 321 CAGGCGTTCCTGAGGTTTTCAGCCACTTAGGCTCGTTGCGGTTTAAAGATCCCTCTAGGTCACTGAGAAATGCCACAGAA
 401 TGTGCAGGAAGCCTGGGAGGCTTCTGTGAGGAATGTGAGGCACATTATTGGGGAAATTGAGGAGACAGCCTAGACACTGG
 481 CTGGCCTGATGTTTTGTTGACAGTGAACCCACAGTGGGAGAGAGTTTTTTCCAGTCTGATCTGGTTCTTACACACTCACA
 561 CACATAACTCAAAAGTTTTGTGAACAAGTACTTTCCTTTTTTACATGTTACATGTCCTCATGTTTTCTGTTTTCTGTTTC
 641 ATAACACAAGGCTGGTTGTGGCCTACAAACCTAATTTCATGACCCAGTGGTTTGCAGTCCAGCGTGGCCTACACGGATAT
 721 GGGGAGCCACTGAGGGATGTTTTCCCCCCTTGCTTGTGCCTTAAAGGCAGAGAAGCGAGGCGGATGCCCTGGAAGCACCC
 801 AGCATCACACCCAGGCTTGTGCGGGGCCAGGCTGGGAGCCCATGCAGTAGGGCAGAAGGCAGCGGAGGCCAGGTCTGTCC
 881 CGGCTGGAGAACAGCGTCCACGCAGTCCTGCCTGGGGTCAGGCCCTCACTGACCCTCAGGGGAGCCCCCAAGGTGCTGTC
 961 TGTCTAGACAGGCTGTCCCACCCCAGGGTGGCTAGTGGCCATATGCAGGGAATGGTGCTTCTGGCTGTGGCACGCACTGG
1041 ATCACCCAGGTCCCAGCAGACATGGCCGCCCAAAGTCAGCAAGCCTCCTTTGTGCTATGTGGAGCTCACAGCCTCACATG
1121 TGAACACCCGTGTCTGGGTTGCCTGGGGTGATCCTCCCTCCTGCGTGGTGGCTGTCTCTGGAAAGCATCCCTTGCCGCTG
1201 CCATGGGCAGCCCCAGCCCCCGTCCGTCCAGGCTCACCCACAGTAGTGATGCAGACGTGACGTGGGGGAAGGGGGCTGAG
1281 CCCTGTGGCTGGGTTCTGACAACTGTAACGGTTTTGTCGAGCTTAGGCCCCTTTGGAGGGAGAATCAATAAATAACAAAC
1361 ACCAACTACAAACGCCAAAAAAAAAAAAA
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' gaGGUC---CCGGC-UGGUGGGGUu 5'
            |:||   |||:|  |||||||| 
Target 5' gtCTAGACAGGCTGTCCCACCCCAg 3'
 962 - 986 159.00 -28.60
2 
miRNA  3' gaggucccGGCUG-GUGGGGUu 5'
                  :||:| ||||||| 
Target 5' gcttcctcTCGGCGCACCCCAg 3'
 217 - 238 149.00 -24.00
3 
miRNA  3' gaGGUCCCGGCUGGUGGGGUu 5'
            ||||||  ||||||||:: 
Target 5' agCCAGGG--GACCACCCTGg 3'
 60 - 78 143.00 -28.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
914896 1373 ClinVar
COSM5503549 14 COSMIC
COSM135959 17 COSMIC
COSM1106166 18 COSMIC
COSM3716139 27 COSMIC
COSM8851985 28 COSMIC
COSM7954373 32 COSMIC
COSM9137702 36 COSMIC
COSM4643322 47 COSMIC
COSM8960311 48 COSMIC
COSM121054 63 COSMIC
COSM3212186 68 COSMIC
COSM4885428 69 COSMIC
COSM6252710 94 COSMIC
COSM9163509 94 COSMIC
COSM6816107 98 COSMIC
COSM3212182 99 COSMIC
COSM5012091 113 COSMIC
COSM5875729 114 COSMIC
COSM8157334 128 COSMIC
COSN30512658 164 COSMIC
COSN30152065 167 COSMIC
COSN27001054 199 COSMIC
COSN27001053 200 COSMIC
COSN27001050 212 COSMIC
COSN14377425 226 COSMIC
COSN30686007 253 COSMIC
COSN16130444 283 COSMIC
COSN19665323 295 COSMIC
COSN20106690 553 COSMIC
COSN6381140 556 COSMIC
COSN2311823 617 COSMIC
COSN20106688 621 COSMIC
COSN27233371 1104 COSMIC
COSN8296078 1257 COSMIC
COSN2311821 1343 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1375385210 1 dbSNP
rs774195572 5 dbSNP
rs1191413950 9 dbSNP
rs887314236 16 dbSNP
rs750633412 17 dbSNP
rs368165696 18 dbSNP
rs775436536 23 dbSNP
rs769643661 24 dbSNP
rs747259138 25 dbSNP
rs778038597 26 dbSNP
rs201376153 28 dbSNP
rs773695725 34 dbSNP
rs772089212 35 dbSNP
rs565443245 36 dbSNP
rs150739415 39 dbSNP
rs754228086 43 dbSNP
rs917905501 45 dbSNP
rs1373902561 47 dbSNP
rs374240199 48 dbSNP
rs370297704 51 dbSNP
rs935253752 52 dbSNP
rs142125779 56 dbSNP
rs756498157 60 dbSNP
rs1416948370 62 dbSNP
rs1322865034 69 dbSNP
rs1429711255 73 dbSNP
rs1468961662 75 dbSNP
rs750101981 76 dbSNP
rs1160713693 78 dbSNP
rs368615029 82 dbSNP
rs979247181 83 dbSNP
rs12682945 84 dbSNP
rs1251821364 86 dbSNP
rs756819211 87 dbSNP
rs561411164 91 dbSNP
rs763638424 94 dbSNP
rs774541508 98 dbSNP
rs140263063 99 dbSNP
rs1215227127 106 dbSNP
rs1261519459 108 dbSNP
rs1230257262 110 dbSNP
rs1302858736 110 dbSNP
rs765178171 116 dbSNP
rs1306124358 121 dbSNP
rs759348774 124 dbSNP
rs1381331580 125 dbSNP
rs773351329 129 dbSNP
rs1451708353 131 dbSNP
rs941941608 133 dbSNP
rs1232059552 135 dbSNP
rs1322174648 136 dbSNP
rs772374124 141 dbSNP
rs200267619 142 dbSNP
rs575275748 143 dbSNP
rs975793544 149 dbSNP
rs1416644308 151 dbSNP
rs749860941 153 dbSNP
rs1461168646 156 dbSNP
rs1437006845 158 dbSNP
rs1351546039 159 dbSNP
rs746275098 163 dbSNP
rs374427335 164 dbSNP
rs1426490466 165 dbSNP
rs138572120 167 dbSNP
rs59739507 168 dbSNP
rs757964971 171 dbSNP
rs1436145226 173 dbSNP
rs752727890 174 dbSNP
rs1443240867 177 dbSNP
rs1447283996 179 dbSNP
rs765185850 179 dbSNP
rs759355452 183 dbSNP
rs951628604 187 dbSNP
rs1222988855 190 dbSNP
rs150900763 194 dbSNP
rs995666070 197 dbSNP
rs1451096582 199 dbSNP
rs552704233 200 dbSNP
rs534554830 202 dbSNP
rs986350241 205 dbSNP
rs1466697997 207 dbSNP
rs1194970474 208 dbSNP
rs75755117 209 dbSNP
rs1382776488 210 dbSNP
rs1332904848 216 dbSNP
rs1396147699 217 dbSNP
rs1470134457 217 dbSNP
rs1175819901 219 dbSNP
rs1410685166 220 dbSNP
rs1403761789 221 dbSNP
rs1165742686 226 dbSNP
rs1013673383 227 dbSNP
rs546675869 227 dbSNP
rs187612828 228 dbSNP
rs760088881 229 dbSNP
rs1463062977 230 dbSNP
rs141544324 236 dbSNP
rs1442680370 237 dbSNP
rs1367867011 243 dbSNP
rs775873514 253 dbSNP
rs976594523 254 dbSNP
rs1444157925 260 dbSNP
rs376780481 267 dbSNP
rs569608401 270 dbSNP
rs1020271947 271 dbSNP
rs77198365 281 dbSNP
rs1215015334 285 dbSNP
rs1290019972 287 dbSNP
rs1437738261 288 dbSNP
rs1043962180 291 dbSNP
rs1235136813 293 dbSNP
rs1473087477 300 dbSNP
rs1244298285 305 dbSNP
rs1356226961 309 dbSNP
rs1476331014 318 dbSNP
rs893092548 325 dbSNP
rs1034586922 326 dbSNP
rs1247652828 326 dbSNP
rs80285602 334 dbSNP
rs1408307669 340 dbSNP
rs1332293239 343 dbSNP
rs1326693997 346 dbSNP
rs148350493 354 dbSNP
rs181965202 355 dbSNP
rs1292521098 357 dbSNP
rs1045461346 359 dbSNP
rs547209973 360 dbSNP
rs143082001 361 dbSNP
rs896810789 367 dbSNP
rs975846146 369 dbSNP
rs965760459 371 dbSNP
rs561352423 375 dbSNP
rs942252355 376 dbSNP
rs909430223 396 dbSNP
rs746299390 399 dbSNP
rs1255903233 403 dbSNP
rs776390506 413 dbSNP
rs983100207 415 dbSNP
rs1372752998 417 dbSNP
rs1474439878 419 dbSNP
rs1370844949 421 dbSNP
rs543134818 422 dbSNP
rs1309594165 428 dbSNP
rs1027266981 429 dbSNP
rs113983294 436 dbSNP
rs575670094 437 dbSNP
rs563661433 445 dbSNP
rs1163714924 450 dbSNP
rs1473741076 457 dbSNP
rs976181531 458 dbSNP
rs1362135415 463 dbSNP
rs542537814 465 dbSNP
rs1020237578 467 dbSNP
rs1299267726 472 dbSNP
rs750138511 476 dbSNP
rs770753621 477 dbSNP
rs1278821146 479 dbSNP
rs1023800551 496 dbSNP
rs1254294425 500 dbSNP
rs1347528267 503 dbSNP
rs1201412431 504 dbSNP
rs1220579745 510 dbSNP
rs1445536743 514 dbSNP
rs1451346676 517 dbSNP
rs545077063 519 dbSNP
rs1291052480 520 dbSNP
rs1393224121 525 dbSNP
rs957373713 525 dbSNP
rs147743666 531 dbSNP
rs1034231361 535 dbSNP
rs746660686 538 dbSNP
rs1380231360 541 dbSNP
rs971225320 543 dbSNP
rs1322154573 549 dbSNP
rs577513289 550 dbSNP
rs552890147 551 dbSNP
rs534496426 552 dbSNP
rs573530971 553 dbSNP
rs1350690644 556 dbSNP
rs72619324 556 dbSNP
rs1269011154 558 dbSNP
rs1289787398 558 dbSNP
rs10609062 560 dbSNP
rs35345663 560 dbSNP
rs756210631 560 dbSNP
rs201712996 561 dbSNP
rs993915920 562 dbSNP
rs1199291934 563 dbSNP
rs1160878307 564 dbSNP
rs1362953950 564 dbSNP
rs1460447308 565 dbSNP
rs896942484 565 dbSNP
rs1038134002 567 dbSNP
rs1370357185 568 dbSNP
rs1324045865 569 dbSNP
rs1387918847 569 dbSNP
rs1334279743 570 dbSNP
rs1230654705 571 dbSNP
rs1289163872 573 dbSNP
rs1005184073 575 dbSNP
rs1211857006 576 dbSNP
rs1267370725 582 dbSNP
rs1169980817 588 dbSNP
rs1407007951 589 dbSNP
rs1013683161 595 dbSNP
rs889476008 603 dbSNP
rs896530945 604 dbSNP
rs1471460638 605 dbSNP
rs1052880230 606 dbSNP
rs1158482022 615 dbSNP
rs1457801150 621 dbSNP
rs202115100 629 dbSNP
rs376069644 629 dbSNP
rs761008688 629 dbSNP
rs142080535 633 dbSNP
rs145594185 640 dbSNP
rs77788301 640 dbSNP
rs73557711 641 dbSNP
rs1351056625 644 dbSNP
rs1040981838 647 dbSNP
rs528221485 659 dbSNP
rs1394992241 662 dbSNP
rs903841149 663 dbSNP
rs1309056502 668 dbSNP
rs190255032 670 dbSNP
rs747997904 677 dbSNP
rs1231626500 679 dbSNP
rs557686981 683 dbSNP
rs990194665 684 dbSNP
rs1329178828 700 dbSNP
rs957344210 703 dbSNP
rs777294183 704 dbSNP
rs539106371 714 dbSNP
rs757846900 715 dbSNP
rs1366542103 718 dbSNP
rs1415547624 719 dbSNP
rs1169191304 720 dbSNP
rs1275201929 720 dbSNP
rs980028669 721 dbSNP
rs1388819727 724 dbSNP
rs1432238480 732 dbSNP
rs971742834 736 dbSNP
rs574655809 738 dbSNP
rs921804127 742 dbSNP
rs1040150746 743 dbSNP
rs1381687764 744 dbSNP
rs530736116 744 dbSNP
rs961202386 748 dbSNP
rs1230446239 750 dbSNP
rs1339956622 750 dbSNP
rs1275266569 753 dbSNP
rs944462995 760 dbSNP
rs1238820103 766 dbSNP
rs1362809367 766 dbSNP
rs1319750577 767 dbSNP
rs1483393885 769 dbSNP
rs1185422917 770 dbSNP
rs907594325 776 dbSNP
rs1450803520 779 dbSNP
rs1005321536 781 dbSNP
rs571957346 782 dbSNP
rs1049886591 796 dbSNP
rs554953036 799 dbSNP
rs1174129493 801 dbSNP
rs1359960208 807 dbSNP
rs1414107987 807 dbSNP
rs930349495 809 dbSNP
rs1318799581 811 dbSNP
rs996441180 812 dbSNP
rs902126014 815 dbSNP
rs1183747725 817 dbSNP
rs547351898 819 dbSNP
rs1298181513 820 dbSNP
rs1370215278 822 dbSNP
rs920252727 823 dbSNP
rs748063822 829 dbSNP
rs1280547002 834 dbSNP
rs762953703 836 dbSNP
rs1174642137 842 dbSNP
rs528675224 843 dbSNP
rs72757667 851 dbSNP
rs1023810487 857 dbSNP
rs913420641 863 dbSNP
rs145213896 864 dbSNP
rs1466693830 866 dbSNP
rs530987966 872 dbSNP
rs1193273475 874 dbSNP
rs563679829 878 dbSNP
rs1031111878 879 dbSNP
rs1157163450 880 dbSNP
rs575469887 881 dbSNP
rs903895267 882 dbSNP
rs917114685 883 dbSNP
rs1349219543 887 dbSNP
rs1434285479 888 dbSNP
rs1276555131 892 dbSNP
rs1367996598 893 dbSNP
rs753676054 894 dbSNP
rs533189536 895 dbSNP
rs559203415 896 dbSNP
rs1339740673 898 dbSNP
rs540901666 901 dbSNP
rs1449392455 902 dbSNP
rs1040203044 906 dbSNP
rs944515107 911 dbSNP
rs886253467 912 dbSNP
rs114170828 917 dbSNP
rs1367339485 918 dbSNP
rs1164281758 924 dbSNP
rs1411641212 928 dbSNP
rs930380084 929 dbSNP
rs920281449 932 dbSNP
rs998224704 938 dbSNP
rs533332048 940 dbSNP
rs1019129874 942 dbSNP
rs555499505 943 dbSNP
rs1359845807 944 dbSNP
rs543253634 946 dbSNP
rs569035058 947 dbSNP
rs1054574911 950 dbSNP
rs757424092 950 dbSNP
rs557604930 951 dbSNP
rs1428077114 953 dbSNP
rs1389942294 958 dbSNP
rs1353596234 962 dbSNP
rs747042466 964 dbSNP
rs1291188326 966 dbSNP
rs574123471 966 dbSNP
rs1437798372 968 dbSNP
rs1203445982 970 dbSNP
rs778099973 972 dbSNP
rs149905156 976 dbSNP
rs1254484257 979 dbSNP
rs1483592399 988 dbSNP
rs34222961 989 dbSNP
rs1187450229 991 dbSNP
rs992395832 992 dbSNP
rs1235971961 995 dbSNP
rs1473806602 1004 dbSNP
rs1044489913 1012 dbSNP
rs1163953172 1019 dbSNP
rs1186306989 1020 dbSNP
rs960930193 1021 dbSNP
rs917267973 1022 dbSNP
rs186579324 1033 dbSNP
rs146767854 1034 dbSNP
rs939945890 1035 dbSNP
rs1338385513 1038 dbSNP
rs1449542486 1040 dbSNP
rs1284343477 1041 dbSNP
rs1482617209 1041 dbSNP
rs553823990 1042 dbSNP
rs1277398251 1045 dbSNP
rs1343261023 1046 dbSNP
rs535300332 1051 dbSNP
rs996110746 1052 dbSNP
rs1444418761 1062 dbSNP
rs772299562 1067 dbSNP
rs181575737 1068 dbSNP
rs1447739621 1072 dbSNP
rs1186552059 1076 dbSNP
rs1391970909 1076 dbSNP
rs1273632915 1082 dbSNP
rs1008765851 1086 dbSNP
rs555905703 1087 dbSNP
rs11023 1088 dbSNP
rs886308313 1089 dbSNP
rs1399600605 1090 dbSNP
rs1415874453 1093 dbSNP
rs374384008 1093 dbSNP
rs1020605700 1097 dbSNP
rs549552489 1098 dbSNP
rs149743984 1099 dbSNP
rs570120549 1103 dbSNP
rs1286100298 1104 dbSNP
rs1254687175 1109 dbSNP
rs1347596502 1118 dbSNP
rs1408221175 1120 dbSNP
rs1033233644 1129 dbSNP
rs538709606 1130 dbSNP
rs906050624 1130 dbSNP
rs1429117711 1133 dbSNP
rs1308988581 1134 dbSNP
rs1044096317 1137 dbSNP
rs1431972868 1137 dbSNP
rs1375659893 1139 dbSNP
rs1478887764 1141 dbSNP
rs1172758945 1143 dbSNP
rs1348525196 1144 dbSNP
rs1387520360 1146 dbSNP
rs948394173 1150 dbSNP
rs916898028 1152 dbSNP
rs1390004536 1154 dbSNP
rs1413879309 1158 dbSNP
rs950193654 1162 dbSNP
rs10698 1164 dbSNP
rs111722104 1165 dbSNP
rs939593617 1174 dbSNP
rs1327393292 1180 dbSNP
rs1210666244 1184 dbSNP
rs1268906213 1188 dbSNP
rs533276272 1190 dbSNP
rs924142507 1195 dbSNP
rs559290068 1196 dbSNP
rs541038633 1197 dbSNP
rs529104087 1200 dbSNP
rs561878410 1203 dbSNP
rs14188 1204 dbSNP
rs1471441144 1205 dbSNP
rs1160944711 1211 dbSNP
rs1411972842 1212 dbSNP
rs932450888 1218 dbSNP
rs921117682 1220 dbSNP
rs974785462 1221 dbSNP
rs1349988884 1222 dbSNP
rs964720589 1225 dbSNP
rs140830358 1226 dbSNP
rs1348843387 1232 dbSNP
rs1365851016 1235 dbSNP
rs1293379740 1237 dbSNP
rs1458853812 1240 dbSNP
rs1008822582 1244 dbSNP
rs950651924 1247 dbSNP
rs765884067 1249 dbSNP
rs1358470659 1250 dbSNP
rs1222942093 1252 dbSNP
rs1166426726 1253 dbSNP
rs913567687 1256 dbSNP
rs1481953837 1257 dbSNP
rs1183845700 1258 dbSNP
rs552916332 1261 dbSNP
rs1026163841 1262 dbSNP
rs188862912 1266 dbSNP
rs369028603 1271 dbSNP
rs1425911139 1272 dbSNP
rs1420505642 1276 dbSNP
rs35401762 1276 dbSNP
rs1369023443 1278 dbSNP
rs1264988390 1279 dbSNP
rs1308809280 1281 dbSNP
rs1033201085 1284 dbSNP
rs1190458164 1288 dbSNP
rs771450748 1294 dbSNP
rs1274928568 1298 dbSNP
rs1023158931 1305 dbSNP
rs1014753547 1306 dbSNP
rs1273867862 1306 dbSNP
rs1339750127 1306 dbSNP
rs895940621 1308 dbSNP
rs567944498 1309 dbSNP
rs184087894 1310 dbSNP
rs895519979 1318 dbSNP
rs553760667 1319 dbSNP
rs535491149 1320 dbSNP
rs1171643920 1329 dbSNP
rs574267752 1330 dbSNP
rs1370215726 1331 dbSNP
rs939623985 1336 dbSNP
rs1319072265 1337 dbSNP
rs924165770 1344 dbSNP
rs1042575666 1346 dbSNP
rs1435029850 1352 dbSNP
rs1434493691 1354 dbSNP
rs1296755938 1356 dbSNP
rs768697808 1356 dbSNP
rs747681163 1360 dbSNP
rs3183977 1361 dbSNP
rs1207499859 1362 dbSNP
rs915392439 1362 dbSNP
rs921077896 1363 dbSNP
rs1387190771 1371 dbSNP
rs550900373 1373 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
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 GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gaggucccGGCUG-GUGGGGuu 5'
                  :||:| ||||||  
Target 5' ----ccucUCGGCGCACCCC-- 3'
 		1 - 16
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM1462573
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl BaL
Location of target site ENST00000372208.3 | 3UTR | CCUCUCGGCGCACCCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
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-6737-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT066215 MARCH9 membrane associated ring-CH-type finger 9 2 2
MIRT074413 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT125300 MID1IP1 MID1 interacting protein 1 2 2
MIRT153951 NCOA3 nuclear receptor coactivator 3 2 2
MIRT452776 FAM136A family with sequence similarity 136 member A 2 2
MIRT452977 CABP4 calcium binding protein 4 2 2
MIRT454128 FOXRED2 FAD dependent oxidoreductase domain containing 2 2 2
MIRT455242 DDX39B DExD-box helicase 39B 2 10
MIRT459007 UQCRH ubiquinol-cytochrome c reductase hinge protein 2 2
MIRT459463 MUC17 mucin 17, cell surface associated 2 4
MIRT460871 UBE2S ubiquitin conjugating enzyme E2 S 2 2
MIRT461264 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 2
MIRT464540 UBTF upstream binding transcription factor, RNA polymerase I 2 2
MIRT465268 TRIM28 tripartite motif containing 28 2 2
MIRT465871 TMEM43 transmembrane protein 43 2 4
MIRT466228 TMED10 transmembrane p24 trafficking protein 10 2 2
MIRT468417 SETD1B SET domain containing 1B 2 2
MIRT468684 SEC22C SEC22 homolog C, vesicle trafficking protein 2 4
MIRT473399 MDM4 MDM4, p53 regulator 2 2
MIRT473517 MAX MYC associated factor X 2 2
MIRT474511 KLHDC8A kelch domain containing 8A 2 2
MIRT475801 HDGF heparin binding growth factor 2 2
MIRT479493 CDH6 cadherin 6 2 2
MIRT480770 BMP2 bone morphogenetic protein 2 2 2
MIRT481418 ASB6 ankyrin repeat and SOCS box containing 6 2 2
MIRT482966 CSTF2 cleavage stimulation factor subunit 2 2 2
MIRT483380 SPATA6 spermatogenesis associated 6 2 4
MIRT483677 CYP11A1 cytochrome P450 family 11 subfamily A member 1 2 2
MIRT484328 EPN1 epsin 1 2 4
MIRT484963 UCK1 uridine-cytidine kinase 1 2 2
MIRT485908 PGPEP1 pyroglutamyl-peptidase I 2 4
MIRT488149 PRRC2B proline rich coiled-coil 2B 2 4
MIRT488943 CYP2W1 cytochrome P450 family 2 subfamily W member 1 2 6
MIRT491835 ZBTB7A zinc finger and BTB domain containing 7A 2 4
MIRT493026 NAA50 N(alpha)-acetyltransferase 50, NatE catalytic subunit 2 2
MIRT499374 PLCG2 phospholipase C gamma 2 2 11
MIRT499723 USH1G USH1 protein network component sans 2 4
MIRT500349 ZNF385A zinc finger protein 385A 2 2
MIRT509574 HIST2H2AB histone cluster 2 H2A family member b 2 4
MIRT512794 GLRX glutaredoxin 2 2
MIRT513291 SETBP1 SET binding protein 1 2 2
MIRT515697 ZNF321P zinc finger protein 321, pseudogene 2 2
MIRT518255 LEAP2 liver enriched antimicrobial peptide 2 2 2
MIRT522026 PAQR3 progestin and adipoQ receptor family member 3 2 4
MIRT523169 HIST3H3 histone cluster 3 H3 2 2
MIRT524036 DNAJC8 DnaJ heat shock protein family (Hsp40) member C8 2 2
MIRT533476 TRIM71 tripartite motif containing 71 2 2
MIRT541488 ADM adrenomedullin 2 2
MIRT553987 SRPR SRP receptor alpha subunit 2 2
MIRT571445 YKT6 YKT6 v-SNARE homolog 2 2
MIRT574889 Plcg2 phospholipase C, gamma 2 2 7
MIRT607544 GLI2 GLI family zinc finger 2 2 2
MIRT607688 MAPK10 mitogen-activated protein kinase 10 2 2
MIRT610072 CRLF1 cytokine receptor like factor 1 2 2
MIRT610573 CACUL1 CDK2 associated cullin domain 1 2 2
MIRT614041 THBS2 thrombospondin 2 2 2
MIRT626318 LRTOMT leucine rich transmembrane and O-methyltransferase domain containing 2 2
MIRT634005 RIF1 replication timing regulatory factor 1 2 2
MIRT639619 FGF19 fibroblast growth factor 19 2 2
MIRT647343 RPH3AL rabphilin 3A like (without C2 domains) 2 2
MIRT689704 ATXN2 ataxin 2 2 2
MIRT691170 APOL6 apolipoprotein L6 2 2
MIRT693165 NPR1 natriuretic peptide receptor 1 2 2
MIRT711727 NUPL2 nucleoporin like 2 2 2
MIRT711806 ELN elastin 2 2
MIRT721546 FXN frataxin 2 2
MIRT722979 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-6737 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-6737 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-6737-5p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-6737-5p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-6737-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-6737-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-6737-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-6737-5p Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-6737-5p Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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