miRTarBase - #MIRT347200


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pre-miRNA Information
pre-miRNA hsa-mir-7113   
Genomic Coordinates chr11: 68032864 - 68032922
Description Homo sapiens miR-7113 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-7113-5p
Sequence 2| UCCAGGGAGACAGUGUGUGAG |22
Evidence Experimental
Experiments Meta-analysis
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs536888936 4 dbSNP
rs896404692 5 dbSNP
rs1431421326 7 dbSNP
rs746958707 11 dbSNP
rs756213920 13 dbSNP
rs1467018028 14 dbSNP
rs1168207815 21 dbSNP
Putative Targets

Gene Information
Gene Symbol SIN3B   
Synonyms -
Description SIN3 transcription regulator family member B
Transcript NM_015260   
Expression
Putative miRNA Targets on SIN3B
3'UTR of SIN3B
(miRNA target sites are highlighted)		 
>SIN3B|NM_015260|3'UTR
   1 CCCGCCCTCATGGGCACCGGGCAGGCGCCTCACAGAGCACAGACGTGCCCTCGGCCTTGGTCGTGTCGGGGCCGTTTTCT
  81 TGAACGACGTGAGAGGCATCTCCCAGCCCCTCTGCTGCCGGACAGCGCACTCCAGGGCAGGACGCCGCCCCCGTGGCTCC
 161 CGGTCTCCTGTGGGCCTGCTGTGTGCCAAACCTGAGCTACCTGCACCCGAGCCCTGGGGCTCAGCCCCACCACAGGGGCG
 241 GGTGGACGTGCTGGCCGAGGAACAAGCAATCATGTTTGCGTCCCCGTCCGTCACATGTGCCAAATCCCTGGCAGGCAGAT
 321 GGCTCCTGCCCCATATTCTTGCCGTGTCTTGGAAAAGTCACAGGTGACAGCCCTCCTGAGGCCCACACTTTGGAGGGGGT
 401 CCATGTCCAAGAGACCCTGACAAGGAAGGAGTTGAGCCCTGGGTAGGCTTGCTTGAAAAGTGAGTCCTTCCAGAATATTC
 481 TCAGAGCTGCCAGAAACATCATCTGAGGGTTTGGGCATCAGCTCTGCCTGGCTGGTGTTCAGGCCCTCAGTCACTTTGGA
 561 AGTGAGAAGAACCCTTCAGCCAAACCTTTGGGATCCCATTTTGAAGTCCAGAGCTGGAGCAGGCGGGCAGTGCCCTGGGA
 641 GACCCCGCTCTGGATAAGACACCCAACCCCAACTCCAGCAGCTGGACTCTGGGCCCACAAGGGGAGGGACCCCAGCCAGT
 721 ATTCCCTCAGAGCCGGCACGACCCTGCTGTGGGGCGGCGGGCCCAGTCGTGTTCCTGCAGTGGGCACCCTAGGCGTATGT
 801 GTATACACGCACAGATATTTATTCCTTTCGCTTTTAGTGGTTGTTATTTCTGTAGCAGCCAAGTCCTGCGGCTCCCTGGG
 881 GCTGAGATCTCCCTTTGTGGAACTCCGAGAGCCGCCCTGACAGTCCCAGCCGCCACCCAAGGAGCCCCATCCGCCCACCC
 961 ACCCTGGGACCCACGCGGCCACTCCAGGGATCATTGTTGTCCTTTTGTGAGGGGCTGAGGCGACTGTCCCATGGAGGCAT
1041 CCAAGGCTTTCTGTGCCAAGAATCCCAAGTGACTGGGGCTGGGGACCACTTCTCCAGGCCTCTCTCCCCGACCATGAGAG
1121 CCCCTGGCCCTGGCCCCTGCACACCAGTAGGCCCAGAATAACCGCCACCCTTGCCATCCTGCAACAGCTGGACTCAAGTT
1201 TCCAGGAAGTGGAGATGTGTTTCTAGAAGTTTCCTGTGGAACCTGGAGGCTCCTGATGCCTTTGACTCCAGGCTGGGCGA
1281 TTCCGATGCTGACCCGTCCTCCTGGGCTCCCCACCCCCGCTCCCCAAGTGTCACACAGGCACTTTGTACACATCCTGGTT
1361 TTCTAAGAAGGGAACTTGCCATCAAGATTCCTGTACCAGGCCCACGGCCGTCTCGGGCAGAGCCACCTGGGCCCCGGGTG
1441 CAGCCGGAGACCCCGCCGAGCCCCTCCTCCCAGTATTCCCATCCCCGCATGCTTCTAGGGAGCGCCTCTTTTCCGTTCTT
1521 GAGGAATTTCTGTTCTGGGGCTTGTCCTTCCTTTGCAGCTGTTTTGAATGTAGTTTTCCTTTTCTATTTATTTGCACATT
1601 AAAGTTAATAATTGAATATTGACATC
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' gaGUGUGUGACAG---AGGGACCu 5'
            ||||:: || |   ||||||| 
Target 5' gtCACATG-TGCCAAATCCCTGGc 3'
 290 - 312 154.00 -18.40
2 
miRNA  3' gaGUGUGUGA--CAGAGGGACCu 5'
            || :: ||  | |||||||| 
Target 5' gcCAAGTCCTGCGGCTCCCTGGg 3'
 858 - 880 153.00 -20.20
3 
miRNA  3' gaGUGUGUGACAGAGGGACCu 5'
            |: :|| ||   |||||| 
Target 5' ggCGGGCAGTG---CCCTGGg 3'
 622 - 639 123.00 -18.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN7355352 258 COSMIC
COSN23032656 416 COSMIC
COSN17659450 592 COSMIC
COSN25693694 735 COSMIC
COSN14884587 740 COSMIC
COSN28145745 761 COSMIC
COSN6667284 770 COSMIC
COSN9846623 1045 COSMIC
COSN16474840 1079 COSMIC
COSN27771974 1190 COSMIC
COSN22167138 1345 COSMIC
COSN20093535 1460 COSMIC
COSN7355353 1486 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs767840527 2 dbSNP
rs1225357916 3 dbSNP
rs548779686 4 dbSNP
rs35249026 5 dbSNP
rs759215816 5 dbSNP
rs1290307047 7 dbSNP
rs752253068 10 dbSNP
rs757803722 13 dbSNP
rs1430883719 16 dbSNP
rs1310240225 18 dbSNP
rs764145787 19 dbSNP
rs751520164 20 dbSNP
rs371770143 27 dbSNP
rs373822790 28 dbSNP
rs1218039564 30 dbSNP
rs943119879 34 dbSNP
rs1483017182 35 dbSNP
rs1201207843 36 dbSNP
rs1199099561 38 dbSNP
rs1245314318 40 dbSNP
rs781129326 41 dbSNP
rs368773167 45 dbSNP
rs1378970879 46 dbSNP
rs1416861996 49 dbSNP
rs1160635151 50 dbSNP
rs372414217 53 dbSNP
rs929146853 54 dbSNP
rs1047651436 61 dbSNP
rs1270859701 63 dbSNP
rs1466885789 64 dbSNP
rs1338903125 65 dbSNP
rs909148870 66 dbSNP
rs941971331 68 dbSNP
rs1053284464 69 dbSNP
rs1282998096 71 dbSNP
rs879507223 74 dbSNP
rs538041818 75 dbSNP
rs895184377 86 dbSNP
rs1014086914 88 dbSNP
rs557978958 89 dbSNP
rs577871101 97 dbSNP
rs1026762733 103 dbSNP
rs888094052 109 dbSNP
rs999660562 120 dbSNP
rs1182602574 121 dbSNP
rs1164330532 124 dbSNP
rs143946560 127 dbSNP
rs553716479 128 dbSNP
rs1322230412 129 dbSNP
rs958282693 130 dbSNP
rs1205688018 133 dbSNP
rs976570997 134 dbSNP
rs1262794815 137 dbSNP
rs1287082758 141 dbSNP
rs1224679185 144 dbSNP
rs1011204829 145 dbSNP
rs1381284458 147 dbSNP
rs1442030657 152 dbSNP
rs537919060 153 dbSNP
rs954124401 154 dbSNP
rs77368007 162 dbSNP
rs372033884 163 dbSNP
rs934662263 185 dbSNP
rs1405448548 186 dbSNP
rs1176419233 198 dbSNP
rs765835629 201 dbSNP
rs867754500 206 dbSNP
rs1185476151 207 dbSNP
rs1269158117 209 dbSNP
rs950509018 209 dbSNP
rs376961716 210 dbSNP
rs1318957171 218 dbSNP
rs1282547492 220 dbSNP
rs950305606 225 dbSNP
rs1360765024 228 dbSNP
rs1044547356 234 dbSNP
rs1449832395 239 dbSNP
rs906040504 240 dbSNP
rs909095125 241 dbSNP
rs556372623 242 dbSNP
rs1255506576 246 dbSNP
rs888231551 248 dbSNP
rs1003844878 249 dbSNP
rs1055092674 257 dbSNP
rs1443943257 258 dbSNP
rs1384608634 263 dbSNP
rs576526075 264 dbSNP
rs1486943418 269 dbSNP
rs1240628997 281 dbSNP
rs949445079 286 dbSNP
rs78297704 287 dbSNP
rs1490635267 289 dbSNP
rs147298592 290 dbSNP
rs79525636 291 dbSNP
rs540552208 292 dbSNP
rs1435280389 295 dbSNP
rs777992543 298 dbSNP
rs1028271424 302 dbSNP
rs1287968479 306 dbSNP
rs953997036 311 dbSNP
rs1367141125 312 dbSNP
rs1353098218 318 dbSNP
rs894011044 321 dbSNP
rs1279822761 326 dbSNP
rs1390734901 331 dbSNP
rs45538931 333 dbSNP
rs1430418679 344 dbSNP
rs1033052178 345 dbSNP
rs956132503 347 dbSNP
rs771208621 357 dbSNP
rs777143307 371 dbSNP
rs964717822 373 dbSNP
rs529407988 392 dbSNP
rs1490316674 394 dbSNP
rs1313239175 395 dbSNP
rs1205974322 396 dbSNP
rs1449293199 397 dbSNP
rs1294243580 401 dbSNP
rs1223671710 408 dbSNP
rs1347038489 409 dbSNP
rs1030048041 413 dbSNP
rs1210864446 414 dbSNP
rs1404160353 417 dbSNP
rs950455235 422 dbSNP
rs1397084725 423 dbSNP
rs549006026 424 dbSNP
rs568857647 437 dbSNP
rs980741740 438 dbSNP
rs1170066049 447 dbSNP
rs963268037 448 dbSNP
rs991132347 452 dbSNP
rs916516257 468 dbSNP
rs1049266267 472 dbSNP
rs1232481369 485 dbSNP
rs1251866026 492 dbSNP
rs909590803 503 dbSNP
rs939768698 507 dbSNP
rs1036669268 516 dbSNP
rs1203775464 517 dbSNP
rs1325216817 518 dbSNP
rs949388543 519 dbSNP
rs900824849 522 dbSNP
rs1175209822 529 dbSNP
rs531312114 531 dbSNP
rs1336187515 534 dbSNP
rs1427079271 541 dbSNP
rs982079404 547 dbSNP
rs1372563754 550 dbSNP
rs551520932 560 dbSNP
rs1470374401 563 dbSNP
rs923991164 564 dbSNP
rs935408667 575 dbSNP
rs889746013 577 dbSNP
rs1431052217 589 dbSNP
rs533754178 606 dbSNP
rs534194634 609 dbSNP
rs1417797195 610 dbSNP
rs554148969 613 dbSNP
rs1250498657 617 dbSNP
rs567984923 618 dbSNP
rs942910009 621 dbSNP
rs1040330457 624 dbSNP
rs775759469 625 dbSNP
rs148808394 626 dbSNP
rs1024374038 627 dbSNP
rs1262233204 628 dbSNP
rs556523309 630 dbSNP
rs764311965 631 dbSNP
rs878892501 645 dbSNP
rs186232242 647 dbSNP
rs927502389 648 dbSNP
rs1453470626 652 dbSNP
rs1385160134 653 dbSNP
rs74502515 658 dbSNP
rs141567679 668 dbSNP
rs984931368 702 dbSNP
rs1385969543 703 dbSNP
rs964777889 710 dbSNP
rs1290972895 718 dbSNP
rs1452135018 725 dbSNP
rs1436282611 730 dbSNP
rs553498149 731 dbSNP
rs557953312 735 dbSNP
rs908052888 736 dbSNP
rs1248213365 740 dbSNP
rs1036765618 741 dbSNP
rs1203132130 742 dbSNP
rs1485462611 745 dbSNP
rs922418085 752 dbSNP
rs933645318 753 dbSNP
rs574265760 756 dbSNP
rs889662262 757 dbSNP
rs577886495 759 dbSNP
rs1023932482 760 dbSNP
rs542960370 765 dbSNP
rs1380871111 766 dbSNP
rs45454499 770 dbSNP
rs891618833 785 dbSNP
rs754484572 787 dbSNP
rs1364276476 789 dbSNP
rs34913153 795 dbSNP
rs560175748 795 dbSNP
rs907292239 796 dbSNP
rs1190654927 799 dbSNP
rs923940441 800 dbSNP
rs3184577 809 dbSNP
rs1224469778 812 dbSNP
rs1489831891 815 dbSNP
rs1289106353 816 dbSNP
rs1340219836 818 dbSNP
rs370881775 818 dbSNP
rs551961515 818 dbSNP
rs1325159640 819 dbSNP
rs1211711796 823 dbSNP
rs542213069 826 dbSNP
rs1284274663 830 dbSNP
rs915341841 830 dbSNP
rs1407197799 840 dbSNP
rs150832137 843 dbSNP
rs1039882750 848 dbSNP
rs1410031822 850 dbSNP
rs769577291 851 dbSNP
rs374347368 856 dbSNP
rs1228869271 870 dbSNP
rs976283859 871 dbSNP
rs139238522 872 dbSNP
rs933762004 874 dbSNP
rs1479371776 876 dbSNP
rs934228900 878 dbSNP
rs1047370607 889 dbSNP
rs1275159048 893 dbSNP
rs1196857171 894 dbSNP
rs1317498192 903 dbSNP
rs571037508 906 dbSNP
rs1230219520 907 dbSNP
rs1004565850 908 dbSNP
rs527864176 914 dbSNP
rs898915804 915 dbSNP
rs1012458539 925 dbSNP
rs1466188133 926 dbSNP
rs1193891458 931 dbSNP
rs771286368 932 dbSNP
rs548015343 933 dbSNP
rs557021551 933 dbSNP
rs1045569276 936 dbSNP
rs945847352 936 dbSNP
rs1418048496 937 dbSNP
rs1460611264 942 dbSNP
rs567814622 945 dbSNP
rs981976220 946 dbSNP
rs907255610 947 dbSNP
rs1001639170 949 dbSNP
rs1231153313 950 dbSNP
rs1176824944 951 dbSNP
rs1034876261 953 dbSNP
rs1383237979 954 dbSNP
rs536962113 957 dbSNP
rs1318304112 964 dbSNP
rs1205746854 970 dbSNP
rs1030905380 973 dbSNP
rs749274142 975 dbSNP
rs372150009 976 dbSNP
rs1224730927 977 dbSNP
rs1293987973 978 dbSNP
rs1238771921 990 dbSNP
rs570084491 991 dbSNP
rs374816929 994 dbSNP
rs915278715 994 dbSNP
rs1358243122 997 dbSNP
rs1318702302 999 dbSNP
rs964153404 1003 dbSNP
rs1402274785 1006 dbSNP
rs527784630 1007 dbSNP
rs1271031811 1013 dbSNP
rs539060127 1022 dbSNP
rs916073661 1022 dbSNP
rs934178253 1023 dbSNP
rs559077324 1027 dbSNP
rs1260892994 1028 dbSNP
rs1445238977 1030 dbSNP
rs1185537397 1041 dbSNP
rs985215705 1044 dbSNP
rs908815089 1050 dbSNP
rs910987532 1051 dbSNP
rs1189382067 1058 dbSNP
rs1216946644 1074 dbSNP
rs1257679159 1074 dbSNP
rs1284340180 1089 dbSNP
rs1216437154 1095 dbSNP
rs377124343 1096 dbSNP
rs1185405472 1097 dbSNP
rs781447986 1105 dbSNP
rs533747203 1110 dbSNP
rs1377949541 1111 dbSNP
rs553936975 1111 dbSNP
rs201529405 1115 dbSNP
rs1432624086 1120 dbSNP
rs1343160266 1123 dbSNP
rs1158384579 1124 dbSNP
rs542926224 1128 dbSNP
rs913109435 1131 dbSNP
rs1011993029 1135 dbSNP
rs1422202179 1141 dbSNP
rs1413325489 1147 dbSNP
rs1187271408 1148 dbSNP
rs1044773 1150 dbSNP
rs1261431404 1152 dbSNP
rs368331327 1162 dbSNP
rs928473943 1164 dbSNP
rs906363186 1165 dbSNP
rs1294636780 1171 dbSNP
rs1003343007 1177 dbSNP
rs1320655479 1184 dbSNP
rs770479969 1185 dbSNP
rs561169261 1188 dbSNP
rs1215895900 1194 dbSNP
rs529187778 1196 dbSNP
rs1006193101 1198 dbSNP
rs1405371307 1212 dbSNP
rs1010813401 1213 dbSNP
rs1036366521 1216 dbSNP
rs1291772286 1220 dbSNP
rs544640943 1224 dbSNP
rs1022293336 1243 dbSNP
rs997793628 1249 dbSNP
rs45513998 1250 dbSNP
rs2258772 1258 dbSNP
rs867190072 1259 dbSNP
rs1193357199 1261 dbSNP
rs975511724 1279 dbSNP
rs922692621 1280 dbSNP
rs45483299 1285 dbSNP
rs867366540 1286 dbSNP
rs1232916202 1287 dbSNP
rs768988986 1294 dbSNP
rs547633556 1296 dbSNP
rs184151740 1297 dbSNP
rs1223879301 1298 dbSNP
rs1325342605 1300 dbSNP
rs957119699 1302 dbSNP
rs530301458 1310 dbSNP
rs1298796315 1313 dbSNP
rs1485087421 1315 dbSNP
rs188647047 1319 dbSNP
rs570394605 1320 dbSNP
rs947739707 1325 dbSNP
rs2547094 1329 dbSNP
rs981363088 1337 dbSNP
rs1174440797 1338 dbSNP
rs1433067957 1341 dbSNP
rs1369125011 1342 dbSNP
rs906310453 1343 dbSNP
rs1181463537 1350 dbSNP
rs1003290664 1352 dbSNP
rs1251936143 1359 dbSNP
rs1178422696 1364 dbSNP
rs1362477870 1373 dbSNP
rs1052212640 1376 dbSNP
rs928581653 1381 dbSNP
rs937183831 1382 dbSNP
rs1056043320 1387 dbSNP
rs909257076 1398 dbSNP
rs942111891 1402 dbSNP
rs892340144 1406 dbSNP
rs1036338382 1407 dbSNP
rs1010806060 1410 dbSNP
rs1022664475 1411 dbSNP
rs1374687686 1419 dbSNP
rs1330770284 1424 dbSNP
rs964051059 1425 dbSNP
rs997275357 1426 dbSNP
rs1029715243 1436 dbSNP
rs10423 1437 dbSNP
rs982896834 1446 dbSNP
rs1015766306 1447 dbSNP
rs939193782 1451 dbSNP
rs551624557 1455 dbSNP
rs1032488373 1456 dbSNP
rs1183691586 1457 dbSNP
rs45552634 1458 dbSNP
rs1253689800 1459 dbSNP
rs947722632 1460 dbSNP
rs368560693 1463 dbSNP
rs566172802 1463 dbSNP
rs980847973 1463 dbSNP
rs377227781 1467 dbSNP
rs939102706 1468 dbSNP
rs981547691 1479 dbSNP
rs928536980 1482 dbSNP
rs1347101721 1484 dbSNP
rs1052160785 1485 dbSNP
rs892287909 1487 dbSNP
rs1386041673 1488 dbSNP
rs573804806 1490 dbSNP
rs1043628106 1494 dbSNP
rs1044880 1496 dbSNP
rs1194939575 1501 dbSNP
rs899752616 1504 dbSNP
rs941874680 1505 dbSNP
rs972127462 1515 dbSNP
rs996827361 1516 dbSNP
rs1453118505 1519 dbSNP
rs1428752680 1533 dbSNP
rs1029659429 1536 dbSNP
rs754458585 1542 dbSNP
rs1279294092 1543 dbSNP
rs1487910974 1545 dbSNP
rs1292465565 1551 dbSNP
rs1373788607 1556 dbSNP
rs1004280005 1561 dbSNP
rs1461646759 1568 dbSNP
rs933330204 1573 dbSNP
rs536086034 1574 dbSNP
rs1327267908 1576 dbSNP
rs1052200655 1580 dbSNP
rs1340445517 1587 dbSNP
rs962881009 1594 dbSNP
rs556024241 1599 dbSNP
rs1387869161 1602 dbSNP
rs974663887 1613 dbSNP
rs1162163752 1618 dbSNP
rs889349908 1620 dbSNP
rs183041481 1621 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 GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami 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' gaGUGUGUGACAG---AGGGACcu 5'
            ||||:: || |   ||||||  
Target 5' guCACAUG-UGCCAAAUCCCUG-- 3'
 		10 - 30
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]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177615. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_5 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gaGUGUGUGACAG---AGGGACcu 5'
            ||||:: || |   ||||||  
Target 5' guCACAUG-UGCCAAAUCCCUG-- 3'
 		10 - 30
Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
CLIP-seq Support 1 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000379803.1 | 3UTR | UCCCCGUCCGUCACAUGUGCCAAAUCCCUG
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
104 hsa-miR-7113-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059935 ZDHHC5 zinc finger DHHC-type containing 5 2 2
MIRT083388 E2F1 E2F transcription factor 1 2 4
MIRT183511 BTG2 BTG anti-proliferation factor 2 2 2
MIRT192333 KLF13 Kruppel like factor 13 2 2
MIRT347200 SIN3B SIN3 transcription regulator family member B 2 2
MIRT451431 TJP3 tight junction protein 3 2 2
MIRT452499 HMGXB3 HMG-box containing 3 2 2
MIRT453830 SAA1 serum amyloid A1 2 2
MIRT454309 ZNF134 zinc finger protein 134 2 2
MIRT454833 POLR2J3 RNA polymerase II subunit J3 2 2
MIRT454890 RAD50 RAD50 double strand break repair protein 2 2
MIRT455881 KIF2C kinesin family member 2C 2 2
MIRT456161 TTF2 transcription termination factor 2 2 2
MIRT456945 LRP10 LDL receptor related protein 10 2 2
MIRT457627 UPK3BL uroplakin 3B like 1 2 2
MIRT459486 CCL11 C-C motif chemokine ligand 11 2 2
MIRT459585 NLGN2 neuroligin 2 2 2
MIRT460719 FN3KRP fructosamine 3 kinase related protein 2 2
MIRT461576 SCO1 SCO1, cytochrome c oxidase assembly protein 2 4
MIRT461817 SNAP23 synaptosome associated protein 23 2 2
MIRT462409 RBM28 RNA binding motif protein 28 2 2
MIRT462434 GTPBP10 GTP binding protein 10 2 4
MIRT462523 ZNF500 zinc finger protein 500 2 2
MIRT462787 ZNF8 zinc finger protein 8 2 2
MIRT463898 WNT7B Wnt family member 7B 2 4
MIRT466954 STAT3 signal transducer and activator of transcription 3 2 2
MIRT467035 SRSF1 serine and arginine rich splicing factor 1 2 4
MIRT467436 SND1 staphylococcal nuclease and tudor domain containing 1 2 2
MIRT468780 SCD stearoyl-CoA desaturase 2 2
MIRT469765 RAB2B RAB2B, member RAS oncogene family 2 2
MIRT470784 PNPLA6 patatin like phospholipase domain containing 6 2 2
MIRT471842 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT472222 NGFR nerve growth factor receptor 2 2
MIRT472538 NACC1 nucleus accumbens associated 1 2 2
MIRT472937 MSN moesin 2 2
MIRT477462 ELMSAN1 ELM2 and Myb/SANT domain containing 1 2 2
MIRT479077 CNNM4 cyclin and CBS domain divalent metal cation transport mediator 4 2 2
MIRT479260 CHSY1 chondroitin sulfate synthase 1 2 2
MIRT480254 C8orf58 chromosome 8 open reading frame 58 2 2
MIRT480552 BZW1 basic leucine zipper and W2 domains 1 2 2
MIRT480929 BCAT1 branched chain amino acid transaminase 1 2 2
MIRT482048 AMD1 adenosylmethionine decarboxylase 1 2 2
MIRT483182 HIST1H2AH histone cluster 1 H2A family member h 2 8
MIRT486998 ZFAND2B zinc finger AN1-type containing 2B 2 2
MIRT488253 DNLZ DNL-type zinc finger 2 4
MIRT488588 ST7L suppression of tumorigenicity 7 like 2 2
MIRT491068 ACVR1B activin A receptor type 1B 2 2
MIRT492618 PNRC1 proline rich nuclear receptor coactivator 1 2 2
MIRT493817 FSCN1 fascin actin-bundling protein 1 2 2
MIRT495988 LTBP2 latent transforming growth factor beta binding protein 2 2 2
MIRT499248 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT500451 ZFP36L1 ZFP36 ring finger protein like 1 2 2
MIRT508311 RPL18 ribosomal protein L18 2 4
MIRT509711 ANKRD23 ankyrin repeat domain 23 2 2
MIRT531511 NONO non-POU domain containing octamer binding 2 2
MIRT531711 ABCB6 ATP binding cassette subfamily B member 6 (Langereis blood group) 2 2
MIRT533753 TMEM184B transmembrane protein 184B 2 2
MIRT535987 MED28 mediator complex subunit 28 2 4
MIRT537865 EDA2R ectodysplasin A2 receptor 2 2
MIRT539922 DUSP28 dual specificity phosphatase 28 2 2
MIRT541124 RAB34 RAB34, member RAS oncogene family 2 2
MIRT543053 BAZ2A bromodomain adjacent to zinc finger domain 2A 2 2
MIRT562618 BCL7A BCL tumor suppressor 7A 2 2
MIRT563606 ZNF277 zinc finger protein 277 2 2
MIRT573680 HES6 hes family bHLH transcription factor 6 2 2
MIRT609224 TMEM178B transmembrane protein 178B 2 2
MIRT611658 LIPC lipase C, hepatic type 2 2
MIRT612822 KLHL3 kelch like family member 3 2 2
MIRT613217 CCDC85C coiled-coil domain containing 85C 2 4
MIRT617687 MAPKBP1 mitogen-activated protein kinase binding protein 1 2 2
MIRT618536 TMEM241 transmembrane protein 241 2 2
MIRT622094 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT627600 SGK494 uncharacterized serine/threonine-protein kinase SgK494 2 2
MIRT637157 PCDHA6 protocadherin alpha 6 2 4
MIRT642156 AQR aquarius intron-binding spliceosomal factor 2 2
MIRT643941 WIPF3 WAS/WASL interacting protein family member 3 2 2
MIRT646855 SLC35E4 solute carrier family 35 member E4 2 2
MIRT647401 SPNS2 sphingolipid transporter 2 2 2
MIRT648708 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT655571 OXSR1 oxidative stress responsive 1 2 2
MIRT655878 NFASC neurofascin 2 2
MIRT660309 BHLHE40 basic helix-loop-helix family member e40 2 2
MIRT664073 ZNF417 zinc finger protein 417 2 2
MIRT667522 LUC7L2 LUC7 like 2, pre-mRNA splicing factor 2 2
MIRT667852 IPCEF1 interaction protein for cytohesin exchange factors 1 2 2
MIRT669240 C7orf55-LUC7L2 C7orf55-LUC7L2 readthrough 2 2
MIRT674763 QRSL1 glutaminyl-tRNA synthase (glutamine-hydrolyzing)-like 1 2 2
MIRT679704 GRK4 G protein-coupled receptor kinase 4 2 2
MIRT681445 CIITA class II major histocompatibility complex transactivator 2 2
MIRT684814 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT694604 AAR2 AAR2 splicing factor homolog 2 2
MIRT696944 CERK ceramide kinase 2 2
MIRT704430 CTNNBIP1 catenin beta interacting protein 1 2 2
MIRT708304 MPPE1 metallophosphoesterase 1 2 2
MIRT708874 TMEM151B transmembrane protein 151B 2 2
MIRT713557 TBC1D22B TBC1 domain family member 22B 2 2
MIRT714998 TSPAN11 tetraspanin 11 2 2
MIRT715993 ACOT2 acyl-CoA thioesterase 2 2 2
MIRT718872 SNRPD1 small nuclear ribonucleoprotein D1 polypeptide 2 2
MIRT719664 DMRT2 doublesex and mab-3 related transcription factor 2 2 2
MIRT720825 C6orf89 chromosome 6 open reading frame 89 2 2
MIRT723357 ASCL2 achaete-scute family bHLH transcription factor 2 2 2
MIRT724561 SIT1 signaling threshold regulating transmembrane adaptor 1 2 2
MIRT732592 WNT10B Wnt family member 10B 2 0
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-7113 Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-7113 Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)
hsa-miR-7113-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-7113-5p Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-7113-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-7113-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (CIS)

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