miRTarBase - #MIRT539044


—
pre-miRNA Information
pre-miRNA hsa-mir-4471   
Genomic Coordinates chr8: 100382763 - 100382845
Description Homo sapiens miR-4471 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4471
Sequence 49| UGGGAACUUAGUAGAGGUUUAA |70
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol ATXN1L   
Synonyms BOAT, BOAT1
Description ataxin 1 like
Transcript NM_001137675   
Expression
Putative miRNA Targets on ATXN1L
3'UTR of ATXN1L
(miRNA target sites are highlighted)		 
>ATXN1L|NM_001137675|3'UTR
   1 ACCTCTTCCCCAGACCAGGACTGGGGCTTTACCCCAGAGCCTCGCCTCGCCGCCGTGAGCAGGCAGAGGATTTGCACACG
  81 CCGAGCAGGGAATGGCTTTCTTGGCAGTGAGATTTGGGGGAAAGGGGAGGCATGAAGTCAGCCTCCCAAGGCAGGATCTG
 161 TTGTTCATTACCCCATGGCATCCTTTCAGGACAACCCCAGAGGGTGTTGTGATGGGGAGCAGCAGGCCTGGGGCAAGGAA
 241 GGAAGGGGGTGCACACAGGAGAAGAAACATTCCAAAATCAGGGCCTCCCTGTTCTTTCCTCCCCATCCCTAGCTCCTGCA
 321 AGAGAAAGTCCAGGCTTTGGGAGCAGATGGCAGAGGGAGGGAGTAAAGAAAGAGCCAAAAATGATGATCCACAGCTTATA
 401 GTAGCAGTTAAACTGTCAGAAGTTTTTTTTCTTTTTTGTGGTAGAAGGGCAGGAGGCCCCAAGGTTGGAAATAAGAGGGT
 481 TCCCACCCAGAACCCTTCTTGTGAGAGATGCGCACTTTAAAGGGTGATTTTGTTCCAGATGTCTATGGCTGGGTGTGTGG
 561 GGGAGGAGCACTCTCATCTGCAGGACTCTGCTTGATCCTCTGCTTCATAGCCCTTCCCCATCTCTCCTCACCATTCTGCC
 641 TACAAGGCTTCTAGCAGCACGGGGGCCCGGAGGGAGAGCCCCTTCAGGGTTCAGAGTGAAGTACTACCTTGCCAGGGACT
 721 CAGTCAGGGGACTTTGGGAGAAAGACTTGATAGCCAGGCTGACTGGGTTCTAGGCAGGCCCTCTGGAAAGGTAGCTCACC
 801 TAACAAAGCTCCTCCATCTCAGCATGCCAGACCCACTTTGAAATCTCACAGAATCTTGCTGGTAATGGTGACTTTAGAAC
 881 TAGTAGACCCTTTTTCCCAGGCACTGACCCCCCACCTTTGTCTGTGTTGTGCCCAAGTGCCTGCGCCACCCCCACCCTCC
 961 TGCTGCGCTGACCGCTGCATGGTGTCGTGACCTGGGCCTCATTTGTAGCTGCACTGCCTTTCCTTGTCTGCAAAGTTGGT
1041 TTTGTCCACTCTGACCAAGACCTCTAGTTTTTGGTGGGTAGGGGGTCTCTCTGGTTTCCCCTTCAGCTATAATCTCTATT
1121 TTTAAAATCTCAAAATCATGTCCCCTCCACTTCCACTGCCAAACAGCTTGGTGAAGAAACAAGAAGGGAACTATGCCCTG
1201 GGCCAGGGCGAATGCGTGGCTGGGCAGTGCCCATCATGGCATTTTCACATGTCCCATATGCCCCTCCTGTCTTATTCCAC
1281 TGCTTCTCCCAGCATTCTGGTGCCTCCAAGCCATCCCCTCCCACCACCAGCTCTAAGATTCTAGGATAGTCTTGATAACA
1361 TTTCAGTACCTGAATAGATGTCATTTTGTGTTGGTATATTCCTCTGCAAAAAGTATTTTCAATCTTGGTTGCATTGGCAC
1441 CCCCCCTACCCCCCACCAATGTCTTAATCCCACATTTTCTTCACAACTTTTAGCATCAGCTCAGACCGTGGGGTTCCACT
1521 GGGTATTGGGAATTAGGCTCCCCCACTAGCTTTCAGGTGGGTAAGTTTTTTTGTTTGTTTTTTGGGGGTCTTTAGACTCT
1601 TGAAGGCAACTCAGGGTATTGTCCACGCAGCTCTCTGGTTAGACTTCTCCCAGGCTATGATCCTGGCATGTCCTTTATAA
1681 GGTATACTTGGATTGGCCGAGACCTGGCCTGGCATCAGGAGTCCAAACCTCTGAGGTCTGATCTCTGCTCTGTCAAGGAC
1761 TTTCGGCAAGTCTCGTGACCTCTGGCTCTTTCACTTCCTCCCCACCTGCCAAATGGGGATAAATAATCTTACCTACCTCC
1841 TGGGGGGAGGGGAAGTTCTGAGAATGGAGTCATTCTTAGTGTTCAGGTGCTAAAGGTTGTTCTCCTGGGGGAACAGAGTG
1921 ACTGAAACTGGCTTGTTTGCTACAAGCCCTACCCTCCACTCTTTCATTCCTTGAAAGCAGTTTGCCTGGTCAGTCAGCTT
2001 TTGGGGGTCCATCAAAGGAGGTTGCTGACCTGACCGTGAGTGCTTCAGTATCTGGTTTGTGTCAGAACCAGACGCCAACT
2081 TTGTACTGCATTTGGGATCATATCTTTCCCCTTCTCTGTCCCCCATTCTCTGAATGCTGCTTTCTCTGGCTTGTTTCCTA
2161 CAGTGGGGGCCTGTGGGGTTGAGTCTTGAGGAATCCCCTCAAATGAGAAGGCCTTGGGAGAAGGCCTCATCTCTGGCTGT
2241 TTCATGAGCAACTCATTCCTAGAGTTCATTGTTTGCATGGGTTTCTCACAAGCGTCCTTCCTCATAGGAAGGCTCATCAA
2321 CTGAATTTAGTGACATGTACACAGTAGATGCTCAAGCAGTGTCTGCAAGGACACAAGCTGAGCTTTCTCCTTATGGGGCA
2401 AACCTATGTCTAACCAGATACAGACCAATTAGTTTAGATCAAATCACCTTCCACTTGGGCTACTTGTGACTTTCCAACCT
2481 GGTAACTTCCACTGAATTCTGGAAAGAGAAATTCTTGAGGACCCTGGCAAGTTGGGCCCTGACCTTTCTGTTGCTGTCTC
2561 TTGCTGGTGAAGCAATACCAGCAGTTCCTGTAATACCACAATATCGTTCCATGCATATATAACATATTAATACTTGATTT
2641 TGCTGAGCTGCAAAGGTATCTGTCATAAAATATGGTCCCCAGGAAAAGAATCTCTGTGCTCTAAATCTCGGTCAGAGCTG
2721 TGGCCTCCCCCTTGCCTTTAACCTCTAGTTTAGTCTTTTCCTCCAGGCATGAAAAATATGACTAACCTGTGGTGTGTCCA
2801 TTCTTCCTTATAGGAATTTCCTGAGTTTGCAGGAGACATGAGAGCAGTTTTTAGCGAGTATTTTAGTGGGAAGTTGCCAA
2881 CTTTTTAAGAATGAGCAGTTGACAAGGGCCAGAGCCTGTCCCTTGTCAGCAGTAGGACATTTCCAGCTCTTAGGAATAGA
2961 AAGGAGGACTGCTGACTGTCTGGCGCTGTATAAAAATGTGTATACCAATTTGGGAATAGGGGAACCCAGTCATGGATGGA
3041 TAATAAGCCAAGTCTTGAATCATTCCTATCAAGATTAGTATACATGAGGAAGAGGTGGCATGGGGGGAAGGGGCTCTGGG
3121 AGTTCAGAGCTGAGTACTTGTACCTGAGGGAGGGCCCCCAGCCAATCTGGGCTGGTCCTTCTATATTCTTGGTCCCAGTT
3201 GGTCATAACACCAAGGGCTTTGCCCTGCGCTGCTTTGCCACTGCTGCTGTCCGCTCACTGTCCTGCCTGCTGTCCTCTAC
3281 AGCTCCCTATCCTTCCATGTCTTTGGCCATGTAGATTAAGTGTAGGCGTCCGGTTCATTCTTACCTGTGTTAGGCCATGT
3361 TATTTTATAGCGAAGTCATGTTCGATAGGGATGGTATGAAATGCTGCTGGTGGGCTGGTAAATCCAAAGGGATAAGGCTT
3441 CAGTGCTGTTGGGAGCCCTCTGGCTCCAAATGTCTGACTATCTTGAGGGAGAAACAAGCAGGTTTCTACTAGTGGTGTCT
3521 TCTGTTGTATTAACTTCTTTCCTTTGTGGTATCTTGTATCCTGTTTTAAAAACTAAATGAAGGGAACCACATTAGGGCCC
3601 ATGCCAGCATCCCAGTGAAGTTCGTCCAGCTCCAGTTAGGTGGATTCTGGAGTTCGGAGAGGGTTTAAAGTTTGGCTGAA
3681 ATAGCACCTCAAGTGGGGTTTAGTTTTATTTTTACCTGCGGGCATCATGGGCGATTTAGGGGGAAGCACAGGATGGTGGT
3761 GTGGTTTAAACCTGCAGCAAGCAGGCATGTTGAAGAGTTGAGTGATCACGCTGGAGATGAAGGGTTGGACATGGATTGAC
3841 TGGGAAAAGGCCTGGGTCCATTGGAGTAAAGATAACCTAGTCGATTGAATTGGCCATGGGAAGTTAGGTCACAGTCTTAT
3921 AAACAAAGTAAATAGGACAGAGACTAAGTTTTAGGGAGACATCTTGGCCTCCTAGGCTAAGTTTACTAAACCACACTGAA
4001 GCTATAGTACCTTCCAGATGGGCAAAAGTGTACACTACAGTTGAGGAGCTGAACCTTATTAGGTTGGATGTCGATCAGGA
4081 ACCTGTTTGCCCTTTGCTGGGAAGCCTTCACTCTCCAGCTTTCCTGGGGTAGGGAAGGTCTCCCACATTATGCAATAATA
4161 AAATAAGCATCTGGGTCTTTGCAGCTGTCAGTTGCTCTTTCAACTCTAGGATCCATCTTTGGACCAGAAGCCTGGTCTGT
4241 GCCTAGGATGACACTGGCCCCAGAGATGCTAGAGTCGACTGCACTCTCTCCTTAGCTGCAGACCATGCACAGTGCCTGGG
4321 GCGGAAGGAGGAGAGGTGTTGCGGTTTGCCCTGCTGCCTCCCCAGCAGGAACAATAGTCATAAATGCACTTTTCACACTA
4401 AAGGTTTCTTTATTAGTTCTCCAGTTAAACCTAGATCCCTCCCTGGTAGATTGCGAACTCAAAGTTTTGTGATCCCAAAG
4481 CCATTCCACTGCAAATGCCCAGCAGTGAAGATGGCCTCAAATTGGGTTCTTGCCTGCAGTGTGTGTGGCAGCAGCCCATG
4561 TGCCTTTACCTGTTGTCAAACTTGCAAGCATTTATTTGTCTTTATGACTGTCATGGGGACTGAGGTTCTTCAGAGAAAGA
4641 GTGTGAGCTGATGACACAGTGGTTTTACACCCACCCCCTGGGCAGGGAGTTTGCACGTAGTTGTGAGCTGTGAGTGGTTA
4721 GTGCATTGCTGGTATTGCTGAAGGCAGGGTTGATCCCTCACTTGACTGATACTTGCATTCAAGAGAATCTAGATTGTGTT
4801 GGGGGAGGGACTGACTGTACTCATGGCTAACTTAAAGTATTAAAATAAGGCTGTCCCCTACAACCTTCTTAGTCACACAG
4881 GATCCCTGTAGCCAAAACAGTATATGATCCAGCTGCAGAGAGCAGACTGCTCTCAGCTTGCACAGCACCTTAGGCGAGGG
4961 AAGAATATACGGATAGGGAATGGGGTGGAGAAAGGATGGGAATGTTGTCATCCAGGTGGCTTTAGGGTCCTAAGGAGTGG
5041 AGAAGGATGGCACTGGGGAGGTCTGGATGGATCTGTGTAGGAGTTCCCTGTAGATAAATTACTGATCCCCCATCTACTAT
5121 CCCCAGTATGTAATGGCTGAATTAATATGTAATCAACTGCATTGTATCTAAAGCCTTAGAACTAGTCAGGTGCTCCCTCC
5201 ACCCAATACCATTTCTTACCCTCTAATCCTACCTGATCTTTAACAAAGCATTAATAATTCTAAGGATAATCTCTATTTTG
5281 TTGTGCTTTTTTGTAACTGTTTTAAATAAATCAATTTGTACTGTATATTTGTACTTTTGTGAGATCCTTTTTGCTGTTTT
5361 ACCATTTTAAGTCTCTGTACTTGGCTACACACAGATTGTATTTTTATTGTTAATGCTCTTCTTATGGATACCTGCATTTA
5441 ACTTGTGGACTATGTAAACACAATATCTATCAATATCTATATATCTATATATCTATCTATATAAACTACTAGCTTTTCCT
5521 TTT
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' aaUUUGGAGAUGAU--UCAAGGGu 5'
            ::|:|| |: ||  ||||||| 
Target 5' atGGATCTGTG-TAGGAGTTCCCt 3'
 5067 - 5089 153.00 -17.50
2 
miRNA  3' aaUUU----GGAGAUGAUUCAAGGGu 5'
            |||    :||:||:| |||||:| 
Target 5' ctAAAGGTTTCTTTATT-AGTTCTCc 3'
 4398 - 4422 145.00 -14.60
3 
miRNA  3' aaUUUGGAGAUGAU--UCAAGGGu 5'
            :|| |  ||| |  ||||||: 
Target 5' gtGAAGCAATACCAGCAGTTCCTg 3'
 2567 - 2590 138.00 -9.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31584332 50 COSMIC
COSN31545816 62 COSMIC
COSN26601093 145 COSMIC
COSN15623228 325 COSMIC
COSN31578543 395 COSMIC
COSN15623229 415 COSMIC
COSN31608187 423 COSMIC
COSN30133056 431 COSMIC
COSN17075799 506 COSMIC
COSN31543548 512 COSMIC
COSN30144001 527 COSMIC
COSN7270098 581 COSMIC
COSN30117891 610 COSMIC
COSN31584551 771 COSMIC
COSN22101401 821 COSMIC
COSN30529263 892 COSMIC
COSN31537965 945 COSMIC
COSN31538273 988 COSMIC
COSN28194427 997 COSMIC
COSN15623230 1099 COSMIC
COSN31482338 1204 COSMIC
COSN31539204 1210 COSMIC
COSN31577723 1216 COSMIC
COSN15623231 1247 COSMIC
COSN31544916 1256 COSMIC
COSN31565671 1348 COSMIC
COSN31578815 1371 COSMIC
COSN21705002 1441 COSMIC
COSN23012616 1447 COSMIC
COSN30133333 1447 COSMIC
COSN15623232 1470 COSMIC
COSN22446198 1565 COSMIC
COSN15623233 1567 COSMIC
COSN15623234 1573 COSMIC
COSN30123580 1597 COSMIC
COSN31513629 1627 COSMIC
COSN15623236 1636 COSMIC
COSN30132220 1657 COSMIC
COSN30545013 1691 COSMIC
COSN31596841 1787 COSMIC
COSN30117550 1800 COSMIC
COSN30121863 1830 COSMIC
COSN21155159 1949 COSMIC
COSN26958029 2044 COSMIC
COSN30142633 2129 COSMIC
COSN31568921 2145 COSMIC
COSN30122188 2151 COSMIC
COSN15623237 2214 COSMIC
COSN15623238 2297 COSMIC
COSN30123212 2336 COSMIC
COSN31582710 2515 COSMIC
COSN31522483 2596 COSMIC
COSN15623239 2679 COSMIC
COSN15623240 2787 COSMIC
COSN31548915 2788 COSMIC
COSN30129099 2827 COSMIC
COSN30537300 2849 COSMIC
COSN24305524 2897 COSMIC
COSN31562608 3027 COSMIC
COSN30118606 3060 COSMIC
COSN31582580 3075 COSMIC
COSN30527469 3105 COSMIC
COSN30534659 3172 COSMIC
COSN30122673 3198 COSMIC
COSN31523754 3251 COSMIC
COSN19228373 3431 COSMIC
COSN26643814 3554 COSMIC
COSN30113595 3656 COSMIC
COSN16831749 3723 COSMIC
COSN31588895 3733 COSMIC
COSN31595224 3964 COSMIC
COSN26557699 4100 COSMIC
COSN15623241 4114 COSMIC
COSN30133766 4133 COSMIC
COSN31917822 4176 COSMIC
COSN26577398 4183 COSMIC
COSN31541029 4270 COSMIC
COSN31481522 4344 COSMIC
COSN31541037 4384 COSMIC
COSN31539205 4410 COSMIC
COSN30134999 4456 COSMIC
COSN30138065 4489 COSMIC
COSN30127814 4522 COSMIC
COSN19531069 4599 COSMIC
COSN26958030 4662 COSMIC
COSN15623242 4678 COSMIC
COSN15752360 4717 COSMIC
COSN7270099 4764 COSMIC
COSN15623243 4866 COSMIC
COSN30114073 4876 COSMIC
COSN31482125 4907 COSMIC
COSN26550256 4941 COSMIC
COSN31482337 5005 COSMIC
COSN31487580 5011 COSMIC
COSN26561478 5019 COSMIC
COSN20093160 5027 COSMIC
COSN31546471 5031 COSMIC
COSN30166762 5057 COSMIC
COSN30121133 5122 COSMIC
COSN6093318 5137 COSMIC
COSN26640570 5233 COSMIC
COSN30136583 5239 COSMIC
COSN26564351 5357 COSMIC
COSN31540800 5510 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs759766431 3 dbSNP
rs537415859 4 dbSNP
rs555725518 6 dbSNP
rs1482445399 8 dbSNP
rs1447241316 9 dbSNP
rs1046319398 10 dbSNP
rs1476921312 15 dbSNP
rs574127169 16 dbSNP
rs906449740 20 dbSNP
rs1419762339 22 dbSNP
rs1411342869 23 dbSNP
rs1300382783 25 dbSNP
rs1056108760 27 dbSNP
rs754127392 34 dbSNP
rs764357189 39 dbSNP
rs1311239837 40 dbSNP
rs1003930160 41 dbSNP
rs1394459877 43 dbSNP
rs778384117 44 dbSNP
rs1302026068 49 dbSNP
rs962871765 50 dbSNP
rs539567030 52 dbSNP
rs144413705 53 dbSNP
rs1028568418 55 dbSNP
rs955581842 56 dbSNP
rs1161784505 58 dbSNP
rs554078320 59 dbSNP
rs986819522 60 dbSNP
rs1382178299 69 dbSNP
rs924596859 75 dbSNP
rs1420553354 80 dbSNP
rs993643830 81 dbSNP
rs1201319564 84 dbSNP
rs1325427185 90 dbSNP
rs1030502590 96 dbSNP
rs1227732375 104 dbSNP
rs1333884250 108 dbSNP
rs572107321 115 dbSNP
rs954968363 117 dbSNP
rs545999762 120 dbSNP
rs1401517376 126 dbSNP
rs1397531728 134 dbSNP
rs1334810288 135 dbSNP
rs956328245 141 dbSNP
rs1407333005 145 dbSNP
rs1158867809 146 dbSNP
rs990243032 150 dbSNP
rs757527247 154 dbSNP
rs76691127 156 dbSNP
rs1381978168 158 dbSNP
rs577399142 166 dbSNP
rs1419164846 168 dbSNP
rs1241908346 169 dbSNP
rs910252071 172 dbSNP
rs576801448 173 dbSNP
rs1263582883 175 dbSNP
rs989664377 176 dbSNP
rs1310825021 177 dbSNP
rs1262436450 181 dbSNP
rs946538969 182 dbSNP
rs980542951 198 dbSNP
rs945168927 202 dbSNP
rs926558946 203 dbSNP
rs562867816 205 dbSNP
rs1399312025 213 dbSNP
rs1387520782 216 dbSNP
rs530157285 218 dbSNP
rs1457806454 220 dbSNP
rs542116369 233 dbSNP
rs1181189554 242 dbSNP
rs1202569002 245 dbSNP
rs1446122546 245 dbSNP
rs886767932 247 dbSNP
rs1445073982 250 dbSNP
rs1263535804 251 dbSNP
rs939802421 252 dbSNP
rs868435008 254 dbSNP
rs1358619841 257 dbSNP
rs560841035 257 dbSNP
rs1182222655 258 dbSNP
rs746243827 260 dbSNP
rs1248259731 261 dbSNP
rs546179048 262 dbSNP
rs1360514201 263 dbSNP
rs1269839618 266 dbSNP
rs113374986 274 dbSNP
rs897915343 277 dbSNP
rs1328588304 281 dbSNP
rs1028473406 289 dbSNP
rs1386754885 309 dbSNP
rs1364220353 313 dbSNP
rs758138082 319 dbSNP
rs1362257864 321 dbSNP
rs772511896 322 dbSNP
rs552753481 326 dbSNP
rs1166998059 331 dbSNP
rs1030492819 338 dbSNP
rs954957185 352 dbSNP
rs1008446314 353 dbSNP
rs1193598694 356 dbSNP
rs1007790963 359 dbSNP
rs1266670900 365 dbSNP
rs1224560024 369 dbSNP
rs1490534702 371 dbSNP
rs1032123463 377 dbSNP
rs1272324171 384 dbSNP
rs1333275583 385 dbSNP
rs956047020 386 dbSNP
rs1213048287 387 dbSNP
rs779740256 388 dbSNP
rs570746452 389 dbSNP
rs765511261 392 dbSNP
rs1017260307 397 dbSNP
rs1271178839 400 dbSNP
rs1223274443 402 dbSNP
rs990667703 405 dbSNP
rs957915024 409 dbSNP
rs1021724425 411 dbSNP
rs367588667 421 dbSNP
rs1305495061 423 dbSNP
rs1406048832 423 dbSNP
rs1349983894 424 dbSNP
rs1377041679 426 dbSNP
rs1327578152 432 dbSNP
rs1390289002 439 dbSNP
rs1304169719 441 dbSNP
rs1313619312 452 dbSNP
rs970090915 459 dbSNP
rs780635897 465 dbSNP
rs1421207264 471 dbSNP
rs1168342519 477 dbSNP
rs980573869 487 dbSNP
rs926423035 488 dbSNP
rs913605973 495 dbSNP
rs1201536723 499 dbSNP
rs1480693079 500 dbSNP
rs966482922 502 dbSNP
rs981937417 509 dbSNP
rs939303972 512 dbSNP
rs753301507 513 dbSNP
rs1264158820 515 dbSNP
rs1323258611 516 dbSNP
rs937898349 524 dbSNP
rs1202404844 533 dbSNP
rs1278515088 535 dbSNP
rs992084341 536 dbSNP
rs909817848 538 dbSNP
rs1331619378 543 dbSNP
rs1468925764 546 dbSNP
rs908231008 560 dbSNP
rs939692151 563 dbSNP
rs1178292673 564 dbSNP
rs1038417471 571 dbSNP
rs1470283630 573 dbSNP
rs1037716601 578 dbSNP
rs747437162 583 dbSNP
rs1471207105 587 dbSNP
rs898267668 588 dbSNP
rs897907123 593 dbSNP
rs1460134495 598 dbSNP
rs932352184 599 dbSNP
rs1049929694 604 dbSNP
rs891292783 607 dbSNP
rs1282791514 610 dbSNP
rs1008934913 614 dbSNP
rs1374916220 621 dbSNP
rs751155378 621 dbSNP
rs1031910176 626 dbSNP
rs1051862151 627 dbSNP
rs890654910 631 dbSNP
rs531284174 632 dbSNP
rs1468007228 634 dbSNP
rs1380078492 640 dbSNP
rs1172789090 646 dbSNP
rs1011595182 652 dbSNP
rs1466347200 656 dbSNP
rs1021541166 661 dbSNP
rs1156841263 662 dbSNP
rs549514235 666 dbSNP
rs190429632 669 dbSNP
rs181613581 670 dbSNP
rs112232471 673 dbSNP
rs113157846 680 dbSNP
rs1245189117 683 dbSNP
rs1184382121 687 dbSNP
rs553738429 693 dbSNP
rs960550349 695 dbSNP
rs1485751303 702 dbSNP
rs528624281 705 dbSNP
rs1240684694 706 dbSNP
rs1218580589 709 dbSNP
rs754598039 711 dbSNP
rs1286154537 713 dbSNP
rs966429124 724 dbSNP
rs1356900611 727 dbSNP
rs780956536 732 dbSNP
rs1282237029 734 dbSNP
rs992515621 735 dbSNP
rs1396181634 747 dbSNP
rs1286878235 749 dbSNP
rs908470771 753 dbSNP
rs1361085761 755 dbSNP
rs76665038 759 dbSNP
rs1422840103 763 dbSNP
rs959168887 773 dbSNP
rs973768828 776 dbSNP
rs1387098628 791 dbSNP
rs990670065 794 dbSNP
rs1260346106 796 dbSNP
rs1308634918 798 dbSNP
rs539384287 799 dbSNP
rs1188618568 801 dbSNP
rs1486515946 812 dbSNP
rs7184486 818 dbSNP
rs1220826667 821 dbSNP
rs1489640748 822 dbSNP
rs1489501337 825 dbSNP
rs773926669 829 dbSNP
rs919283665 839 dbSNP
rs929381933 844 dbSNP
rs1216095197 847 dbSNP
rs1340838073 852 dbSNP
rs1302479557 863 dbSNP
rs1402987792 863 dbSNP
rs912764764 869 dbSNP
rs117887507 870 dbSNP
rs759339424 876 dbSNP
rs1053672019 877 dbSNP
rs892050127 878 dbSNP
rs767166682 885 dbSNP
rs1419881997 889 dbSNP
rs943494535 899 dbSNP
rs1043071295 905 dbSNP
rs894044713 908 dbSNP
rs1011178642 910 dbSNP
rs1209910068 913 dbSNP
rs369359844 914 dbSNP
rs902151454 919 dbSNP
rs1318379850 928 dbSNP
rs1001595289 930 dbSNP
rs545440399 934 dbSNP
rs752710493 935 dbSNP
rs544708207 938 dbSNP
rs368448167 945 dbSNP
rs563717899 946 dbSNP
rs1390875604 950 dbSNP
rs1371199550 951 dbSNP
rs1013439862 954 dbSNP
rs1401421573 955 dbSNP
rs760495700 956 dbSNP
rs1405836867 958 dbSNP
rs1015805310 964 dbSNP
rs532730255 967 dbSNP
rs973978898 968 dbSNP
rs1471281785 970 dbSNP
rs79662782 974 dbSNP
rs1034727277 975 dbSNP
rs1247759908 977 dbSNP
rs1214564248 980 dbSNP
rs1294016357 983 dbSNP
rs953675254 987 dbSNP
rs991053767 988 dbSNP
rs1016808736 1031 dbSNP
rs1246830747 1035 dbSNP
rs1291079415 1036 dbSNP
rs962928875 1037 dbSNP
rs561821563 1049 dbSNP
rs185561638 1057 dbSNP
rs929287059 1063 dbSNP
rs1382306201 1069 dbSNP
rs1454931658 1074 dbSNP
rs1403277625 1079 dbSNP
rs943744801 1084 dbSNP
rs1158531235 1085 dbSNP
rs560590863 1086 dbSNP
rs911944868 1086 dbSNP
rs1439991208 1101 dbSNP
rs1242127180 1102 dbSNP
rs943505175 1113 dbSNP
rs1443932073 1117 dbSNP
rs779883247 1117 dbSNP
rs913381535 1119 dbSNP
rs1348426010 1123 dbSNP
rs894001494 1127 dbSNP
rs1240949586 1128 dbSNP
rs142487282 1130 dbSNP
rs546207938 1137 dbSNP
rs946885390 1144 dbSNP
rs1248400507 1146 dbSNP
rs564340138 1148 dbSNP
rs1341470656 1151 dbSNP
rs947701123 1153 dbSNP
rs902769731 1162 dbSNP
rs1184752501 1163 dbSNP
rs1387769243 1167 dbSNP
rs1043268294 1168 dbSNP
rs1415849082 1181 dbSNP
rs1419788675 1181 dbSNP
rs1445118286 1182 dbSNP
rs1384004797 1183 dbSNP
rs1003175258 1194 dbSNP
rs1382784413 1196 dbSNP
rs1473546508 1199 dbSNP
rs1056175741 1201 dbSNP
rs1192164752 1205 dbSNP
rs1421155407 1208 dbSNP
rs1445271234 1210 dbSNP
rs779294175 1211 dbSNP
rs531828886 1216 dbSNP
rs549427936 1217 dbSNP
rs867851791 1225 dbSNP
rs868275670 1226 dbSNP
rs962546501 1229 dbSNP
rs1211911052 1233 dbSNP
rs188754021 1236 dbSNP
rs895905506 1237 dbSNP
rs180775544 1238 dbSNP
rs1342702775 1239 dbSNP
rs987429390 1250 dbSNP
rs911919757 1256 dbSNP
rs1364429932 1258 dbSNP
rs146429807 1264 dbSNP
rs1406775920 1265 dbSNP
rs961500185 1268 dbSNP
rs1166900107 1270 dbSNP
rs565565132 1272 dbSNP
rs915329420 1276 dbSNP
rs1314479488 1284 dbSNP
rs1357354730 1289 dbSNP
rs758867760 1290 dbSNP
rs1285180144 1292 dbSNP
rs1266919729 1293 dbSNP
rs946865372 1298 dbSNP
rs1026916058 1305 dbSNP
rs1272572876 1307 dbSNP
rs1316174659 1313 dbSNP
rs1213412682 1319 dbSNP
rs112686816 1325 dbSNP
rs1461718186 1332 dbSNP
rs1320479992 1336 dbSNP
rs1259050961 1341 dbSNP
rs1223492569 1342 dbSNP
rs539714429 1350 dbSNP
rs1272640996 1351 dbSNP
rs550686790 1355 dbSNP
rs558123582 1356 dbSNP
rs1327806281 1366 dbSNP
rs1407810355 1372 dbSNP
rs924181183 1375 dbSNP
rs939624292 1376 dbSNP
rs1158832390 1378 dbSNP
rs530321566 1379 dbSNP
rs200092995 1384 dbSNP
rs140775247 1391 dbSNP
rs1157375943 1393 dbSNP
rs965190077 1403 dbSNP
rs1408681846 1411 dbSNP
rs537244609 1415 dbSNP
rs556665025 1420 dbSNP
rs780253232 1424 dbSNP
rs1239214179 1428 dbSNP
rs1025467795 1440 dbSNP
rs771262065 1440 dbSNP
rs186209757 1441 dbSNP
rs1281353441 1442 dbSNP
rs955271521 1443 dbSNP
rs774595362 1447 dbSNP
rs947543235 1448 dbSNP
rs1018620086 1449 dbSNP
rs1280162824 1449 dbSNP
rs1372913635 1451 dbSNP
rs978873122 1455 dbSNP
rs1264787805 1456 dbSNP
rs1323980256 1459 dbSNP
rs372388329 1460 dbSNP
rs937556153 1464 dbSNP
rs570752205 1471 dbSNP
rs1178182430 1472 dbSNP
rs1414924623 1474 dbSNP
rs964715433 1476 dbSNP
rs975151075 1477 dbSNP
rs1057070709 1483 dbSNP
rs1458995750 1486 dbSNP
rs574893300 1493 dbSNP
rs747601723 1498 dbSNP
rs915294636 1501 dbSNP
rs1183148849 1503 dbSNP
rs541993583 1508 dbSNP
rs1036837754 1509 dbSNP
rs897016276 1514 dbSNP
rs995357575 1520 dbSNP
rs1192556428 1521 dbSNP
rs1237304463 1522 dbSNP
rs1026780299 1527 dbSNP
rs1470489943 1528 dbSNP
rs554115135 1536 dbSNP
rs889714178 1538 dbSNP
rs755428803 1539 dbSNP
rs924130542 1541 dbSNP
rs1006803874 1545 dbSNP
rs1019315020 1546 dbSNP
rs1412095103 1548 dbSNP
rs1344530961 1550 dbSNP
rs1329631423 1566 dbSNP
rs939571886 1566 dbSNP
rs1056689691 1570 dbSNP
rs1380952783 1570 dbSNP
rs1163200943 1578 dbSNP
rs1440369896 1598 dbSNP
rs572396999 1610 dbSNP
rs1422260027 1615 dbSNP
rs965397792 1617 dbSNP
rs546469681 1618 dbSNP
rs1285429283 1620 dbSNP
rs1182798676 1624 dbSNP
rs1475405893 1625 dbSNP
rs533403526 1627 dbSNP
rs564452090 1628 dbSNP
rs1222691855 1629 dbSNP
rs1038453924 1634 dbSNP
rs576184678 1641 dbSNP
rs1319523276 1647 dbSNP
rs139847997 1648 dbSNP
rs1228662091 1656 dbSNP
rs561977775 1658 dbSNP
rs1276262614 1661 dbSNP
rs1046865903 1663 dbSNP
rs927433673 1665 dbSNP
rs16973477 1669 dbSNP
rs1435563857 1671 dbSNP
rs1165670958 1680 dbSNP
rs1008032716 1685 dbSNP
rs565967513 1686 dbSNP
rs899755771 1697 dbSNP
rs996183046 1699 dbSNP
rs917280924 1700 dbSNP
rs1198063824 1704 dbSNP
rs770369684 1714 dbSNP
rs1266857330 1719 dbSNP
rs143307443 1727 dbSNP
rs1306727272 1729 dbSNP
rs1255892507 1732 dbSNP
rs1220434392 1736 dbSNP
rs1341046319 1739 dbSNP
rs1168988026 1741 dbSNP
rs1385167503 1744 dbSNP
rs899250987 1753 dbSNP
rs76202072 1760 dbSNP
rs534283455 1761 dbSNP
rs1408251411 1765 dbSNP
rs559288958 1766 dbSNP
rs146719906 1768 dbSNP
rs1366458478 1769 dbSNP
rs978202019 1770 dbSNP
rs745481512 1776 dbSNP
rs1301076837 1778 dbSNP
rs1327965257 1784 dbSNP
rs191935044 1785 dbSNP
rs569987319 1793 dbSNP
rs537207555 1794 dbSNP
rs1457015418 1797 dbSNP
rs960841829 1799 dbSNP
rs889619270 1803 dbSNP
rs549185004 1807 dbSNP
rs754878375 1808 dbSNP
rs992741588 1819 dbSNP
rs775733278 1825 dbSNP
rs1336937796 1827 dbSNP
rs1262434543 1837 dbSNP
rs1230929455 1841 dbSNP
rs567378548 1844 dbSNP
rs1247565232 1845 dbSNP
rs1291819683 1846 dbSNP
rs1374951408 1847 dbSNP
rs1006833469 1849 dbSNP
rs1219728909 1852 dbSNP
rs1405726959 1856 dbSNP
rs1171360917 1859 dbSNP
rs1468009138 1875 dbSNP
rs535942267 1881 dbSNP
rs1176148139 1882 dbSNP
rs867292396 1882 dbSNP
rs1265783833 1883 dbSNP
rs140339495 1886 dbSNP
rs1438755368 1887 dbSNP
rs572367894 1891 dbSNP
rs1378109909 1896 dbSNP
rs1180047963 1899 dbSNP
rs1458068036 1902 dbSNP
rs919620245 1906 dbSNP
rs1458379139 1912 dbSNP
rs929656482 1914 dbSNP
rs1194598876 1915 dbSNP
rs771938747 1921 dbSNP
rs901059032 1933 dbSNP
rs1373028640 1941 dbSNP
rs1256736467 1944 dbSNP
rs1239503091 1945 dbSNP
rs1351529657 1960 dbSNP
rs1010337600 1962 dbSNP
rs1019911652 1966 dbSNP
rs1332573077 1971 dbSNP
rs539452616 1975 dbSNP
rs1474676986 1985 dbSNP
rs1288736098 1994 dbSNP
rs999895886 1999 dbSNP
rs890876461 2003 dbSNP
rs1385891051 2008 dbSNP
rs1034520419 2010 dbSNP
rs1160113922 2026 dbSNP
rs1439902932 2028 dbSNP
rs1367723635 2032 dbSNP
rs943839212 2035 dbSNP
rs958848021 2037 dbSNP
rs993123394 2038 dbSNP
rs1215724224 2041 dbSNP
rs118191970 2044 dbSNP
rs763929902 2053 dbSNP
rs1386953361 2058 dbSNP
rs1011930988 2065 dbSNP
rs776656185 2074 dbSNP
rs1282851408 2075 dbSNP
rs1247457605 2091 dbSNP
rs184234293 2103 dbSNP
rs1341372721 2115 dbSNP
rs1398637595 2131 dbSNP
rs903827656 2133 dbSNP
rs568296377 2135 dbSNP
rs1420006863 2138 dbSNP
rs1389554241 2157 dbSNP
rs1161037899 2159 dbSNP
rs1459254415 2161 dbSNP
rs1324620927 2163 dbSNP
rs1368788464 2168 dbSNP
rs1192885622 2170 dbSNP
rs1476781879 2175 dbSNP
rs1265515631 2177 dbSNP
rs1454470673 2179 dbSNP
rs999545617 2183 dbSNP
rs1315164596 2189 dbSNP
rs1287995585 2196 dbSNP
rs1031053444 2199 dbSNP
rs1217383613 2205 dbSNP
rs1241659966 2205 dbSNP
rs960791361 2206 dbSNP
rs972481567 2215 dbSNP
rs1262115117 2219 dbSNP
rs1353357569 2225 dbSNP
rs1024264162 2240 dbSNP
rs920586532 2244 dbSNP
rs1206099660 2248 dbSNP
rs969652752 2250 dbSNP
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rs762010425 2260 dbSNP
rs930753949 2265 dbSNP
rs1171214903 2266 dbSNP
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rs1245001271 2280 dbSNP
rs911084385 2281 dbSNP
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rs1238027864 2290 dbSNP
rs113303166 2292 dbSNP
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rs1219117548 2301 dbSNP
rs1343701668 2304 dbSNP
rs187188338 2311 dbSNP
rs1235043673 2315 dbSNP
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rs149933311 2321 dbSNP
rs1444313246 2336 dbSNP
rs369186662 2337 dbSNP
rs1331977858 2338 dbSNP
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rs1379934431 2368 dbSNP
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rs999925471 2391 dbSNP
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rs1034050848 2394 dbSNP
rs765370255 2395 dbSNP
rs535866886 2399 dbSNP
rs1014839684 2400 dbSNP
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rs1039519553 2404 dbSNP
rs921126880 2405 dbSNP
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rs1237440044 2409 dbSNP
rs1042971325 2422 dbSNP
rs201933448 2422 dbSNP
rs903104143 2424 dbSNP
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rs1052471691 2446 dbSNP
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rs1014113076 2505 dbSNP
rs1211391240 2512 dbSNP
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rs1284768167 2570 dbSNP
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rs1252708396 2601 dbSNP
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rs952010152 2609 dbSNP
rs1346023781 2616 dbSNP
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rs910655862 2636 dbSNP
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rs1041285794 2661 dbSNP
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rs1041599100 2689 dbSNP
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rs549346166 2781 dbSNP
rs1256114087 2789 dbSNP
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rs1300635518 2803 dbSNP
rs776146447 2803 dbSNP
rs35073429 2806 dbSNP
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rs1326764215 2823 dbSNP
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rs1333983172 2830 dbSNP
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rs577796257 3490 dbSNP
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rs887943746 3651 dbSNP
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rs3751818 3717 dbSNP
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rs534438218 3755 dbSNP
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rs11867138 3761 dbSNP
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rs1233774735 3776 dbSNP
rs1000902221 3789 dbSNP
rs112597288 3790 dbSNP
rs1293515847 3791 dbSNP
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rs952675917 3805 dbSNP
rs1202483754 3808 dbSNP
rs984093857 3810 dbSNP
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rs1032830793 3835 dbSNP
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rs537050646 3845 dbSNP
rs1353487365 3855 dbSNP
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rs563805393 3862 dbSNP
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rs908626681 3883 dbSNP
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rs1249484946 3908 dbSNP
rs1206716475 3913 dbSNP
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rs1177399676 3945 dbSNP
rs1409263782 3955 dbSNP
rs1446772196 3958 dbSNP
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rs567878827 3987 dbSNP
rs932828135 3997 dbSNP
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rs1418218649 4034 dbSNP
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rs1280153762 4049 dbSNP
rs191800631 4052 dbSNP
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rs981137289 4065 dbSNP
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rs1281237067 4078 dbSNP
rs929081473 4100 dbSNP
rs1315462651 4105 dbSNP
rs1349705633 4111 dbSNP
rs1309816399 4112 dbSNP
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rs1373481630 4119 dbSNP
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rs1000933059 4240 dbSNP
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rs778450173 4293 dbSNP
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rs971371109 4316 dbSNP
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rs757695370 4343 dbSNP
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rs1336358830 4364 dbSNP
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rs887678777 4512 dbSNP
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rs574434219 4688 dbSNP
rs1053672814 4690 dbSNP
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rs926136893 4710 dbSNP
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rs1022838295 4716 dbSNP
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rs989038830 4722 dbSNP
rs1002823726 4725 dbSNP
rs1353591873 4729 dbSNP
rs1315070496 4732 dbSNP
rs1448993103 4748 dbSNP
rs1288114832 4752 dbSNP
rs1026250755 4755 dbSNP
rs950591135 4769 dbSNP
rs1449252714 4771 dbSNP
rs2291947 4777 dbSNP
rs76941655 4789 dbSNP
rs1015903811 4793 dbSNP
rs964528055 4799 dbSNP
rs1045842856 4801 dbSNP
rs532181122 4804 dbSNP
rs1414977898 4816 dbSNP
rs1189708343 4824 dbSNP
rs3088285 4838 dbSNP
rs1241098115 4853 dbSNP
rs1213388921 4859 dbSNP
rs933496939 4860 dbSNP
rs1268718992 4864 dbSNP
rs978207637 4865 dbSNP
rs569836474 4877 dbSNP
rs1212966501 4880 dbSNP
rs924195688 4883 dbSNP
rs1386103714 4888 dbSNP
rs141924458 4889 dbSNP
rs887583810 4893 dbSNP
rs1229165782 4898 dbSNP
rs549091778 4901 dbSNP
rs370504861 4903 dbSNP
rs1161267278 4911 dbSNP
rs1053746848 4921 dbSNP
rs867799089 4926 dbSNP
rs185506132 4933 dbSNP
rs1187815735 4945 dbSNP
rs948188233 4952 dbSNP
rs535005106 4956 dbSNP
rs769851325 4969 dbSNP
rs553670179 4972 dbSNP
rs998192654 4973 dbSNP
rs764525188 4980 dbSNP
rs1418388191 4991 dbSNP
rs189510248 4994 dbSNP
rs1315056758 5013 dbSNP
rs954140508 5021 dbSNP
rs1476298802 5055 dbSNP
rs1339535488 5059 dbSNP
rs539239699 5061 dbSNP
rs1193005608 5063 dbSNP
rs1003140007 5067 dbSNP
rs1026113481 5076 dbSNP
rs776701800 5079 dbSNP
rs565945787 5082 dbSNP
rs1306956027 5087 dbSNP
rs1271202509 5089 dbSNP
rs1216512286 5092 dbSNP
rs1366456301 5094 dbSNP
rs1303108288 5099 dbSNP
rs1439086513 5107 dbSNP
rs1006135857 5112 dbSNP
rs1373832028 5114 dbSNP
rs1294589636 5115 dbSNP
rs957486602 5117 dbSNP
rs1353392250 5138 dbSNP
rs201002534 5146 dbSNP
rs1167929845 5148 dbSNP
rs373777187 5162 dbSNP
rs988986584 5187 dbSNP
rs1390622268 5195 dbSNP
rs1172798682 5196 dbSNP
rs557068933 5214 dbSNP
rs1015977469 5220 dbSNP
rs1269420010 5221 dbSNP
rs1191657535 5226 dbSNP
rs1353245343 5239 dbSNP
rs964717803 5245 dbSNP
rs1231242061 5249 dbSNP
rs1209969125 5266 dbSNP
rs1343153012 5274 dbSNP
rs950390701 5275 dbSNP
rs11008 5298 dbSNP
rs981113009 5298 dbSNP
rs1463885361 5309 dbSNP
rs974406762 5313 dbSNP
rs1205688040 5319 dbSNP
rs1030513208 5324 dbSNP
rs954443802 5326 dbSNP
rs1391291153 5338 dbSNP
rs926982033 5339 dbSNP
rs1256895217 5340 dbSNP
rs1295935772 5347 dbSNP
rs35705571 5348 dbSNP
rs1411070041 5360 dbSNP
rs978235391 5365 dbSNP
rs924102427 5382 dbSNP
rs1311861028 5395 dbSNP
rs1432658243 5410 dbSNP
rs958319912 5412 dbSNP
rs1379117204 5416 dbSNP
rs1365391611 5417 dbSNP
rs1048776566 5426 dbSNP
rs867249587 5433 dbSNP
rs887532917 5436 dbSNP
rs575429195 5446 dbSNP
rs536382585 5448 dbSNP
rs544874949 5460 dbSNP
rs901739438 5462 dbSNP
rs1046371792 5464 dbSNP
rs928042112 5466 dbSNP
rs1484466350 5467 dbSNP
rs1050376757 5470 dbSNP
rs1239034309 5473 dbSNP
rs528380363 5473 dbSNP
rs1309705560 5474 dbSNP
rs192034969 5477 dbSNP
rs1229734383 5480 dbSNP
rs1350518647 5480 dbSNP
rs1311947703 5482 dbSNP
rs2291946 5485 dbSNP
rs1412530417 5486 dbSNP
rs2291945 5487 dbSNP
rs889760394 5488 dbSNP
rs767776147 5490 dbSNP
rs930043510 5490 dbSNP
rs1161221660 5496 dbSNP
rs1472987719 5498 dbSNP
rs1417214721 5500 dbSNP
rs774468026 5501 dbSNP
rs1186164749 5504 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545213. RNA binding protein: AGO2. Condition:Control ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions hESCs (WA-09)
Disease 342371.0
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]
Experimental Support 3 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 ERX177631. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_9 PAR-CLIP data was present in ERX177599. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_1 PAR-CLIP data was present in ERX177623. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_1 PAR-CLIP data was present in ERX177611. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_3_1 PAR-CLIP data was present in ERX177603. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_2_5 PAR-CLIP data was present in ERX177627. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_5 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.

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 GSM545213
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / Control
Location of target site ENST00000427980.2 | 3UTR | GAUGGAUCUGUGUAGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset SRR359787
Method / RBP PAR-CLIP / AGO2
Cell line / Condition hESCs (WA-09) / 4-thiouridine, RNase T1
Location of target site ENST00000427980.2 | 3UTR | UCUGGAUGGAUCUGUGUAGGAG
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
51 hsa-miR-4471 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT082398 HNRNPUL1 heterogeneous nuclear ribonucleoprotein U like 1 2 4
MIRT295740 KIF3B kinesin family member 3B 2 2
MIRT453005 CCDC115 coiled-coil domain containing 115 2 16
MIRT456180 ZDHHC6 zinc finger DHHC-type containing 6 2 2
MIRT457455 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT464992 TUBB2A tubulin beta 2A class IIa 2 10
MIRT467615 SLC7A5 solute carrier family 7 member 5 2 2
MIRT468602 SERBP1 SERPINE1 mRNA binding protein 1 2 2
MIRT470070 PTGES2 prostaglandin E synthase 2 2 2
MIRT470562 POU2F1 POU class 2 homeobox 1 2 2
MIRT472274 NFIB nuclear factor I B 2 2
MIRT473471 MCFD2 multiple coagulation factor deficiency 2 2 2
MIRT477892 DVL3 dishevelled segment polarity protein 3 2 4
MIRT486345 TACC2 transforming acidic coiled-coil containing protein 2 2 6
MIRT487190 NFASC neurofascin 2 4
MIRT488690 NAT9 N-acetyltransferase 9 (putative) 2 2
MIRT492106 TAB2 TGF-beta activated kinase 1/MAP3K7 binding protein 2 2 2
MIRT495216 DSCR3 DSCR3 arrestin fold containing 2 2
MIRT495666 TUBAL3 tubulin alpha like 3 2 2
MIRT501833 NCOA2 nuclear receptor coactivator 2 2 2
MIRT507147 GATAD2B GATA zinc finger domain containing 2B 2 4
MIRT508522 GDI1 GDP dissociation inhibitor 1 2 2
MIRT513839 KCTD15 potassium channel tetramerization domain containing 15 2 4
MIRT513883 GTF2IRD2 GTF2I repeat domain containing 2 2 4
MIRT527336 COL18A1 collagen type XVIII alpha 1 chain 2 2
MIRT537390 FGD6 FYVE, RhoGEF and PH domain containing 6 2 2
MIRT538879 BTBD1 BTB domain containing 1 2 2
MIRT539044 ATXN1L ataxin 1 like 2 4
MIRT554387 SERTAD3 SERTA domain containing 3 2 2
MIRT554936 RAP1A RAP1A, member of RAS oncogene family 2 2
MIRT567517 FOXC1 forkhead box C1 2 2
MIRT573598 CERS1 ceramide synthase 1 2 2
MIRT642417 CILP2 cartilage intermediate layer protein 2 2 2
MIRT643296 PHKG1 phosphorylase kinase catalytic subunit gamma 1 2 2
MIRT652883 SYVN1 synoviolin 1 2 2
MIRT657928 GATSL2 cytosolic arginine sensor for mTORC1 subunit 2 2 2
MIRT660302 BHLHE40 basic helix-loop-helix family member e40 2 2
MIRT664717 SLC7A6OS solute carrier family 7 member 6 opposite strand 2 2
MIRT698889 SPTBN2 spectrin beta, non-erythrocytic 2 2 2
MIRT702007 MIDN midnolin 2 2
MIRT706808 APOL4 apolipoprotein L4 2 2
MIRT708330 DERL2 derlin 2 2 2
MIRT709885 ERCC6L ERCC excision repair 6 like, spindle assembly checkpoint helicase 2 2
MIRT711887 INSIG2 insulin induced gene 2 2 2
MIRT711956 CYP27B1 cytochrome P450 family 27 subfamily B member 1 2 2
MIRT715081 PRKAB2 protein kinase AMP-activated non-catalytic subunit beta 2 2 2
MIRT716218 TRIM17 tripartite motif containing 17 2 2
MIRT718124 CHST4 carbohydrate sulfotransferase 4 2 2
MIRT718725 VWA9 integrator complex subunit 14 2 2
MIRT719450 APBA1 amyloid beta precursor protein binding family A member 1 2 2
MIRT725666 ABI2 abl interactor 2 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-4471 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-4471 Paclitaxel 36314 NSC125973 approved sensitive cell line (A2780)
hsa-miR-4471 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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