miRTarBase - #MIRT508522


—
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 GDI1   
Synonyms 1A, GDIL, MRX41, MRX48, OPHN2, RABGD1A, RABGDIA, XAP-4
Description GDP dissociation inhibitor 1
Transcript NM_001493   
Expression
Putative miRNA Targets on GDI1
3'UTR of GDI1
(miRNA target sites are highlighted)		 
>GDI1|NM_001493|3'UTR
   1 TTGTGGCCGCCCCCAGCCCCTGCTGCCCCAGCCTGTGTCTGTTCTCCTCGAGGGCTCCAGCATCCTCTGCTTCCCCCACC
  81 ACGTTCCCATCACCCACCTCATTGATCCACTGACCAAATCCTTAACCCTAGCGATGGCTTGGGAGATGGGGGGTTGGATA
 161 GCATCCTCTTTCTTGGCCCTTCCTTATCCTAGGAAAAGAGGGTTCCTCTCCTTGTGTGTGTCTCTTCCCCCCACCCCTAA
 241 TTCTTCTGCTCTGTTTGGGAAGACGTGGAGGAAAAGGTGACTTCTGCCCCCACCGCTCTTACCCCCACTGTAGTGGCCTT
 321 TGGAGATGCCCCCACCTCCCCCCCACCAACTCTCGCGTGTTGGAGAGAAGGGGCCCTCCCAGCACAAAGTTGCATTCCTC
 401 CCCCCTAATTTATTCTAATTTATTAACTTTGACCCACCCTTTCTGAGCCTGCAGCCTTCCCGTGTGGCCTGAGGGCTGTC
 481 GAGTGAGCTGCCCCAGCCCCTCCCAGCCCTTGCCCAGCCTGGGGGAGTGGGGAAGGCTTGGGCATGGCCCCGTTGGAGGT
 561 TGATTTGCTGTTTTGTTTCTTGTCTTTGTGTTCTGTGGTACTTGCTGAGAGAAAAGAAAAGTGAGCCAAGCAGAAGGAGG
 641 TGGGAAAACGGACCCAAACCCCAGTGTGCCCTGCCCCATGCCTTTCCTTTAGTGGTGGGAAACCCTTATCTTGCAAAGTG
 721 AATGTGTCCCCTTCCCCACCCTCTAGTGTATTTCACAGAAAACAAAACCTCCCAATAAAACGGTTGAAACCTGAAAAAAA
 801 AAAAAAAAAAAAAAAAAAA
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' aauuuGGAGAUGAUUCAAGGGu 5'
               || | || | |||||| 
Target 5' tgcttCCCCCACCACGTTCCCa 3'
 68 - 89 129.00 -11.90
2 
miRNA  3' aauUUGGAGAU-GAUUCAAGGGu 5'
             |:||| |: ||  ||||:| 
Target 5' cccAGCCTGTGTCT--GTTCTCc 3'
 27 - 47 114.00 -12.30
3 
miRNA  3' aauuUGG---AGAU---GAU-UC--AAGGGu 5'
              |||   |||:   ||: ||  ||||| 
Target 5' acccACCCTTTCTGAGCCTGCAGCCTTCCCg 3'
 432 - 462 110.00 -14.70
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs782048019 2 dbSNP
rs782763010 11 dbSNP
rs55736938 19 dbSNP
rs782516329 26 dbSNP
rs975427398 28 dbSNP
rs782632974 30 dbSNP
rs782813979 44 dbSNP
rs955433519 45 dbSNP
rs190219027 47 dbSNP
rs7059013 49 dbSNP
rs782473573 50 dbSNP
rs1380695549 65 dbSNP
rs1336574825 83 dbSNP
rs782706979 84 dbSNP
rs1401828749 87 dbSNP
rs1387536998 102 dbSNP
rs781811623 107 dbSNP
rs1157170676 108 dbSNP
rs990330063 116 dbSNP
rs1453546653 120 dbSNP
rs1362847380 122 dbSNP
rs1183836992 128 dbSNP
rs1240756763 134 dbSNP
rs914709819 136 dbSNP
rs1447485694 142 dbSNP
rs1203160231 148 dbSNP
rs1286304286 148 dbSNP
rs1349765057 156 dbSNP
rs1292704356 160 dbSNP
rs1248454703 166 dbSNP
rs1380626682 166 dbSNP
rs1314489217 168 dbSNP
rs1431637035 169 dbSNP
rs1328676634 183 dbSNP
rs946452926 184 dbSNP
rs1316912657 186 dbSNP
rs1381951049 189 dbSNP
rs782152934 192 dbSNP
rs1163780240 207 dbSNP
rs782815711 209 dbSNP
rs1426184096 213 dbSNP
rs1383050888 216 dbSNP
rs879970914 223 dbSNP
rs904934005 225 dbSNP
rs939061155 228 dbSNP
rs183216290 233 dbSNP
rs1243765716 234 dbSNP
rs1190959110 237 dbSNP
rs1446147143 245 dbSNP
rs1269376359 252 dbSNP
rs1224947662 257 dbSNP
rs1056517840 259 dbSNP
rs887051731 260 dbSNP
rs1357526551 265 dbSNP
rs1291369341 266 dbSNP
rs1215237074 269 dbSNP
rs1341576109 273 dbSNP
rs1004059788 275 dbSNP
rs1227382553 279 dbSNP
rs1016723483 285 dbSNP
rs898371809 287 dbSNP
rs1403528451 290 dbSNP
rs1363321859 293 dbSNP
rs781867947 295 dbSNP
rs1028435098 297 dbSNP
rs1409987257 299 dbSNP
rs1421034377 302 dbSNP
rs955623575 303 dbSNP
rs1477468641 307 dbSNP
rs1429967671 310 dbSNP
rs1201279865 320 dbSNP
rs1489818271 327 dbSNP
rs1268376681 335 dbSNP
rs1205492096 338 dbSNP
rs1439593865 338 dbSNP
rs986836950 341 dbSNP
rs782470523 343 dbSNP
rs1285821840 345 dbSNP
rs1222049796 346 dbSNP
rs868982656 355 dbSNP
rs1442532251 356 dbSNP
rs782608366 357 dbSNP
rs1464684803 358 dbSNP
rs990361323 371 dbSNP
rs914825698 373 dbSNP
rs1479294637 405 dbSNP
rs781789172 406 dbSNP
rs1063371 416 dbSNP
rs1424239716 423 dbSNP
rs970248782 424 dbSNP
rs1177948797 431 dbSNP
rs1471267500 435 dbSNP
rs980254752 436 dbSNP
rs1231430270 439 dbSNP
rs782603998 443 dbSNP
rs11549303 444 dbSNP
rs1461873245 461 dbSNP
rs939077085 462 dbSNP
rs782715555 463 dbSNP
rs1323232659 468 dbSNP
rs782440002 478 dbSNP
rs1225883044 479 dbSNP
rs782668861 481 dbSNP
rs1277481800 482 dbSNP
rs1382890767 490 dbSNP
rs782290807 492 dbSNP
rs1468188961 494 dbSNP
rs1358554429 496 dbSNP
rs1159520544 506 dbSNP
rs11549302 508 dbSNP
rs113193055 513 dbSNP
rs1038292161 525 dbSNP
rs1406042736 527 dbSNP
rs1178267627 536 dbSNP
rs1445246012 545 dbSNP
rs898401330 552 dbSNP
rs1182237955 553 dbSNP
rs1243241406 556 dbSNP
rs1218379462 575 dbSNP
rs1315566152 582 dbSNP
rs1281631081 583 dbSNP
rs1239014933 589 dbSNP
rs1359471762 602 dbSNP
rs782369773 603 dbSNP
rs1449882425 606 dbSNP
rs1289428995 607 dbSNP
rs996665101 614 dbSNP
rs1049998994 617 dbSNP
rs1343224419 635 dbSNP
rs1425562926 638 dbSNP
rs1387372106 639 dbSNP
rs782656600 642 dbSNP
rs1423387239 643 dbSNP
rs1008689429 662 dbSNP
rs1263031109 665 dbSNP
rs1031679622 677 dbSNP
rs1188815839 685 dbSNP
rs1485073693 686 dbSNP
rs1262947100 688 dbSNP
rs1223752135 691 dbSNP
rs1490402320 693 dbSNP
rs1293572343 704 dbSNP
rs1241963434 705 dbSNP
rs782219682 705 dbSNP
rs782386174 715 dbSNP
rs782370077 719 dbSNP
rs1216292267 729 dbSNP
rs1359548997 731 dbSNP
rs1297335803 732 dbSNP
rs111431799 740 dbSNP
rs1011581229 741 dbSNP
rs1049729 747 dbSNP
rs781927333 748 dbSNP
rs1301587197 758 dbSNP
rs1457422389 761 dbSNP
rs782672995 763 dbSNP
rs970283115 767 dbSNP
rs980277679 774 dbSNP
rs1173103013 775 dbSNP
rs928770307 776 dbSNP
rs1423595778 778 dbSNP
rs1200595109 782 dbSNP
rs1481654738 783 dbSNP
rs1270513731 794 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 2664.0
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 GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' aauUUGGAGAUGAUUCAAGGGu 5'
             | |||||:|    ||||| 
Target 5' agcAUCCUCUGC----UUCCCc 3'
 		9 - 26
Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
CLIP-seq Support 1 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_001493 | 3UTR | CCAUCACCCACCUCAUUGAUCCACUGACCAAAUCCUUAACCCUAGCGAUGGCUUGGGAGAUGGGGGGUUGGAUAGCAUCCUCUUUCUUGGCCCUUCCUUAUCCUAGGAAAAGAGGGUUCCUCUCCUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_001493 | 3UTR | GUUCCCAUCACCCACCUCAUUGAUCCACUGACCAAAUCCUUAACCCUAGCGAUGGCUUGGGAGAUGGGGGGUUGGAUAGCAUCCUCUUUCUUGGCCCUUCCUUAUCCUAGGAAAAGAGGGUUCCUCUCCUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_001493 | 3UTR | CCCAUCACCCACCUCAUUGAUCCACUGACCAAAUCCUUAACCCUAGCGAUGGCUUGGGAGAUGGGGGGUUGGAUAGCAUCCUCUUUCUUGGCCCUUCCUUAUCCUAGGAAAAGAGGGUUCCUCUCCUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_001493 | 3UTR | CGUUCCCAUCACCCACCUCAUUGAUCCACUGACCAAAUCCUUAACCCUAGCGAUGGCUUGGGAGAUGGGGGGUUGGAUAGCAUCCUCUUUCUUGGCCCUUCCUUAUCCUAGGAAAAGAGGGUUCCUCUCCUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM1065669
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_8
Location of target site ENST00000447750.2 | 3UTR | AGGGCUCCAGCAUCCUCUGCUUCCCCCACCACG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
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)

Error report submission