pre-miRNA Information
pre-miRNA hsa-mir-4464   
Genomic Coordinates chr6: 90312742 - 90312833
Description Homo sapiens miR-4464 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4464
Sequence 12| AAGGUUUGGAUAGAUGCAAUA |32
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 12 6 + 90312764 29233923 MiREDiBase
A-to-I 14 6 + 90312766 29233923 MiREDiBase
A-to-I 19 6 + 90312771 29233923 MiREDiBase
A-to-I 21 6 + 90312773 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1240632245 2 dbSNP
rs34899210 2 dbSNP
rs1003034046 13 dbSNP
rs1475351324 14 dbSNP
rs1257582329 17 dbSNP
rs1193587810 20 dbSNP
Putative Targets

Gene Information
Gene Symbol GLIPR1L2   
Synonyms -
Description GLI pathogenesis related 1 like 2
Transcript NM_152436   
Expression
Putative miRNA Targets on GLIPR1L2
3'UTR of GLIPR1L2
(miRNA target sites are highlighted)
>GLIPR1L2|NM_152436|3'UTR
   1 TATTATTCCTTTGATCAGAATGCTACTATTATGTTATCAAAGGATGGTTGACACAGTATCATCTTTAGATTTTTCTAAAC
  81 TGCAGAGCTTTTTCTGTTCTATCTTAACCCTATTCCTTCCCCTGAGGACATACCAGAGTGTCAGAAAGAAAGAATGAGAA
 161 CTAACAGTTATACCCTTAAAAAGCTTCACAGTTTATGCCCAAACAGCAGCCTGTTTGATAATAACTGCTTTAAAGGATAG
 241 TATATTCCAAAATATTTATGAAGTAGCATATATTTAATACCCTTTTCTTTTAGTTTTTCCTCCAAAAAGCTGAAATCTCC
 321 AAATATTTCAAAAGTAAAAAGTAGAAAATATGTTTGATTACATTTTTCTTTTAGTTTTTCCAAACATGAGAGAATATACT
 401 CCAAAAGTATAACTGTAGCTAAAATATACAATGCTTAGAGGAATATGGTAGGAGATAAATTTGGATAATAAGTAAATAGC
 481 ATATTATGTTGTTTTTTAATTATTATACTTTAAGTTCTGGGGTACCTGTGCAGAACGTGCAGGTTTGTTACATAGGTATA
 561 TACATGCCATGGTGGTTTGCTGCACCCATGAACCCATCATCTACATTAGATATTTCTCCTAAGCTATTCCTCCCCTAGCC
 641 CTGACCCCCTGACAGGCCCCAGTGTGTGATGTTCTTCTCCCTGTGTCCATGTGTTCTCATTGTTCAACTCCCACTTATGA
 721 GTGAGAACATGCAGTGTTTGGTTTTCTGTTCTTGTGATAGTTTGCTGAGAATGATGGTTTGCAGCTTCATCCATGTCCCT
 801 GAAAAGGAAATGAACTCATCCTTTTTTATGGCTGCATAGTATTCCATGGTGTATATGTGCCACACTTTCTTTATCCAGTC
 881 TATCATTGATGGGCATTTGGGTTGGTTCCAAGTATTTGCTATTGTGAACAGTGCTGCAATAAACATATGTTTGCAGGTGA
 961 AAAAAAAAAAAAAAA
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' auAACGUAGAUAGGUUUGGAa 5'
            ||  :|:| ||||||| | 
Target 5' ctTTTAGTTTTTCCAAACATg 3'
368 - 388 131.00 -9.02
2
miRNA  3' auaacGU-AGAUA--GGUUUGgaa 5'
               || |:|||  ||||||   
Target 5' cttcaCAGTTTATGCCCAAACagc 3'
184 - 207 118.00 -7.72
3
miRNA  3' auaACGUAGAUA-GGUUUGGAa 5'
             ||:|| |:| ||| ||:| 
Target 5' tggTGTATATGTGCCACACTTt 3'
847 - 868 118.00 -9.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30151301 9 COSMIC
COSN30159988 14 COSMIC
COSN30183935 14 COSMIC
COSN26977488 16 COSMIC
COSN19690749 18 COSMIC
COSN31605278 67 COSMIC
COSN31487772 88 COSMIC
COSN30111964 115 COSMIC
COSN2460623 152 COSMIC
COSN1585224 305 COSMIC
COSN25851623 310 COSMIC
COSN23075050 407 COSMIC
COSN25109948 498 COSMIC
COSN7381206 682 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1306485670 3 dbSNP
rs1244629198 4 dbSNP
rs753692992 8 dbSNP
rs757288837 10 dbSNP
rs764775555 12 dbSNP
rs749970370 16 dbSNP
rs758079152 18 dbSNP
rs779884337 20 dbSNP
rs1188574681 31 dbSNP
rs1417640556 33 dbSNP
rs187106640 37 dbSNP
rs1174362154 38 dbSNP
rs781664074 39 dbSNP
rs748597977 42 dbSNP
rs1312172829 45 dbSNP
rs770288149 46 dbSNP
rs1432636920 47 dbSNP
rs1286836350 48 dbSNP
rs1360857978 49 dbSNP
rs192436626 55 dbSNP
rs1006804625 60 dbSNP
rs1017223788 67 dbSNP
rs1314269209 83 dbSNP
rs905915604 85 dbSNP
rs1384633146 88 dbSNP
rs962581306 104 dbSNP
rs1430347471 113 dbSNP
rs1343646823 119 dbSNP
rs972948598 122 dbSNP
rs759167658 125 dbSNP
rs1173329999 134 dbSNP
rs1401335081 141 dbSNP
rs1385183574 147 dbSNP
rs918695477 162 dbSNP
rs971441036 166 dbSNP
rs758423792 172 dbSNP
rs1453864564 174 dbSNP
rs1159900997 175 dbSNP
rs1386031975 190 dbSNP
rs1434064254 198 dbSNP
rs981442762 204 dbSNP
rs1326376381 210 dbSNP
rs368969792 218 dbSNP
rs1485380046 221 dbSNP
rs927296184 222 dbSNP
rs1239976810 223 dbSNP
rs1217378226 228 dbSNP
rs1488306848 237 dbSNP
rs1243603105 242 dbSNP
rs1361482900 243 dbSNP
rs1385062131 245 dbSNP
rs937302034 249 dbSNP
rs1213738087 250 dbSNP
rs548473490 264 dbSNP
rs1290803525 266 dbSNP
rs764909931 267 dbSNP
rs960104836 269 dbSNP
rs1241313915 278 dbSNP
rs576433981 280 dbSNP
rs745889429 280 dbSNP
rs528389024 281 dbSNP
rs1386409179 282 dbSNP
rs551422558 284 dbSNP
rs200577604 294 dbSNP
rs1416979882 297 dbSNP
rs1187836195 301 dbSNP
rs902291489 318 dbSNP
rs1219611065 320 dbSNP
rs568781387 324 dbSNP
rs979208103 324 dbSNP
rs1050786656 326 dbSNP
rs111586144 334 dbSNP
rs1265936940 335 dbSNP
rs1191057266 336 dbSNP
rs1203586299 340 dbSNP
rs1305511321 343 dbSNP
rs889460258 349 dbSNP
rs1006932886 352 dbSNP
rs925126580 358 dbSNP
rs964391179 362 dbSNP
rs571245884 369 dbSNP
rs922922920 372 dbSNP
rs1392149402 375 dbSNP
rs777910001 387 dbSNP
rs182997826 391 dbSNP
rs73370055 400 dbSNP
rs186267797 413 dbSNP
rs1465876009 414 dbSNP
rs1025425225 425 dbSNP
rs1428124731 433 dbSNP
rs1456437218 434 dbSNP
rs1196713745 439 dbSNP
rs112405434 465 dbSNP
rs12426060 481 dbSNP
rs1176484372 487 dbSNP
rs1456200194 490 dbSNP
rs1037837495 492 dbSNP
rs1397152151 494 dbSNP
rs927337540 506 dbSNP
rs1261476242 509 dbSNP
rs958749894 537 dbSNP
rs573229218 538 dbSNP
rs914851053 543 dbSNP
rs1350091242 544 dbSNP
rs1376157408 544 dbSNP
rs1234069506 553 dbSNP
rs1295354497 554 dbSNP
rs1404927930 556 dbSNP
rs1173763349 558 dbSNP
rs1467137079 561 dbSNP
rs1010215863 568 dbSNP
rs538931952 570 dbSNP
rs558546324 585 dbSNP
rs1481931442 589 dbSNP
rs966567993 602 dbSNP
rs1179077080 604 dbSNP
rs575523605 605 dbSNP
rs1241571179 606 dbSNP
rs1032134124 611 dbSNP
rs1345957362 612 dbSNP
rs1260284245 625 dbSNP
rs964548924 625 dbSNP
rs1319303216 626 dbSNP
rs750897550 630 dbSNP
rs974884982 633 dbSNP
rs1452408721 639 dbSNP
rs1471984048 641 dbSNP
rs1380953118 645 dbSNP
rs1334299728 647 dbSNP
rs867126906 648 dbSNP
rs1397477165 652 dbSNP
rs923428981 658 dbSNP
rs1402466991 659 dbSNP
rs1188134417 662 dbSNP
rs1450973018 665 dbSNP
rs1030104467 667 dbSNP
rs769564980 671 dbSNP
rs933435739 676 dbSNP
rs1050838397 677 dbSNP
rs35872216 679 dbSNP
rs889504997 697 dbSNP
rs1185190461 700 dbSNP
rs386764349 706 dbSNP
rs112828618 707 dbSNP
rs7966341 708 dbSNP
rs1369956367 709 dbSNP
rs973687733 711 dbSNP
rs1245809872 713 dbSNP
rs898446731 717 dbSNP
rs1357908956 719 dbSNP
rs1317690688 720 dbSNP
rs749151206 722 dbSNP
rs937550330 732 dbSNP
rs1314950569 733 dbSNP
rs574864509 739 dbSNP
rs1380061771 740 dbSNP
rs994044597 740 dbSNP
rs1377311925 741 dbSNP
rs1025477632 750 dbSNP
rs1424009006 751 dbSNP
rs895874440 758 dbSNP
rs907055615 759 dbSNP
rs1002634257 769 dbSNP
rs1372750249 774 dbSNP
rs542501112 782 dbSNP
rs768599751 783 dbSNP
rs559564060 785 dbSNP
rs1264068751 788 dbSNP
rs1221839081 791 dbSNP
rs1386087393 791 dbSNP
rs34922428 797 dbSNP
rs990193901 799 dbSNP
rs1211004432 801 dbSNP
rs528428081 802 dbSNP
rs184441675 803 dbSNP
rs1238822283 807 dbSNP
rs1022033977 809 dbSNP
rs1403572463 814 dbSNP
rs1269237992 816 dbSNP
rs1224722349 822 dbSNP
rs1341980131 822 dbSNP
rs967660122 823 dbSNP
rs1000731678 825 dbSNP
rs1032250560 830 dbSNP
rs1181063786 832 dbSNP
rs1325370914 836 dbSNP
rs551665076 837 dbSNP
rs977672253 842 dbSNP
rs923481323 847 dbSNP
rs772066993 850 dbSNP
rs564895443 858 dbSNP
rs986274170 861 dbSNP
rs1030593161 865 dbSNP
rs747169433 866 dbSNP
rs911003091 866 dbSNP
rs942435897 869 dbSNP
rs1038080068 870 dbSNP
rs1166598238 873 dbSNP
rs983606705 879 dbSNP
rs1200144953 883 dbSNP
rs1014594337 887 dbSNP
rs1271379842 903 dbSNP
rs1435397749 906 dbSNP
rs9668552 915 dbSNP
rs973637123 922 dbSNP
rs1222381668 937 dbSNP
rs1357644458 945 dbSNP
rs182519840 949 dbSNP
rs937604721 950 dbSNP
rs1289679827 960 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084067. RNA binding protein: AGO2. Condition:CLIP_emetine_SantaCruzAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084067
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_SantaCruzAb
Location of target site ENST00000550916.1 | 3UTR | GAAAGAAAAAAAAAAAAAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
81 hsa-miR-4464 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT056004 ARL5B ADP ribosylation factor like GTPase 5B 2 2
MIRT061568 BTG2 BTG anti-proliferation factor 2 2 2
MIRT078651 ICT1 mitochondrial ribosomal protein L58 2 2
MIRT087551 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 4
MIRT088139 SEPT2 septin 2 2 4
MIRT095089 SEC24A SEC24 homolog A, COPII coat complex component 2 4
MIRT099065 FOXC1 forkhead box C1 2 4
MIRT150194 MIDN midnolin 2 2
MIRT178173 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 4
MIRT178942 C11ORF57 chromosome 11 open reading frame 57 2 2
MIRT188776 SESN2 sestrin 2 2 2
MIRT267026 EFHD2 EF-hand domain family member D2 2 2
MIRT307213 ACVR2B activin A receptor type 2B 2 2
MIRT324750 ACER2 alkaline ceramidase 2 2 2
MIRT442732 TEAD1 TEA domain transcription factor 1 2 2
MIRT444087 C12orf73 chromosome 12 open reading frame 73 2 2
MIRT445527 KLF9 Kruppel like factor 9 2 2
MIRT449604 INIP INTS3 and NABP interacting protein 2 2
MIRT451129 ZNF99 zinc finger protein 99 2 2
MIRT452271 RPL30 ribosomal protein L30 2 2
MIRT452486 DDX4 DEAD-box helicase 4 2 2
MIRT454868 DNAJC15 DnaJ heat shock protein family (Hsp40) member C15 2 6
MIRT455773 TSPAN6 tetraspanin 6 2 4
MIRT463844 WRN Werner syndrome RecQ like helicase 2 2
MIRT465036 TTC39C tetratricopeptide repeat domain 39C 2 2
MIRT465176 TRPV2 transient receptor potential cation channel subfamily V member 2 2 4
MIRT465294 TRIB3 tribbles pseudokinase 3 2 4
MIRT467931 SLC16A7 solute carrier family 16 member 7 2 2
MIRT471906 NUAK2 NUAK family kinase 2 2 2
MIRT472724 MTUS1 microtubule associated scaffold protein 1 2 6
MIRT479785 CCND1 cyclin D1 2 2
MIRT482446 ADM adrenomedullin 2 10
MIRT485365 MYLIP myosin regulatory light chain interacting protein 2 12
MIRT498399 KIF6 kinesin family member 6 2 2
MIRT503202 ACTB actin beta 2 6
MIRT503819 TMEM242 transmembrane protein 242 2 2
MIRT504706 ZNF117 zinc finger protein 117 2 2
MIRT507802 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT509968 KANSL1L KAT8 regulatory NSL complex subunit 1 like 2 4
MIRT517306 ELF4 E74 like ETS transcription factor 4 2 6
MIRT523900 ENPP6 ectonucleotide pyrophosphatase/phosphodiesterase 6 2 6
MIRT532018 NOX5 NADPH oxidase 5 2 2
MIRT535334 PHACTR2 phosphatase and actin regulator 2 2 2
MIRT536944 HCN4 hyperpolarization activated cyclic nucleotide gated potassium channel 4 2 4
MIRT539322 AHSA2 activator of HSP90 ATPase homolog 2 2 2
MIRT540189 GSTM4 glutathione S-transferase mu 4 2 2
MIRT545015 ZNF439 zinc finger protein 439 2 2
MIRT545265 TRIM36 tripartite motif containing 36 2 4
MIRT547230 PAG1 phosphoprotein membrane anchor with glycosphingolipid microdomains 1 2 4
MIRT548425 ELOVL5 ELOVL fatty acid elongase 5 2 2
MIRT549910 ADH4 alcohol dehydrogenase 4 (class II), pi polypeptide 2 2
MIRT550185 TMEM106C transmembrane protein 106C 2 2
MIRT550775 ENOX2 ecto-NOX disulfide-thiol exchanger 2 2 4
MIRT552401 ZNF487P zinc finger protein 487 1 1
MIRT554782 RHEBP1 RHEB pseudogene 1 2 4
MIRT557311 HIF1A hypoxia inducible factor 1 alpha subunit 2 2
MIRT558635 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT563168 RPS14 ribosomal protein S14 2 2
MIRT564886 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon 2 2
MIRT565778 SEPHS1 selenophosphate synthetase 1 2 2
MIRT566480 PDCD4 programmed cell death 4 2 2
MIRT567206 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT568931 SMCR8 Smith-Magenis syndrome chromosome region, candidate 8 2 2
MIRT570698 FBXO41 F-box protein 41 2 2
MIRT573474 MTRNR2L9 MT-RNR2-like 9 2 2
MIRT576170 Hmox1 heme oxygenase 1 2 2
MIRT607555 GLI2 GLI family zinc finger 2 2 2
MIRT608203 ERBB2 erb-b2 receptor tyrosine kinase 2 2 2
MIRT609779 VWC2L von Willebrand factor C domain containing protein 2 like 2 4
MIRT616312 CELF2 CUGBP Elav-like family member 2 2 2
MIRT617190 CDH13 cadherin 13 2 2
MIRT626842 RPLP1 ribosomal protein lateral stalk subunit P1 2 2
MIRT636438 MARCH1 membrane associated ring-CH-type finger 1 2 2
MIRT639101 GLIPR1L2 GLI pathogenesis related 1 like 2 2 2
MIRT691018 CRTC3 CREB regulated transcription coactivator 3 2 2
MIRT700008 RPS21 ribosomal protein S21 2 2
MIRT701144 PANK1 pantothenate kinase 1 2 2
MIRT712691 NUDT7 nudix hydrolase 7 2 2
MIRT715505 MAZ MYC associated zinc finger protein 2 2
MIRT722509 PTPRC protein tyrosine phosphatase, receptor type C 2 2
MIRT724982 TNS1 tensin 1 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
miR-4464 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4464 Tamoxifen 2733525 NSC180973 approved sensitive cell line (LCC2)

Error report submission