miRTarBase - #MIRT107709


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pre-miRNA Information
pre-miRNA hsa-mir-6073   
Genomic Coordinates chr11: 15969533 - 15969621
Description Homo sapiens miR-6073 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6073
Sequence 48| GGUAGUGAGUUAUCAGCUAC |67
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs894153524 2 dbSNP
rs1218506514 3 dbSNP
rs1054164691 7 dbSNP
rs368837692 8 dbSNP
rs1200123035 11 dbSNP
rs1289491111 19 dbSNP
rs1322501189 20 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol CLTA   
Synonyms LCA
Description clathrin light chain A
Transcript NM_001184761   
Other Transcripts NM_001184760 , NM_001076677 , NM_001184762 , NM_001833 , NM_007096   
Expression
Putative miRNA Targets on CLTA
3'UTR of CLTA
(miRNA target sites are highlighted)		 
>CLTA|NM_001184761|3'UTR
   1 CATTGACGAGTCGTCCCCAGGCACTGAGTGGGAACGGGTGGCCCGGCTGTGTGACTTTAACCCCAAGTCTAGCAAGCAGG
  81 CCAAAGATGTCTCCCGCATGCGCTCAGTCCTCATCTCCCTCAAGCAGGCCCCGCTGGTGCACTGAAGAGCCACCCTGTGG
 161 AAACACTACATCTGCAATATCTTAATCCTACTCAGTGAAGCTCTTCACAGTCATTGGATTAATTATGTTGAGTTCTTTTG
 241 GACCAAACCTTTTTGTCTTTAGAGTTGTTCATTGTTTGTGATTGCATGTTTCCTTCCTTCAACTGTGTTCTCCCTGGCAT
 321 TCAGAGAGGAGGGAGAGGAGGAAGAGGAAGGGGAGGGAAGCTTCCCAAGAGTAGCCTCAACCTGTGCTTCTGTGCATTAT
 401 TCTGAGAATAAATTTCTGTTTCAAACTGTATTAAAAAAAAAAA
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' caucgACUAUUGAGUGAUGg 5'
               ||: ||  |||||| 
Target 5' ccctgTGGAAA--CACTACa 3'
 153 - 170 122.00 -9.90
2 
miRNA  3' caUCGACUAUUG--AGUGAUgg 5'
            ||||  | ||  |||:|:  
Target 5' gaAGCTCTTCACAGTCATTGga 3'
 197 - 218 104.00 -6.42
3 
miRNA  3' caUCGAC--UAUUGAGU---GAUGg 5'
            | |||  ||| ||:|   |||| 
Target 5' acATCTGCAATATCTTAATCCTACt 3'
 168 - 192 100.00 -6.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM7361605 3 COSMIC
COSM329254 6 COSMIC
COSM4878914 8 COSMIC
COSM5647958 22 COSMIC
COSM7160381 27 COSMIC
COSM6630770 33 COSMIC
COSM1661183 36 COSMIC
COSM6255826 41 COSMIC
COSM753451 54 COSMIC
COSM9372497 63 COSMIC
COSM5884856 73 COSMIC
COSM1490014 74 COSMIC
COSM9235188 82 COSMIC
COSM9873776 82 COSMIC
COSM8623184 96 COSMIC
COSM8046543 97 COSMIC
COSM9894918 103 COSMIC
COSM8525735 106 COSMIC
COSM8685576 111 COSMIC
COSM4654501 123 COSMIC
COSM7707873 145 COSMIC
COSN30139737 159 COSMIC
COSN30114455 182 COSMIC
COSN14701598 202 COSMIC
COSN31580229 204 COSMIC
COSN28250066 210 COSMIC
COSN30726680 211 COSMIC
COSN28250064 255 COSMIC
COSN29216600 281 COSMIC
COSN31548739 407 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1171383451 2 dbSNP
rs61746131 3 dbSNP
rs768174142 7 dbSNP
rs753188510 8 dbSNP
rs141872889 9 dbSNP
rs146045955 13 dbSNP
rs749946417 14 dbSNP
rs779625550 16 dbSNP
rs754807794 18 dbSNP
rs201873493 20 dbSNP
rs376307351 25 dbSNP
rs1228511009 27 dbSNP
rs1276289422 29 dbSNP
rs773167178 36 dbSNP
rs192679731 37 dbSNP
rs771297321 38 dbSNP
rs1225890430 43 dbSNP
rs570910217 45 dbSNP
rs372840145 46 dbSNP
rs1197355238 47 dbSNP
rs759804811 50 dbSNP
rs1450092937 54 dbSNP
rs768045566 63 dbSNP
rs1035357644 65 dbSNP
rs1445967801 69 dbSNP
rs775911876 72 dbSNP
rs761153665 74 dbSNP
rs1406554443 89 dbSNP
rs764596109 91 dbSNP
rs1406932637 92 dbSNP
rs539862621 94 dbSNP
rs757855763 95 dbSNP
rs376238055 97 dbSNP
rs1299155706 102 dbSNP
rs751261018 103 dbSNP
rs1226238278 104 dbSNP
rs1367768927 112 dbSNP
rs140029374 113 dbSNP
rs1265725287 114 dbSNP
rs754609831 118 dbSNP
rs780913493 122 dbSNP
rs952979138 124 dbSNP
rs747907818 129 dbSNP
rs760016572 133 dbSNP
rs756015897 134 dbSNP
rs1211176869 138 dbSNP
rs931222417 141 dbSNP
rs1246229910 147 dbSNP
rs985711611 148 dbSNP
rs749406895 152 dbSNP
rs771178938 155 dbSNP
rs557492983 156 dbSNP
rs13124 157 dbSNP
rs1461098307 158 dbSNP
rs1473616042 159 dbSNP
rs765255105 165 dbSNP
rs1409560684 167 dbSNP
rs1393525426 168 dbSNP
rs1264216291 171 dbSNP
rs746153589 175 dbSNP
rs772337115 176 dbSNP
rs1385791816 180 dbSNP
rs1206101010 181 dbSNP
rs1381175869 184 dbSNP
rs1803192 187 dbSNP
rs752546663 188 dbSNP
rs375726403 190 dbSNP
rs770464511 191 dbSNP
rs761044465 194 dbSNP
rs753297379 196 dbSNP
rs777155666 197 dbSNP
rs1053414 202 dbSNP
rs981867132 218 dbSNP
rs1369914593 223 dbSNP
rs373258380 229 dbSNP
rs1282003310 242 dbSNP
rs376569989 245 dbSNP
rs3628 250 dbSNP
rs1803194 257 dbSNP
rs1018943758 265 dbSNP
rs1338508471 269 dbSNP
rs934647403 272 dbSNP
rs1353812019 274 dbSNP
rs1803193 288 dbSNP
rs988448967 294 dbSNP
rs915183379 297 dbSNP
rs750031464 303 dbSNP
rs1211119744 304 dbSNP
rs1266841764 306 dbSNP
rs1485550200 308 dbSNP
rs1011801234 314 dbSNP
rs1201108565 315 dbSNP
rs1258478140 319 dbSNP
rs1440891502 321 dbSNP
rs1023145130 322 dbSNP
rs1187160446 323 dbSNP
rs1456734017 324 dbSNP
rs1205843117 326 dbSNP
rs556019557 326 dbSNP
rs751062729 328 dbSNP
rs1161214247 331 dbSNP
rs1002662703 334 dbSNP
rs759191657 335 dbSNP
rs572591308 338 dbSNP
rs1302944717 341 dbSNP
rs1359757516 342 dbSNP
rs1316751924 344 dbSNP
rs183457671 345 dbSNP
rs901154541 356 dbSNP
rs1403778311 357 dbSNP
rs1393896948 358 dbSNP
rs1372360688 360 dbSNP
rs1240405108 362 dbSNP
rs563843991 365 dbSNP
rs961100507 374 dbSNP
rs1311963424 377 dbSNP
rs549223544 382 dbSNP
rs14917 383 dbSNP
rs1356342198 391 dbSNP
rs1026298814 393 dbSNP
rs1026623505 395 dbSNP
rs1165717540 397 dbSNP
rs952748619 400 dbSNP
rs1286926639 402 dbSNP
rs554762810 405 dbSNP
rs1327607226 408 dbSNP
rs752454710 414 dbSNP
rs985306360 419 dbSNP
rs1257806579 423 dbSNP
rs755893419 425 dbSNP
rs777396445 427 dbSNP
rs1178270103 428 dbSNP
rs1266107486 429 dbSNP
rs911095064 429 dbSNP
rs1210428050 431 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 1211.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' caucgacuauugaGUGAUGg 5'
                       |||||| 
Target 5' ----------aaaCACUACa 3'
 		1 - 10
2 
miRNA  3' caUCGAC--UAUUGAGU---GAUGg 5'
            | |||  ||| ||:|   |||| 
Target 5' acAUCUGCAAUAUCUUAAUCCUACu 3'
 		8 - 32
Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000433436.2 | 3UTR | AAACACUACAUCUGCAAUAUCUUAAUCCUACUCAGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
91 hsa-miR-6073 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057091 DDIT4 DNA damage inducible transcript 4 2 2
MIRT076246 SMCR8 Smith-Magenis syndrome chromosome region, candidate 8 2 6
MIRT095783 GRPEL2 GrpE like 2, mitochondrial 2 10
MIRT099178 MAP3K4 mitogen-activated protein kinase kinase kinase 4 2 2
MIRT100426 HSPA1B heat shock protein family A (Hsp70) member 1B 2 8
MIRT100853 CD2AP CD2 associated protein 2 2
MIRT107598 DNAJA1 DnaJ heat shock protein family (Hsp40) member A1 2 6
MIRT107709 CLTA clathrin light chain A 2 2
MIRT108738 XIAP X-linked inhibitor of apoptosis 2 2
MIRT127058 FAM208B family with sequence similarity 208 member B 2 4
MIRT154901 GNAS GNAS complex locus 2 2
MIRT155502 CCNT2 cyclin T2 2 4
MIRT167124 SCAMP1 secretory carrier membrane protein 1 2 2
MIRT187989 MBD6 methyl-CpG binding domain protein 6 2 2
MIRT205511 SP100 SP100 nuclear antigen 2 2
MIRT213728 AFF1 AF4/FMR2 family member 1 2 8
MIRT235438 TSEN34 tRNA splicing endonuclease subunit 34 2 2
MIRT336744 ZNF678 zinc finger protein 678 2 2
MIRT400224 SLC35F6 solute carrier family 35 member F6 2 2
MIRT441593 PSTK phosphoseryl-tRNA kinase 2 2
MIRT443099 RNF20 ring finger protein 20 2 2
MIRT444059 SERPINA4 serpin family A member 4 2 2
MIRT446870 NBPF3 NBPF member 3 2 2
MIRT447129 KIF27 kinesin family member 27 2 2
MIRT454086 TMEM209 transmembrane protein 209 2 2
MIRT456655 TIFA TRAF interacting protein with forkhead associated domain 2 2
MIRT458149 LYRM4 LYR motif containing 4 2 6
MIRT461271 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 2
MIRT463776 YOD1 YOD1 deubiquitinase 2 2
MIRT465740 TMPPE transmembrane protein with metallophosphoesterase domain 2 2
MIRT467075 SRRD SRR1 domain containing 2 4
MIRT467247 SPPL2A signal peptide peptidase like 2A 2 2
MIRT471594 PAQR5 progestin and adipoQ receptor family member 5 2 18
MIRT472311 NFAT5 nuclear factor of activated T-cells 5 2 2
MIRT472629 NAA50 N(alpha)-acetyltransferase 50, NatE catalytic subunit 2 2
MIRT474690 KIF5A kinesin family member 5A 2 2
MIRT477481 ELL2 elongation factor for RNA polymerase II 2 2 2
MIRT483703 ASPH aspartate beta-hydroxylase 2 2
MIRT486544 DCTN4 dynactin subunit 4 2 2
MIRT488447 ACBD3 acyl-CoA binding domain containing 3 2 2
MIRT488794 MALT1 MALT1 paracaspase 2 2
MIRT489319 PEX26 peroxisomal biogenesis factor 26 2 2
MIRT490877 OSBP oxysterol binding protein 2 2
MIRT491781 ZNF24 zinc finger protein 24 2 2
MIRT492024 TWF1 twinfilin actin binding protein 1 2 4
MIRT492056 TMEM59 transmembrane protein 59 2 2
MIRT492104 TAB2 TGF-beta activated kinase 1/MAP3K7 binding protein 2 2 2
MIRT492249 SLC35F5 solute carrier family 35 member F5 2 2
MIRT493079 MORF4L2 mortality factor 4 like 2 2 2
MIRT493086 MMGT1 membrane magnesium transporter 1 2 12
MIRT493355 KIF5B kinesin family member 5B 2 2
MIRT493467 IPMK inositol polyphosphate multikinase 2 2
MIRT493505 IL6ST interleukin 6 signal transducer 2 4
MIRT493635 HECTD1 HECT domain E3 ubiquitin protein ligase 1 2 2
MIRT493843 FOXN3 forkhead box N3 2 4
MIRT494557 BAK1 BCL2 antagonist/killer 1 2 2
MIRT494637 ARNTL aryl hydrocarbon receptor nuclear translocator like 2 2
MIRT502513 ESR1 estrogen receptor 1 2 2
MIRT506212 PHF12 PHD finger protein 12 2 2
MIRT508201 SLC35E1 solute carrier family 35 member E1 2 2
MIRT512224 ATXN3 ataxin 3 2 6
MIRT514252 S1PR2 sphingosine-1-phosphate receptor 2 2 2
MIRT517381 METTL7A methyltransferase like 7A 2 2
MIRT520691 TMED4 transmembrane p24 trafficking protein 4 2 2
MIRT521378 RDX radixin 2 4
MIRT521446 RAD51 RAD51 recombinase 2 2
MIRT525933 C11orf74 chromosome 11 open reading frame 74 2 2
MIRT527434 DDX17 DEAD-box helicase 17 2 2
MIRT528633 PRPF38B pre-mRNA processing factor 38B 2 4
MIRT529976 TNFAIP8L1 TNF alpha induced protein 8 like 1 2 2
MIRT549103 C16orf70 chromosome 16 open reading frame 70 2 4
MIRT549472 ACBD5 acyl-CoA binding domain containing 5 2 2
MIRT549596 TMEM101 transmembrane protein 101 2 2
MIRT550392 TBX4 T-box 4 2 2
MIRT552551 ZFP36L2 ZFP36 ring finger protein like 2 2 4
MIRT555353 PPP1R14C protein phosphatase 1 regulatory inhibitor subunit 14C 2 2
MIRT559620 AKIRIN2 akirin 2 2 2
MIRT561284 ZCCHC14 zinc finger CCHC-type containing 14 2 2
MIRT572514 KIAA0232 KIAA0232 2 2
MIRT617844 FMO4 flavin containing monooxygenase 4 2 2
MIRT632625 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT638235 SNTN sentan, cilia apical structure protein 2 2
MIRT667876 IP6K1 inositol hexakisphosphate kinase 1 2 2
MIRT672605 IRF1 interferon regulatory factor 1 2 2
MIRT683831 ZNF682 zinc finger protein 682 2 2
MIRT684471 INTS7 integrator complex subunit 7 2 2
MIRT694277 ZNF529 zinc finger protein 529 2 4
MIRT701875 MPLKIP M-phase specific PLK1 interacting protein 2 2
MIRT705583 APP amyloid beta precursor protein 2 2
MIRT715119 PANK3 pantothenate kinase 3 2 2
MIRT716827 PSME4 proteasome activator subunit 4 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-6073 Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)
hsa-miR-6073 Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-6073 Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-6073 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-6073 Leuprorelin/Goserelin + Bicalutamide resistant tissue (prostate cancer)

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