pre-miRNA Information
pre-miRNA hsa-mir-8067   
Genomic Coordinates chr15: 62304658 - 62304734
Description Homo sapiens miR-8067 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-8067
Sequence 11| CCUAGAAACUGUAAACUUAGUC |32
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1439702395 3 dbSNP
rs973468045 19 dbSNP
rs1474855764 20 dbSNP
rs183845458 20 dbSNP
Putative Targets

Gene Information
Gene Symbol MED24   
Synonyms ARC100, CRSP100, CRSP4, DRIP100, MED5, THRAP4, TRAP100
Description mediator complex subunit 24
Transcript NM_001079518   
Other Transcripts NM_014815   
Expression
Putative miRNA Targets on MED24
3'UTR of MED24
(miRNA target sites are highlighted)
>MED24|NM_001079518|3'UTR
   1 GGGGCTTGGCATGGCCGCAGTGGGGGCTGGGGACTGGCGCAGCCCCAGGCGCCTCCAAGGGAAGCAGTGAGGAAAGATGA
  81 GGCATCGTGCCTCACATCCGCTCCACATGGTGCAAGAGCCTCTAGCGGCTTCCAGTTCCCCGCTCCTGACTCCTGACCTC
 161 CAGGATGTCTCCCGGTTTCTTCTTTCAAAATTTCCTCTCCATCTGCTGGCACCTGAGGAGAGTGAGCAGCCTGGACCACA
 241 AGCCCAGTGGTCACCCCTGTGTGCGCCCGCCCCAGCCCAGGAGTAGTCTTACCTCTGAGGAACTTTCTAGATGCAAAGTG
 321 TGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGTATTTTGTAATATGTGAGGGAAATCTACCTTCGTTCATGT
 401 ATAAATAAAGCTCCTCGTGGCTCCCTTTGTGAAAAAAAAAAAAAAAAAAAAA
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' cuGAUUCAAAUGUCAAAGAUCc 5'
            ||:||   : | ||||||| 
Target 5' ctCTGAG---GAACTTTCTAGa 3'
293 - 311 149.00 -9.30
2
miRNA  3' cugaUUCA-AAUGUCAAAGAucc 5'
              | || |  |:||||||   
Target 5' caggATGTCTCCCGGTTTCTtct 3'
161 - 183 114.00 -7.66
3
miRNA  3' cugauucaaaugucaaaGAUCc 5'
                           ||:| 
Target 5' catggccgcagtgggggCTGGg 3'
10 - 31 64.00 -10.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30507082 10 COSMIC
COSN30126164 16 COSMIC
COSN30112190 17 COSMIC
COSN20078979 30 COSMIC
COSN31542571 38 COSMIC
COSN26984132 39 COSMIC
COSN13718466 51 COSMIC
COSN26984131 65 COSMIC
COSN30149315 76 COSMIC
COSN30528969 78 COSMIC
COSN31562611 91 COSMIC
COSN31588900 127 COSMIC
COSN30464778 132 COSMIC
COSN31614333 147 COSMIC
COSN1081901 324 COSMIC
COSN20113897 324 COSMIC
COSN27941768 354 COSMIC
rs709591 221 GWAS
rs12309 320 GWAS
rs1045929 356 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1342024305 3 dbSNP
rs773008098 4 dbSNP
rs1336678157 5 dbSNP
rs771877976 9 dbSNP
rs1359172830 11 dbSNP
rs1223683984 13 dbSNP
rs376195177 16 dbSNP
rs1408192835 17 dbSNP
rs778613133 21 dbSNP
rs371360690 22 dbSNP
rs1478657462 23 dbSNP
rs200527286 26 dbSNP
rs1180276195 27 dbSNP
rs1472510662 32 dbSNP
rs1209363639 33 dbSNP
rs1262473179 34 dbSNP
rs567634315 38 dbSNP
rs114099644 39 dbSNP
rs757526700 40 dbSNP
rs1166916867 41 dbSNP
rs1257934244 42 dbSNP
rs1199691477 44 dbSNP
rs764223256 45 dbSNP
rs1291066799 47 dbSNP
rs1456033699 49 dbSNP
rs1021258390 50 dbSNP
rs370785501 51 dbSNP
rs1283365106 64 dbSNP
rs1011223875 66 dbSNP
rs1296132575 70 dbSNP
rs1365089671 74 dbSNP
rs1336859386 87 dbSNP
rs879593564 90 dbSNP
rs894122543 99 dbSNP
rs1244269861 100 dbSNP
rs1261397186 102 dbSNP
rs373995414 109 dbSNP
rs1401276362 114 dbSNP
rs1003117431 116 dbSNP
rs533936933 126 dbSNP
rs566793308 127 dbSNP
rs532529808 139 dbSNP
rs1415641561 140 dbSNP
rs1036495885 141 dbSNP
rs371295712 142 dbSNP
rs1055431913 152 dbSNP
rs1271565582 161 dbSNP
rs1163553410 163 dbSNP
rs1364015640 164 dbSNP
rs887835448 171 dbSNP
rs1049162611 173 dbSNP
rs145356663 174 dbSNP
rs1318971573 175 dbSNP
rs1453954200 182 dbSNP
rs1377351258 186 dbSNP
rs1463441231 186 dbSNP
rs1395673222 197 dbSNP
rs1036961977 217 dbSNP
rs1331463020 219 dbSNP
rs709591 221 dbSNP
rs1403642518 222 dbSNP
rs200621122 225 dbSNP
rs1210666396 226 dbSNP
rs550302152 228 dbSNP
rs709592 229 dbSNP
rs985010508 231 dbSNP
rs1181056166 239 dbSNP
rs1187316142 242 dbSNP
rs1475214581 243 dbSNP
rs35070350 258 dbSNP
rs1473353355 261 dbSNP
rs1156360303 264 dbSNP
rs530428998 265 dbSNP
rs542835866 268 dbSNP
rs368937742 269 dbSNP
rs1447830545 270 dbSNP
rs966548176 272 dbSNP
rs1031073898 277 dbSNP
rs1045905 288 dbSNP
rs912403244 297 dbSNP
rs1408187536 302 dbSNP
rs561435097 303 dbSNP
rs1045912 307 dbSNP
rs1346158508 314 dbSNP
rs999992022 318 dbSNP
rs12309 320 dbSNP
rs1237333532 320 dbSNP
rs1478106554 322 dbSNP
rs1192412030 324 dbSNP
rs56369434 324 dbSNP
rs33975065 325 dbSNP
rs1128718 326 dbSNP
rs1491069128 326 dbSNP
rs371196849 326 dbSNP
rs1451794981 328 dbSNP
rs765048473 328 dbSNP
rs989854200 329 dbSNP
rs1273705066 331 dbSNP
rs1244432028 332 dbSNP
rs1477999842 336 dbSNP
rs1220828254 346 dbSNP
rs1189707994 349 dbSNP
rs1319391939 350 dbSNP
rs1448113170 352 dbSNP
rs71784353 353 dbSNP
rs1168330779 354 dbSNP
rs1321699540 354 dbSNP
rs1349318507 354 dbSNP
rs1414851802 354 dbSNP
rs1435685529 354 dbSNP
rs1491289807 354 dbSNP
rs59767650 354 dbSNP
rs755993594 354 dbSNP
rs867405708 354 dbSNP
rs967224083 354 dbSNP
rs1491238318 355 dbSNP
rs1021430917 356 dbSNP
rs1045929 356 dbSNP
rs1011508870 358 dbSNP
rs1463911677 358 dbSNP
rs1214728479 360 dbSNP
rs1369367137 360 dbSNP
rs1161428656 362 dbSNP
rs1166284322 362 dbSNP
rs894390297 362 dbSNP
rs1449779723 364 dbSNP
rs1360879445 374 dbSNP
rs1282128615 379 dbSNP
rs1295801776 389 dbSNP
rs1003541665 393 dbSNP
rs1269436945 397 dbSNP
rs971652295 410 dbSNP
rs1443541335 416 dbSNP
rs1015115204 417 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions BCBL-1
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 GSM1015448. RNA binding protein: AGO2. Condition:BCBL-1 mRNA ...

- Haecker I; Gay LA; Yang Y; Hu J; Morse AM; et al., 2012, PLoS pathogens.

Article - Haecker I; Gay LA; Yang Y; Hu J; Morse AM; et al.
- PLoS pathogens, 2012
KSHV is the etiological agent of Kaposi's sarcoma (KS), primary effusion lymphoma (PEL), and a subset of multicentricCastleman's disease (MCD). The fact that KSHV-encoded miRNAs are readily detectable in all KSHV-associated tumors suggests a potential role in viral pathogenesis and tumorigenesis. MiRNA-mediated regulation of gene expression is a complex network with each miRNA having many potential targets, and to date only few KSHV miRNA targets have been experimentally determined. A detailed understanding of KSHV miRNA functions requires high-through putribonomics to globally analyze putative miRNA targets in a cell type-specific manner. We performed Ago HITS-CLIP to identify viral and cellular miRNAs and their cognate targets in two latently KSHV-infected PEL cell lines. Ago HITS-CLIP recovered 1170 and 950 cellular KSHV miRNA targets from BCBL-1 and BC-3, respectively. Importantly, enriched clusters contained KSHV miRNA seed matches in the 3'UTRs of numerous well characterized targets, among them THBS1, BACH1, and C/EBPbeta. KSHV miRNA targets were strongly enriched for genes involved in multiple pathways central for KSHV biology, such as apoptosis, cell cycle regulation, lymphocyte proliferation, and immune evasion, thus further supporting a role in KSHV pathogenesis and potentially tumorigenesis. A limited number of viral transcripts were also enriched by HITS-CLIP including vIL-6 expressed only in a subset of PEL cells during latency. Interestingly, Ago HITS-CLIP revealed extremely high levels of Ago-associated KSHV miRNAs especially in BC-3 cells where more than 70% of all miRNAs are of viral origin. This suggests that in addition to seed match-specific targeting of cellular genes, KSHV miRNAs may also function by hijacking RISCs, thereby contributing to a global de-repression of cellular gene expression due to the loss of regulation by human miRNAs. In summary, we provide an extensive list of cellular and viral miRNA targets representing an important resource to decipher KSHV miRNA function.
LinkOut: [PMID: 22927820]
CLIP-seq Support 1 for dataset GSM1015448
Method / RBP HITS-CLIP / AGO2
Cell line / Condition BCBL-1 / BCBL-1 mRNA
Location of target site ENST00000394126.1 | 3UTR | UUCUAGAUGCAAAGUGUGUAUGUGUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22927820 / GSE41357
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
68 hsa-miR-8067 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT084581 BCL2L11 BCL2 like 11 2 4
MIRT088215 NUP50 nucleoporin 50 2 2
MIRT092085 ABHD5 abhydrolase domain containing 5 2 2
MIRT135269 TMBIM6 transmembrane BAX inhibitor motif containing 6 2 8
MIRT175259 PSAT1 phosphoserine aminotransferase 1 2 6
MIRT182508 KLHL20 kelch like family member 20 2 2
MIRT286224 TMEM97 transmembrane protein 97 2 4
MIRT301718 TEF TEF, PAR bZIP transcription factor 2 2
MIRT329381 CCNG1 cyclin G1 2 2
MIRT362146 MTRNR2L6 MT-RNR2-like 6 2 4
MIRT366561 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT442002 NDUFV3 NADH:ubiquinone oxidoreductase subunit V3 2 2
MIRT442039 TRPV2 transient receptor potential cation channel subfamily V member 2 2 2
MIRT443045 HPS4 HPS4, biogenesis of lysosomal organelles complex 3 subunit 2 2 2
MIRT446861 SAMD9L sterile alpha motif domain containing 9 like 2 2
MIRT450346 LHFPL3 LHFPL tetraspan subfamily member 3 2 2
MIRT454306 ZNF134 zinc finger protein 134 2 2
MIRT481951 ANKRD11 ankyrin repeat domain 11 2 2
MIRT484816 ZNFX1 zinc finger NFX1-type containing 1 2 2
MIRT497596 EBAG9 estrogen receptor binding site associated, antigen, 9 2 2
MIRT498620 MTRNR2L10 MT-RNR2-like 10 2 12
MIRT501852 MTRNR2L8 MT-RNR2-like 8 2 15
MIRT502628 DDX3X DEAD-box helicase 3, X-linked 2 8
MIRT503298 GTF2A1 general transcription factor IIA subunit 1 2 6
MIRT506789 KLHL15 kelch like family member 15 2 6
MIRT515069 PLA2G2C phospholipase A2 group IIC 2 2
MIRT521334 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 2
MIRT523692 FHL2 four and a half LIM domains 2 2 4
MIRT524416 CNOT6L CCR4-NOT transcription complex subunit 6 like 2 4
MIRT525526 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT525771 SOD2 superoxide dismutase 2 2 2
MIRT526262 CCDC169 coiled-coil domain containing 169 2 2
MIRT526545 MDM2 MDM2 proto-oncogene 2 2
MIRT527522 CD59 CD59 molecule (CD59 blood group) 2 2
MIRT530875 TRUB1 TruB pseudouridine synthase family member 1 2 4
MIRT532991 ZKSCAN8 zinc finger with KRAB and SCAN domains 8 2 2
MIRT535581 NUP35 nucleoporin 35 2 2
MIRT536922 HEPHL1 hephaestin like 1 2 2
MIRT540004 NT5DC3 5'-nucleotidase domain containing 3 2 2
MIRT540779 SCO1 SCO1, cytochrome c oxidase assembly protein 2 2
MIRT541006 ZNF136 zinc finger protein 136 2 2
MIRT542072 ASS1 argininosuccinate synthase 1 2 6
MIRT544103 IPMK inositol polyphosphate multikinase 2 2
MIRT547669 KPNA1 karyopherin subunit alpha 1 2 4
MIRT549914 MRPS30 mitochondrial ribosomal protein S30 2 2
MIRT551741 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT556374 LUZP1 leucine zipper protein 1 2 2
MIRT557320 HIC2 HIC ZBTB transcriptional repressor 2 2 2
MIRT561442 TOB2 transducer of ERBB2, 2 2 2
MIRT563938 TAF7 TATA-box binding protein associated factor 7 2 2
MIRT622315 SEH1L SEH1 like nucleoporin 2 2
MIRT622334 SEC63 SEC63 homolog, protein translocation regulator 2 2
MIRT627928 KANSL1 KAT8 regulatory NSL complex subunit 1 2 2
MIRT636122 YPEL1 yippee like 1 2 2
MIRT644871 C2orf48 chromosome 2 open reading frame 48 2 2
MIRT645105 LANCL3 LanC like 3 2 2
MIRT650430 BBS9 Bardet-Biedl syndrome 9 2 2
MIRT653330 SMIM18 small integral membrane protein 18 2 2
MIRT658101 FOXN3 forkhead box N3 2 2
MIRT690032 CCDC90B coiled-coil domain containing 90B 2 2
MIRT697283 ZNF800 zinc finger protein 800 2 2
MIRT700266 RAP2B RAP2B, member of RAS oncogene family 2 2
MIRT700310 RABGEF1 RAB guanine nucleotide exchange factor 1 2 2
MIRT705431 ATP11A ATPase phospholipid transporting 11A 2 2
MIRT706193 MED24 mediator complex subunit 24 2 2
MIRT707928 PPP1R3D protein phosphatase 1 regulatory subunit 3D 2 2
MIRT716123 RPL24 ribosomal protein L24 2 2
MIRT720940 PPP1R3E protein phosphatase 1 regulatory subunit 3E 2 2

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