pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-4786 |
Genomic Coordinates | chr2: 239943015 - 239943094 |
Description | Homo sapiens miR-4786 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-4786-3p | |||||||||||||||||||||||||||
Sequence | 51| UGAAGCCAGCUCUGGUCUGGGC |72 | |||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||||||||
SNPs in miRNA |
|
|||||||||||||||||||||||||||
Putative Targets |
miRNA Expression profile | |
---|---|
Human miRNA Tissue Atlas | |
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | SEPT3 | ||||||||||||||||||||
Synonyms | SEP3, bK250D10.3 | ||||||||||||||||||||
Description | septin 3 | ||||||||||||||||||||
Transcript | NM_019106 | ||||||||||||||||||||
Other Transcripts | NM_145733 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SEPT3 | |||||||||||||||||||||
3'UTR of SEPT3 (miRNA target sites are highlighted) |
>SEPT3|NM_019106|3'UTR 1 CGACCACTTCTCTGTGTCATCACACATACCCACTTCACACACACACATCCCAAATACCACCACCAACCACCTTCTTCCTC 81 TCAACTCTGTCCCACAGGCCTGTCTGGTATTTGTGGAGCATCTTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT 161 GTGTGTGACAGAGAGAGAGCGAGAGAGCCTGTGTGTGTGCATGCAGGGGTGAGGTATTTTCACTGCCCTCCCTGGAGAGT 241 CCCTTGTAAGTTTGGCTCCTCCATGCCTGTCCATTATCTGTCTCCTTTCCTTGTGTCCCAAAACAAAGCTGTTTGCCTCA 321 CTCAGGAGATCTGGGGGAGGTTTCATTTAAAAGTGCTGGGAGCAGGTGAGCCACAGGCAACTCTTCTCTCGGAACCTGCA 401 CACAAACTGGGGCTATAGAGATTCTCCAAGGACAGATGGCAGTGGAGCTAGACCTGAGTAGGGGGCAGGGAGTTCAGGAC 481 AACCCTCCTGTAAGTTGGGGGTGGTCTGGGGGTAAGGCTGGGGCTTCCTGGGAAAAGGAAGGCCATGAGAAGGCAGAGAA 561 GTAGGCCAGAGCTGGGTTCTTGCAGAAAGCATCAGTGCCTACAAATGGAGCTCCACCCTTCAGTCTGTGTCGTGTTCAGT 641 GTCACAAAGCTACCACCTGTCACCAGAGCCTACTGCTGCTCTCCACTCAACTGGCCTCTGCTGCCAGGCCACTGCCTGTC 721 TCTGCTTCCGACTTTGTCTTCTTTCTCCCTTTCCCTCCTTCCCTCATACATTGCTTTCTCTCCCTCTCCTGCGTGTCTCT 801 GACATCTCTCACTTCCTTTTAGATGAATCTACTTTAGGTTCATTCCTATATTTAGCATTTATGCCCAGTCTACTTCCAGA 881 AATGACTTTAGACTGCCTTTCACATAAAATCACAAAACTACAGGACAGTACAAACAGATTGCCAGAGAAATCTGGGTCAA 961 AGAAAGGAATAGGAAAGAAAGTTTCTGTAGTCAAGCACCTGAACAGGCCCTGAGCTCACAGGCAGCCAATGTAAAGAGGG 1041 AAACACAGTGAGTTATGCAGTTCCCAGTGTCCAGTTAAAGGAAGCACACATGCTAGTCATGTGAGACAACCTTTTATTGG 1121 GACATCAGGTTCTAGAACTAATTCTAAAGAAGTATCAGAAACAATATACATAATTTGTCTTTCTTAGTAATTTGGCTTCA 1201 AAGACAAATTTTTGACCACACCTCCGTTTTCTCCGTCAGACTTCTCTCCCTTCTAAGCAGGCTTCTCTGTTGCTCCATTT 1281 GCTTCATACATACTTGACCTCTCTTTTCTATTCCCCATCACTTTTGTGCTGAAGCTAATCATATTTATGTCTGTCTTTCT 1361 CTACTTTTCCCTAATTCCCTCTCCTCCTGACTCCTGTAGACATTCCCAATGATACCCACCGTCATACATTTAGGCTTTTC 1441 TTGCCTTTCCCTGAAGCCCTGTATTTATTAATGCATATATTTCCCCTGCTTGTTGTACAAGTAAGTTACTCTTTTCCTTT 1521 AATCTGTAAGATTCATGAAATTCGGGGCCAGGGAAACAGTTTAGCCTTAGGGAAGGGAAAACACTAAGTGAAACTGTTTA 1601 CAATAACCTCATACAACCTTCTGTCCCATCTCCTGGTTCAGCCTAGGTGTTTCACTGGTCCTCTATGAATCCCAGCACTT 1681 ATAATCCCAGTCTTTTATCACTCAGGTGCTAGGAAAAAAAACATAGACTCAAGACCCAAGATTCAATGGACCAGGAGAAA 1761 GGGGGGCGGTGATCAGGTCACCAGTGACCCCAACCTATGCTCTCGGTCTTTCCTGGAGGCTGCCAACCCAGCCCTCATCC 1841 TCCCTTGCTCACAAAGTTACAGGGTAGGCACCTGTCAGGACAGAACAGCAGCAGCGCTACAGCCCAGAGGTTATACATTT 1921 CAACAGAACAGGGATCCTTGGCTACTGTAGAAGCAGTCCTGTATGGAGACCTTGGACCAGCAGGGGAAGATCTATGGGCA 2001 TGGGAGGTGGGCGTTGGAAAGGCTGAGTAGGAATGGTGCCTGGCACCCCTGAACCATGATCTGAGCCTCCCTGGAGAAGG 2081 TATTTTATATGTCTGCTGCCAGCTGCTGGTCTCCACACCCTCAACCGTTCTCAACCCCCCTGCAGGGAGAAGGCCTCCTG 2161 GGCACTGTCCTTCCACCTGTGCCAGCCACCCCCTGCCCCACTGCTGAATGAAGGCCATTTCAAGCGCTGCTTCTCACTCC 2241 ATTCCTCTCAGCTGTTATTGCTGCAGGGCCAAGCCCTTTTTAGTGCTGTGCTCGTCCAGCTCACCACCACAGCCCCTCTC 2321 AGCCCTCAGTAGGTGGGAGGGGCCAGCTGCCTCTTTAGGCCAGTTGCATCCTCCATTTATCCAAACCACTCCTCTCCTCC 2401 CAGTGGAGTGGGGTTCTGCCAGTACAGCCCTACTGCATCATCTGCGTCAGCCGGTCCTAGCCCATCTGCAGGGTGAAAGA 2481 ACTCATCAAGAGCTCCTTCTGCCCTTGTAAGCCCATCCCAGCTACTTGTAACCATCTCTAAGGGCAATGGCATTGCTCCC 2561 TACCCATTCATCTGCATGAGCTACTCTTGGCTTCCTTAAAGGGTCAAGAAAGCAATTTTTCTGCTTACTAGATTCATTGA 2641 GATCAGCTGTGTGAGCCCCAAAGTGGGACAAGGGTGTCTCCTTCATTACTTAAAGATATTCATGAGGGTGGGTCACTACA 2721 GATGTTGGGGAGCAAGGGCTAGGATCACTTTTTAAAAAATCACCACTTGTGGCTGTCCCAGAGTGCGGTTGTACATCCTC 2801 CCCACCTCATAACGCAGCCACTGAGGAAGAGTGGTTTTCCTAAGAAGACATTGCTGGAGTTGACTTTCTTCTGTCCAAAC 2881 AAACAAACAAAAACTAAACACACACACAAACCCCCAGAAACCCACAATATGTACACGCTAAGGAAAAACTAGCACCCTTC 2961 TGTCCACTCAGCAATAAGAGGGATCTCTTCCCACCTACCCTACCTACTCCTACCCCCAACCCCCTTCCCCATTAATGTGA 3041 GTAATGAATTAGCCTGACCACAGGTGGTCACTGTAGGCTAATGGAAAATACCCAAGGGAGGGCAAAGCCCCCCATCAGAT 3121 GCATGAATGTTTGCGAATGTTGACTGCCACTGCCCCACACACTGTGTCTTTATAGAATTCCCCTTTGCCCACCCTCTTCC 3201 TGTCTCCACCTGGACACAACTTGCTCAAAGGCTGGTGACTTGTGGGCCATTCATCTACAACCAAGTCCTGATGGAGCAAG 3281 AGGCCCACGCCTAGGGGATGCAAGAACAACCCGTTTCTTAAATGTTACCAGTCCCAGCCAATCTTACGGTGACATTACAG 3361 TTAAATTTCCCAATTGAAAACAAGCAAACAGACACTCAAACTGGTCCTGTAATTGTTGCTAGACTTTATGTGTTGTACAA 3441 CTAAACATTGCTGTTTGAACAGTAA Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
|
||||||||||||||||||||
miRNA-target interactions (Predicted by miRanda) |
|
||||||||||||||||||||
DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
---|---|---|---|---|---|---|---|
miRNA:Target | ---- | ||||||
Validation Method |
|
||||||
Conditions | BC-3 | ||||||
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 GSM796040. RNA binding protein: AGO2. Condition:4-Thiouridine
... - Gottwein E; Corcoran DL; Mukherjee N; et al., 2011, Cell host & microbe. |
||||||
miRNA-target interactions (Provided by authors) |
|
||||||
Article |
- Gottwein E; Corcoran DL; Mukherjee N; et al. - Cell host & microbe, 2011
Primary effusion lymphoma (PEL) is caused by Kaposi's sarcoma-associated herpesvirus (KSHV) and frequently also harbors Epstein-Barr virus (EBV). The expression of KSHV- and EBV-encoded microRNAs (miRNAs) in PELs suggests a role for these miRNAs in latency and lymphomagenesis. Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites. In addition to a known viral analog of cellular miR-155, we show that KSHV encodes a viral miRNA that mimics cellular miR-142-3p function. In summary, this study identifies an extensive list of KSHV miRNA targets, which are likely to influence viral replication and pathogenesis.
LinkOut: [PMID: 22100165]
|
CLIP-seq Support 1 for dataset GSM796040 | |
---|---|
Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | BC-3 / 4-Thiouridine |
Location of target site | ENST00000396425.3 | 3UTR | UUGGCUUCCUUAAAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 22100165 / GSE32109 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
91 hsa-miR-4786-3p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT055412 | SHOC2 | SHOC2, leucine rich repeat scaffold protein | 2 | 6 | ||||||||
MIRT219055 | TAF8 | TATA-box binding protein associated factor 8 | 2 | 4 | ||||||||
MIRT247423 | ATP2A2 | ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2 | 2 | 2 | ||||||||
MIRT301990 | NUP50 | nucleoporin 50 | 2 | 4 | ||||||||
MIRT344711 | ZNF207 | zinc finger protein 207 | 2 | 2 | ||||||||
MIRT409792 | FOXO3 | forkhead box O3 | 2 | 2 | ||||||||
MIRT441666 | SEPT3 | septin 3 | 2 | 2 | ||||||||
MIRT441708 | RP1L1 | RP1 like 1 | 2 | 2 | ||||||||
MIRT441843 | SYT11 | synaptotagmin 11 | 2 | 2 | ||||||||
MIRT441862 | TEX35 | testis expressed 35 | 2 | 2 | ||||||||
MIRT441872 | PPP1R15B | protein phosphatase 1 regulatory subunit 15B | 2 | 2 | ||||||||
MIRT442363 | ZC3H12C | zinc finger CCCH-type containing 12C | 2 | 2 | ||||||||
MIRT442588 | HOXD9 | homeobox D9 | 2 | 2 | ||||||||
MIRT442891 | RHCG | Rh family C glycoprotein | 2 | 2 | ||||||||
MIRT443100 | RNF20 | ring finger protein 20 | 2 | 2 | ||||||||
MIRT443238 | ANKRD26 | ankyrin repeat domain 26 | 2 | 2 | ||||||||
MIRT443611 | OR2D2 | olfactory receptor family 2 subfamily D member 2 | 2 | 2 | ||||||||
MIRT443637 | ELP6 | elongator acetyltransferase complex subunit 6 | 2 | 2 | ||||||||
MIRT449298 | SMIM19 | small integral membrane protein 19 | 2 | 2 | ||||||||
MIRT449581 | ZNF510 | zinc finger protein 510 | 2 | 2 | ||||||||
MIRT450699 | RORA | RAR related orphan receptor A | 2 | 2 | ||||||||
MIRT455269 | DDX39B | DExD-box helicase 39B | 2 | 10 | ||||||||
MIRT456608 | SFMBT2 | Scm like with four mbt domains 2 | 2 | 2 | ||||||||
MIRT461509 | NEDD4L | neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase | 2 | 2 | ||||||||
MIRT461710 | ZNF426 | zinc finger protein 426 | 2 | 2 | ||||||||
MIRT463760 | YPEL2 | yippee like 2 | 2 | 2 | ||||||||
MIRT465221 | TRIP10 | thyroid hormone receptor interactor 10 | 2 | 2 | ||||||||
MIRT466648 | TAGLN2 | transgelin 2 | 2 | 2 | ||||||||
MIRT473046 | MPRIP | myosin phosphatase Rho interacting protein | 2 | 2 | ||||||||
MIRT473184 | MKNK2 | MAP kinase interacting serine/threonine kinase 2 | 2 | 4 | ||||||||
MIRT478996 | COLGALT1 | collagen beta(1-O)galactosyltransferase 1 | 2 | 2 | ||||||||
MIRT479650 | CD4 | CD4 molecule | 2 | 2 | ||||||||
MIRT480329 | C5orf51 | chromosome 5 open reading frame 51 | 2 | 2 | ||||||||
MIRT484162 | FAM71B | family with sequence similarity 71 member B | 2 | 2 | ||||||||
MIRT487586 | FAM83H | family with sequence similarity 83 member H | 2 | 2 | ||||||||
MIRT487598 | NKD2 | naked cuticle homolog 2 | 2 | 4 | ||||||||
MIRT494852 | ANKRD24 | ankyrin repeat domain 24 | 2 | 2 | ||||||||
MIRT494931 | TMEM167A | transmembrane protein 167A | 2 | 2 | ||||||||
MIRT495227 | SIK2 | salt inducible kinase 2 | 2 | 4 | ||||||||
MIRT496088 | C17orf85 | nuclear cap binding subunit 3 | 2 | 2 | ||||||||
MIRT496172 | RPL35A | ribosomal protein L35a | 2 | 4 | ||||||||
MIRT496729 | GPR180 | G protein-coupled receptor 180 | 2 | 2 | ||||||||
MIRT496786 | COL9A2 | collagen type IX alpha 2 chain | 2 | 2 | ||||||||
MIRT496844 | KCNIP2 | potassium voltage-gated channel interacting protein 2 | 2 | 2 | ||||||||
MIRT497924 | BTG1 | BTG anti-proliferation factor 1 | 2 | 2 | ||||||||
MIRT512249 | ARPP19 | cAMP regulated phosphoprotein 19 | 2 | 4 | ||||||||
MIRT513269 | SCUBE1 | signal peptide, CUB domain and EGF like domain containing 1 | 2 | 4 | ||||||||
MIRT525310 | FANCA | Fanconi anemia complementation group A | 2 | 4 | ||||||||
MIRT525805 | SOD2 | superoxide dismutase 2 | 2 | 2 | ||||||||
MIRT526178 | HEPH | hephaestin | 2 | 2 | ||||||||
MIRT530555 | NKIRAS2 | NFKB inhibitor interacting Ras like 2 | 2 | 4 | ||||||||
MIRT531431 | MPZL3 | myelin protein zero like 3 | 2 | 2 | ||||||||
MIRT531715 | TARS | threonyl-tRNA synthetase | 2 | 2 | ||||||||
MIRT531812 | POLD3 | DNA polymerase delta 3, accessory subunit | 2 | 2 | ||||||||
MIRT536185 | MAOB | monoamine oxidase B | 2 | 2 | ||||||||
MIRT541015 | WIPI2 | WD repeat domain, phosphoinositide interacting 2 | 2 | 2 | ||||||||
MIRT544685 | ZNF224 | zinc finger protein 224 | 2 | 4 | ||||||||
MIRT560194 | CACNG7 | calcium voltage-gated channel auxiliary subunit gamma 7 | 2 | 2 | ||||||||
MIRT560214 | SLC7A1 | solute carrier family 7 member 1 | 2 | 2 | ||||||||
MIRT560703 | PRPF4B | pre-mRNA processing factor 4B | 2 | 2 | ||||||||
MIRT561023 | LIN7C | lin-7 homolog C, crumbs cell polarity complex component | 2 | 2 | ||||||||
MIRT562249 | GRWD1 | glutamate rich WD repeat containing 1 | 2 | 2 | ||||||||
MIRT566256 | PTBP1 | polypyrimidine tract binding protein 1 | 2 | 2 | ||||||||
MIRT610519 | HIAT1 | major facilitator superfamily domain containing 14A | 2 | 2 | ||||||||
MIRT611255 | EHD3 | EH domain containing 3 | 2 | 2 | ||||||||
MIRT625352 | MGLL | monoglyceride lipase | 2 | 2 | ||||||||
MIRT633625 | R3HDM2 | R3H domain containing 2 | 2 | 2 | ||||||||
MIRT633638 | CASC5 | kinetochore scaffold 1 | 2 | 2 | ||||||||
MIRT643514 | CCDC115 | coiled-coil domain containing 115 | 2 | 2 | ||||||||
MIRT647629 | PELI3 | pellino E3 ubiquitin protein ligase family member 3 | 2 | 2 | ||||||||
MIRT651218 | ZNF225 | zinc finger protein 225 | 2 | 2 | ||||||||
MIRT656738 | LMBR1L | limb development membrane protein 1 like | 2 | 2 | ||||||||
MIRT658055 | FSD1L | fibronectin type III and SPRY domain containing 1 like | 2 | 2 | ||||||||
MIRT662937 | PSMB2 | proteasome subunit beta 2 | 2 | 2 | ||||||||
MIRT666735 | RALY | RALY heterogeneous nuclear ribonucleoprotein | 2 | 2 | ||||||||
MIRT667491 | MACROD2 | MACRO domain containing 2 | 2 | 2 | ||||||||
MIRT668131 | GJD2 | gap junction protein delta 2 | 2 | 2 | ||||||||
MIRT671644 | FBXO36 | F-box protein 36 | 2 | 2 | ||||||||
MIRT674924 | TRPM6 | transient receptor potential cation channel subfamily M member 6 | 2 | 2 | ||||||||
MIRT704425 | CTNNBIP1 | catenin beta interacting protein 1 | 2 | 2 | ||||||||
MIRT709712 | DNAJC11 | DnaJ heat shock protein family (Hsp40) member C11 | 2 | 2 | ||||||||
MIRT710068 | UBL4A | ubiquitin like 4A | 2 | 2 | ||||||||
MIRT716227 | DGKI | diacylglycerol kinase iota | 2 | 2 | ||||||||
MIRT716265 | TOM1 | target of myb1 membrane trafficking protein | 2 | 2 | ||||||||
MIRT719906 | SERP1 | stress associated endoplasmic reticulum protein 1 | 2 | 2 | ||||||||
MIRT720888 | CSGALNACT1 | chondroitin sulfate N-acetylgalactosaminyltransferase 1 | 2 | 2 | ||||||||
MIRT721388 | ATP13A4 | ATPase 13A4 | 2 | 2 | ||||||||
MIRT721938 | LGR4 | leucine rich repeat containing G protein-coupled receptor 4 | 2 | 2 | ||||||||
MIRT722947 | SRGAP1 | SLIT-ROBO Rho GTPase activating protein 1 | 2 | 2 | ||||||||
MIRT724745 | ZNF391 | zinc finger protein 391 | 2 | 2 | ||||||||
MIRT724761 | PSG4 | pregnancy specific beta-1-glycoprotein 4 | 2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|