pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-3915 |
Genomic Coordinates | chrX: 32583656 - 32583752 |
Description | Homo sapiens miR-3915 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-3915 | |||||||||||||||
Sequence | 21| UUGAGGAAAAGAUGGUCUUAUU |42 | |||||||||||||||
Evidence | Experimental | |||||||||||||||
Experiments | Illumina | |||||||||||||||
SNPs in miRNA |
|
|||||||||||||||
Putative Targets |
miRNA Expression profile | |
---|---|
Human miRNA Tissue Atlas | |
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | DFFB | ||||||||||||||||||||
Synonyms | CAD, CPAN, DFF-40, DFF2, DFF40 | ||||||||||||||||||||
Description | DNA fragmentation factor subunit beta | ||||||||||||||||||||
Transcript | NM_004402 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on DFFB | |||||||||||||||||||||
3'UTR of DFFB (miRNA target sites are highlighted) |
>DFFB|NM_004402|3'UTR 1 CACGTACACACCACGTCCTGGTCTTTGTTTGAGGCCTGACGTGGGCATCATTTTAACAGGTGCCTTTTTTGTTTTTTTGT 81 TTTTCGTTTTTTTGGTCACTCCAGTAGCTCCTGGAAAAAACCTTAAAAAATGTTTCCTCCAAATCTGATTTCATTACATT 161 TCTGAATTGTTGGGGTTTTTTTTGTTGTTTTGTTTTGTTTTGTAGATGGAGTTTCACTTTTGTTGCCCAGGCTGGAGTGT 241 AGTGGCGCGATCTCGGCTCAGCCTCCCGAGTAGCTGGGATTACAGGCATGTGCCACCACGCCCGGCTAATGTTTGTATTT 321 TTAGTAGAGACGGGGTTTCACCATGTTGGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCGCCCACCTCAGCCTC 401 CCAAAGTGCTGGGATGACAGGTGTGAGCCACTGCGCCCAGCCTGAATCATTTCTTATACCTTCTGACAGCCCAACTTCCA 481 GAGGACAGCTCTGGGGTACTCGTTGGATGTCTGTGAGTACCTGGTCATACGGGTCAGTAGGGATAAGAATTGTCTCTGGG 561 CTGAGGAATTCTTCTGTTCTCTGGTTTCACCAGCGTTGGGTTTGCTCATGTAATGTGGTCACCATACTCAAATGGTGTCA 641 TGGCTGAAGTTGGCCACCTTGCTTGAGGGACAAGTTGTTTATGTATCAGCTCTCTGCTGGGTCTCCCTTTCCATGGCAAA 721 TGGGCAGCTCCATCCTCTTGACTCTTCTAAATGCCCAAAAGAGGTGTCATGCTTTGGGGGTACGATGTTTATACTCCGTA 801 AAGAACATACAAGGACATTCACTGCTGATTTTTTTTTTTGTTTGTTTGAGACAGGGTCTCACTCTGTCGCTCAGGCTGGA 881 GTGCAGTGATGCAATCTTGGCTCACTGCAACCTCCGCCTCTCAGGTTCAAGTGGTTCTCCTTCCTCAGCCTCCCAAGTAG 961 CTGGGATTACAGGCACCTACCACCAGGGCCAGCTAATTTTTGTATGTTTAGTAGAAACGGGGTTTCACCATGTTGGCCAG 1041 GCTGTTCTCGAACTCCTGACCTCAGGTGATCTGCCCGCCTCGGTCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTG 1121 CACCTGACCTGCTGAATTGTTTATAATGGCAAGAAATAGGAAACCCCCCAATGTCTGTTGAACAGCTATCACGTTGAACC 1201 ACGTGAAACTGCTGTTTTCTAGGCCAAAAATGGTGAGCGATCATTTATTTCATGATTCAACCTGATACATTTACATAGTG 1281 CAAAACTGTGTCACAGTTTCAGGCTTTTATGAGGAAAGCGTTTCTGTGTAGAAACTGGAAGCTGTTCAGGGCATCGGCAG 1361 CTGAACCCTGCTCCGTTGGTCAGCGTTACTATCATCTCGGATCATATGGAGCTCATGTCAGCCGTGTGGGTGGCGGGTGC 1441 ACAGAGACGGTCTGGAAGGAAACACGCGGATCTGAACAGCAGTAATCCTGGGGGATACGGGGGTTGGGCTAGATTACAGA 1521 GGGCTCATTTTCTACGTCATGTATTTTATGATACTTGAATTTTTTGAAATGGGCATTTATTTTATAACATGTTAAAATGT 1601 ACTTTTTAAATTAAGTCATTTTGTAATATTTGAATTTTTACATTTGTTGTACAATCAGGAAAAGCAATAAAGATTTTTCA 1681 AAAATAGAAAAAAA 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 | HeLa | ||||||
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 Chi_ControlB_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control B
... - Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature. |
||||||
miRNA-target interactions (Provided by authors) |
|
||||||
Article |
- Chi SW; Zang JB; Mele A; Darnell RB - Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
|
CLIP-seq Support 1 for dataset GSM4903833 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_a |
Location of target site | NM_004402 | 3UTR | UUCCUCAGCCUCCCAAGUAGCUGGGAUUACAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset Chi_ControlB_2A8_130_50 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell Control B |
Location of target site | ENST00000378209.3 | 3UTR | AAGUGGUUCUCCUUCCUCAG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 19536157 / Chi_HITSCLIP |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
111 hsa-miR-3915 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT059544 | PIP5K1A | phosphatidylinositol-4-phosphate 5-kinase type 1 alpha | ![]() |
![]() |
2 | 2 | ||||||
MIRT081703 | ZNF507 | zinc finger protein 507 | ![]() |
![]() |
2 | 2 | ||||||
MIRT083311 | ZCCHC3 | zinc finger CCHC-type containing 3 | ![]() |
![]() |
2 | 6 | ||||||
MIRT119046 | SFT2D3 | SFT2 domain containing 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT189381 | TXLNA | taxilin alpha | ![]() |
![]() |
2 | 4 | ||||||
MIRT195895 | C16ORF72 | chromosome 16 open reading frame 72 | ![]() |
![]() |
2 | 6 | ||||||
MIRT223807 | OXR1 | oxidation resistance 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT292954 | ZNF146 | zinc finger protein 146 | ![]() |
![]() |
2 | 4 | ||||||
MIRT293949 | RPL13A | ribosomal protein L13a | ![]() |
![]() |
2 | 6 | ||||||
MIRT300900 | KREMEN1 | kringle containing transmembrane protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT339332 | SESN2 | sestrin 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT349304 | ZNF317 | zinc finger protein 317 | ![]() |
![]() |
2 | 2 | ||||||
MIRT364736 | TOR1B | torsin family 1 member B | ![]() |
![]() |
2 | 2 | ||||||
MIRT366233 | VMA21 | VMA21, vacuolar ATPase assembly factor | ![]() |
![]() |
2 | 2 | ||||||
MIRT384605 | CLIC4 | chloride intracellular channel 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT401745 | HLA-DRA | major histocompatibility complex, class II, DR alpha | ![]() |
![]() |
2 | 2 | ||||||
MIRT443169 | UBL3 | ubiquitin like 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT444215 | METTL12 | methyltransferase like 12 | ![]() |
![]() |
2 | 2 | ||||||
MIRT444375 | SH3TC2 | SH3 domain and tetratricopeptide repeats 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT445340 | TCEANC | transcription elongation factor A N-terminal and central domain containing | ![]() |
![]() |
2 | 2 | ||||||
MIRT445474 | KDM6A | lysine demethylase 6A | ![]() |
![]() |
2 | 2 | ||||||
MIRT445598 | CAMK2N1 | calcium/calmodulin dependent protein kinase II inhibitor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT445630 | TMEM50A | transmembrane protein 50A | ![]() |
![]() |
2 | 2 | ||||||
MIRT446012 | VNN1 | vanin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT446115 | ASTN1 | astrotactin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT446248 | ELP2 | elongator acetyltransferase complex subunit 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT446382 | SYNCRIP | synaptotagmin binding cytoplasmic RNA interacting protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT446940 | ZMAT3 | zinc finger matrin-type 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT446967 | SLCO4C1 | solute carrier organic anion transporter family member 4C1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT447178 | PGRMC2 | progesterone receptor membrane component 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT447209 | APBB2 | amyloid beta precursor protein binding family B member 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT447237 | IHH | indian hedgehog | ![]() |
![]() |
2 | 2 | ||||||
MIRT447807 | EMX1 | empty spiracles homeobox 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT447853 | RRP8 | ribosomal RNA processing 8 | ![]() |
![]() |
2 | 4 | ||||||
MIRT448054 | MMP15 | matrix metallopeptidase 15 | ![]() |
![]() |
2 | 2 | ||||||
MIRT448094 | RASD2 | RASD family member 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT448704 | KLHL11 | kelch like family member 11 | ![]() |
![]() |
2 | 2 | ||||||
MIRT448851 | FEM1C | fem-1 homolog C | ![]() |
![]() |
2 | 2 | ||||||
MIRT449488 | ZBTB4 | zinc finger and BTB domain containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT449785 | C1orf109 | chromosome 1 open reading frame 109 | ![]() |
![]() |
2 | 2 | ||||||
MIRT450774 | PDE3A | phosphodiesterase 3A | ![]() |
![]() |
2 | 2 | ||||||
MIRT451124 | ZNF99 | zinc finger protein 99 | ![]() |
![]() |
2 | 2 | ||||||
MIRT452676 | GPR156 | G protein-coupled receptor 156 | ![]() |
![]() |
2 | 2 | ||||||
MIRT452888 | PSD4 | pleckstrin and Sec7 domain containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT453188 | ACSF2 | acyl-CoA synthetase family member 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT453353 | ZNF3 | zinc finger protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT454502 | ZFYVE27 | zinc finger FYVE-type containing 27 | ![]() |
![]() |
2 | 2 | ||||||
MIRT454629 | FAM83H | family with sequence similarity 83 member H | ![]() |
![]() |
2 | 2 | ||||||
MIRT455183 | AGTRAP | angiotensin II receptor associated protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT458204 | FOXL2 | forkhead box L2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT458723 | CES2 | carboxylesterase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT458942 | SAMD4B | sterile alpha motif domain containing 4B | ![]() |
![]() |
2 | 2 | ||||||
MIRT460304 | FLCN | folliculin | ![]() |
![]() |
2 | 2 | ||||||
MIRT460989 | SYT7 | synaptotagmin 7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT461697 | ZNF426 | zinc finger protein 426 | ![]() |
![]() |
2 | 2 | ||||||
MIRT461903 | NECAB3 | N-terminal EF-hand calcium binding protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT462193 | NDUFS1 | NADH:ubiquinone oxidoreductase core subunit S1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT462290 | PPM1H | protein phosphatase, Mg2+/Mn2+ dependent 1H | ![]() |
![]() |
2 | 2 | ||||||
MIRT463795 | XPOT | exportin for tRNA | ![]() |
![]() |
2 | 2 | ||||||
MIRT464649 | UBE2V1 | ubiquitin conjugating enzyme E2 V1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT465911 | TMEM189-UBE2V1 | TMEM189-UBE2V1 readthrough | ![]() |
![]() |
2 | 4 | ||||||
MIRT465992 | TMEM189 | transmembrane protein 189 | ![]() |
![]() |
2 | 4 | ||||||
MIRT466302 | TIMM22 | translocase of inner mitochondrial membrane 22 | ![]() |
![]() |
2 | 2 | ||||||
MIRT466575 | TBC1D2B | TBC1 domain family member 2B | ![]() |
![]() |
2 | 2 | ||||||
MIRT470558 | POU2F1 | POU class 2 homeobox 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT471333 | PERP | PERP, TP53 apoptosis effector | ![]() |
![]() |
2 | 2 | ||||||
MIRT471659 | PALM2 | paralemmin 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT472363 | TSPAN1 | tetraspanin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT473468 | MCFD2 | multiple coagulation factor deficiency 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT474702 | KIF3A | kinesin family member 3A | ![]() |
![]() |
2 | 2 | ||||||
MIRT476067 | GRIN2A | glutamate ionotropic receptor NMDA type subunit 2A | ![]() |
![]() |
2 | 2 | ||||||
MIRT476077 | GRB2 | growth factor receptor bound protein 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT476423 | GBA2 | glucosylceramidase beta 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT476463 | GATAD2B | GATA zinc finger domain containing 2B | ![]() |
![]() |
2 | 2 | ||||||
MIRT477877 | DYNLL2 | dynein light chain LC8-type 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT478240 | DDX3X | DEAD-box helicase 3, X-linked | ![]() |
![]() |
2 | 4 | ||||||
MIRT479460 | CDK6 | cyclin dependent kinase 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT481030 | BAZ2A | bromodomain adjacent to zinc finger domain 2A | ![]() |
![]() |
2 | 2 | ||||||
MIRT491496 | HLA-DOA | major histocompatibility complex, class II, DO alpha | ![]() |
![]() |
2 | 2 | ||||||
MIRT497585 | SLC23A1 | solute carrier family 23 member 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT498542 | TMEM30B | transmembrane protein 30B | ![]() |
![]() |
2 | 2 | ||||||
MIRT499263 | NBPF11 | NBPF member 11 | ![]() |
![]() |
2 | 2 | ||||||
MIRT504698 | ZNF117 | zinc finger protein 117 | ![]() |
![]() |
2 | 2 | ||||||
MIRT511288 | KLHL15 | kelch like family member 15 | ![]() |
![]() |
2 | 4 | ||||||
MIRT523121 | HSP90B1 | heat shock protein 90 beta family member 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT529601 | H1F0 | H1 histone family member 0 | ![]() |
![]() |
2 | 2 | ||||||
MIRT533481 | TRIM71 | tripartite motif containing 71 | ![]() |
![]() |
2 | 2 | ||||||
MIRT535571 | NUP37 | nucleoporin 37 | ![]() |
![]() |
2 | 4 | ||||||
MIRT537869 | EDA2R | ectodysplasin A2 receptor | ![]() |
![]() |
2 | 2 | ||||||
MIRT538010 | DNAJC10 | DnaJ heat shock protein family (Hsp40) member C10 | ![]() |
![]() |
2 | 2 | ||||||
MIRT552681 | YWHAZ | tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta | ![]() |
![]() |
2 | 4 | ||||||
MIRT554986 | RAB39B | RAB39B, member RAS oncogene family | ![]() |
![]() |
2 | 2 | ||||||
MIRT556659 | KMT2D | lysine methyltransferase 2D | ![]() |
![]() |
2 | 4 | ||||||
MIRT557437 | GTPBP2 | GTP binding protein 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT560813 | CRTAP | cartilage associated protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT562115 | IGFBP5 | insulin like growth factor binding protein 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT563103 | IFRD2 | interferon related developmental regulator 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT574199 | LMNB1 | lamin B1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT623920 | FMNL3 | formin like 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT626551 | NMNAT2 | nicotinamide nucleotide adenylyltransferase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT645458 | ANKS6 | ankyrin repeat and sterile alpha motif domain containing 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT649082 | CACNA1B | calcium voltage-gated channel subunit alpha1 B | ![]() |
![]() |
2 | 2 | ||||||
MIRT659477 | CLDN1 | claudin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT667950 | HMGCS1 | 3-hydroxy-3-methylglutaryl-CoA synthase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT701981 | MIER3 | MIER family member 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT708694 | TFDP2 | transcription factor Dp-2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT709649 | DFFB | DNA fragmentation factor subunit beta | ![]() |
![]() |
2 | 2 | ||||||
MIRT710090 | FAM229B | family with sequence similarity 229 member B | ![]() |
![]() |
2 | 2 | ||||||
MIRT718396 | ALDH1A3 | aldehyde dehydrogenase 1 family member A3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT724972 | TNS1 | tensin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT756050 | HRH4 | histamine receptor H4 | 2 | 1 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|