pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-4260 |
Genomic Coordinates | chr1: 209623444 - 209623510 |
Description | Homo sapiens miR-4260 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-4260 | ||||||||||||
Sequence | 11| CUUGGGGCAUGGAGUCCCA |29 | ||||||||||||
Evidence | Experimental | ||||||||||||
Experiments | SOLiD | DRVs in miRNA |
|
||||||||||
SNPs in miRNA |
|
||||||||||||
Putative Targets |
miRNA Expression profile | |
---|---|
Human miRNA Tissue Atlas | |
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | ZNF281 | ||||||||||||||||||||
Synonyms | ZBP-99, ZNP-99 | ||||||||||||||||||||
Description | zinc finger protein 281 | ||||||||||||||||||||
Transcript | NM_012482 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on ZNF281 | |||||||||||||||||||||
3'UTR of ZNF281 (miRNA target sites are highlighted) |
>ZNF281|NM_012482|3'UTR 1 GGTCCCAAAAGTGGCCAGGCTGGAGGTCTTCTAATGTAATTTTGTTTTATTTTGAGAACACTGCCATTGGAATGTTTCTA 81 CACGATCCTATTAAGAATAATGTGATGCCCTTTCAATGCAACTTTTCATATTTAGTTTATTTTGTTAGCGTGATTTTAGC 161 TCTGTTTGTATTATGATTTTTAATCAAAATCAATAGATTAAAAATAGTTTGACATTCAAAGTGACAATGTTTAGCAATCA 241 AATTTACATGTATAGATCGTCAGGGAATAGCCCAAATGTTTTAAACGCAAAAAAAAAGACAAAAAAAAACCAAAAAAAAA 321 AAACCTACAAAAAAAACTTTGTTGCTAGGATTAAGGTTATTCTAATTGCTTTACTCTCAGGAAAGTGTAATAACGCATGG 401 GAATTCTGTACGTTATCACTGTAATGGAATATCCAATTTACAGATAGTATGATATACATTTCATCATTTAAGTAAGGGAT 481 CGAAAACATTTCAAATTGCTCTATCTGGGCTGATAGACATTTCGTCATTTAAGTAAGGGATCGAAGACATTTCAAATTGC 561 TATCTCCATCTGGGCTGATCCAAAATTCTGAGATTGTTGGCTACCTATATTTTGTTGCAGCTTTTAAATGTACTCTGAAC 641 TTCCAAACCACATTCATTCCAGCCTGGTAGAACAAATATTCTTGGATCTTTGATCAAAGCCTGGAATGATAGCTTTAATA 721 AAAGAAGGAAAAAAAAAAAGCACCCTCTCTTGATCTCAACTGTAACAAGGCTGTAATTCCATCAAGCGATTCTACTGACA 801 TCTAGTACAGTGTTGAAGCCCAAGTGGTTGGCTGGTTCCAGTATTAGAACTCAAGTTGAAATTATATGATTAACTGAAAT 881 TTGGGGCATGCATTATTTATTATACATGGCCTACAACGGTTCTGTCTGCGCTGTTACGTATTACCTACACTTCTGGGTTT 961 TTTTGTTCTTGTTCTCAGCCTCTCTTTAAGAGTTCTTGGGCCTTCCTTTTCCCTCTTTCTATTTTAACAGTTTTAATTTT 1041 AGAACCATTTACATTCCAGTAGGTAATTCACTATGCGCTTTATATGCCTTAGGGCATCCAAATAAAAAACAATAGGGTAA 1121 ACATCCCCAAAACCCACCTTTAAAAAAAAAAAAACCCATACAGATTTCCATATGTAATAAAACCCCGTGTTCTTGGATAG 1201 ATATTAATAAGGTTGTAATTCCAACTGGTGACATAACTCCTGTGAGGGATAAGAATGTGTCTGCTTATAGTAATAACATC 1281 AGAACCTCTTTGTGAAATTGCGGCCTTTAATGTACATTTTAATGAAAGGGTGCATTAGTATTGTACAGGGGTCTTGTAAA 1361 GTCATCAAAACTTGCTATGAACTCTAATTGCCATTTGAAGCTACTGATTGGCAGTGGCTCTACTCTAAAACTGCTTTTTA 1441 GCAATTGTATTTTTTTCCTGATTATATTTTTTAATGTACTTTGATGTTTATGCTGATGAGTTTTTTATGTACTTTTGGTG 1521 ATGTTTCAGTCTTATGTACTCTTCTGACGTCAGAAAAGTACCACTGGTTGTTTGCAGTCTTATTGTGTAATCAGCCTACC 1601 GCAGGCTTCCATGTATAATAAAGTAATTAATATTGTGCAAGTGTAAAACACTTCTGTTATAAAAGCAGTGTTTGGAAAAT 1681 AAGAAATATTAAAAATGGTTACAAAGTATTAGTTAATTTCCTTTTCCCACTTTCCTCCCTTTAGCTTTAGCAGCTAAAGG 1761 GTCACCAACTTGTCATTGCAAGATTCTTAGAAAATGTACTTAATCTTAAATACGCTGAGTACTAAAAAGTGTTTATTTCT 1841 TATTTCAGTAAGTGCGGTAAGTTCTATTGAGTACAGAGTACAAGCTGTAATCAAAGGATGGAGAGGACCTTTACCACTGT 1921 ATCTCTTAAGCTGTATGATTTTTCTCCAGTTTGTTTTATACAGGTTTTGAATTTCTTTAACTTTTATTGTGTGTACTGAA 2001 TACTGCATATGTATTATTCTGATTGTTTGCTCTAGTTTACTACCAATAAAAGTCCTGTTAATCACAAGATTAAAAAAAAA 2081 AAAAAAAAA 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_124A_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + A
HITS-CLIP data was present in Chi_124B_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + B
... - Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature. |
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 Chi_124A_2A8_130_50 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell miR-124 + A |
Location of target site | ENST00000294740.3 | 3UTR | AAUAGGGUAAACAUCC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 19536157 / Chi_HITSCLIP |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset Chi_124B_2A8_130_50 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell miR-124 + B |
Location of target site | ENST00000294740.3 | 3UTR | AAUAGGGUAAACAUC |
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) | |||||||
---|---|---|---|---|---|---|---|
|
66 hsa-miR-4260 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT074404 | TNRC6A | trinucleotide repeat containing 6A | ![]() |
![]() |
2 | 2 | ||||||
MIRT289774 | PER1 | period circadian clock 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT442576 | HOXD9 | homeobox D9 | ![]() |
![]() |
2 | 2 | ||||||
MIRT443878 | CNKSR3 | CNKSR family member 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT449080 | XPO6 | exportin 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT450294 | DRAXIN | dorsal inhibitory axon guidance protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT461785 | FXR2 | FMR1 autosomal homolog 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT463931 | WNT10B | Wnt family member 10B | ![]() |
![]() |
2 | 2 | ||||||
MIRT464860 | UBB | ubiquitin B | ![]() |
![]() |
2 | 8 | ||||||
MIRT467619 | SLC7A5 | solute carrier family 7 member 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT469649 | RAC1 | Rac family small GTPase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT473421 | MDM4 | MDM4, p53 regulator | ![]() |
![]() |
2 | 2 | ||||||
MIRT473646 | MARCKSL1 | MARCKS like 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT474213 | LCOR | ligand dependent nuclear receptor corepressor | ![]() |
![]() |
2 | 2 | ||||||
MIRT474335 | KMT2D | lysine methyltransferase 2D | ![]() |
![]() |
2 | 2 | ||||||
MIRT474871 | KDELR1 | KDEL endoplasmic reticulum protein retention receptor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT477440 | ELOVL5 | ELOVL fatty acid elongase 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT478432 | DAZAP2 | DAZ associated protein 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT479851 | CCDC6 | coiled-coil domain containing 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT482507 | ACTB | actin beta | ![]() |
![]() |
2 | 2 | ||||||
MIRT485473 | IGF1R | insulin like growth factor 1 receptor | ![]() |
![]() |
2 | 8 | ||||||
MIRT485670 | CCDC64 | BICD family like cargo adaptor 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT485902 | PGPEP1 | pyroglutamyl-peptidase I | ![]() |
![]() |
2 | 4 | ||||||
MIRT488143 | PRRC2B | proline rich coiled-coil 2B | ![]() |
![]() |
2 | 4 | ||||||
MIRT489455 | MSC | musculin | ![]() |
![]() |
2 | 2 | ||||||
MIRT509568 | HIST2H2AB | histone cluster 2 H2A family member b | ![]() |
![]() |
2 | 4 | ||||||
MIRT513093 | DYNAP | dynactin associated protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT513256 | CALM3 | calmodulin 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT514356 | UBBP4 | ubiquitin B pseudogene 4 | ![]() |
![]() |
2 | 6 | ||||||
MIRT522019 | PAQR3 | progestin and adipoQ receptor family member 3 | ![]() |
![]() |
2 | 4 | ||||||
MIRT523164 | HIST3H3 | histone cluster 3 H3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT523297 | HIST1H1B | histone cluster 1 H1 family member b | ![]() |
![]() |
2 | 2 | ||||||
MIRT524782 | BAG5 | BCL2 associated athanogene 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT530921 | SCIN | scinderin | ![]() |
![]() |
2 | 2 | ||||||
MIRT533302 | USP44 | ubiquitin specific peptidase 44 | ![]() |
![]() |
2 | 2 | ||||||
MIRT552782 | YIPF4 | Yip1 domain family member 4 | ![]() |
![]() |
2 | 4 | ||||||
MIRT553981 | SRPR | SRP receptor alpha subunit | ![]() |
![]() |
2 | 2 | ||||||
MIRT563126 | ZNF215 | zinc finger protein 215 | ![]() |
![]() |
2 | 2 | ||||||
MIRT569025 | IL21R | interleukin 21 receptor | ![]() |
![]() |
2 | 2 | ||||||
MIRT573413 | RPL18A | ribosomal protein L18a | ![]() |
![]() |
2 | 2 | ||||||
MIRT574877 | Dnajc6 | DnaJ heat shock protein family (Hsp40) member C6 | ![]() |
![]() |
2 | 3 | ||||||
MIRT607538 | GLI2 | GLI family zinc finger 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT607682 | MAPK10 | mitogen-activated protein kinase 10 | ![]() |
![]() |
2 | 3 | ||||||
MIRT623791 | GK5 | glycerol kinase 5 (putative) | ![]() |
![]() |
2 | 2 | ||||||
MIRT628834 | FAM151B | family with sequence similarity 151 member B | ![]() |
![]() |
2 | 2 | ||||||
MIRT635547 | LEPREL1 | prolyl 3-hydroxylase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT635698 | NMNAT2 | nicotinamide nucleotide adenylyltransferase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT635906 | ARPC1B | actin related protein 2/3 complex subunit 1B | ![]() |
![]() |
2 | 2 | ||||||
MIRT649985 | MSI1 | musashi RNA binding protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT654900 | POMGNT1 | protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) | ![]() |
![]() |
2 | 2 | ||||||
MIRT655116 | PHF7 | PHD finger protein 7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT658958 | DNAJC6 | DnaJ heat shock protein family (Hsp40) member C6 | ![]() |
![]() |
2 | 3 | ||||||
MIRT659665 | CDC42EP4 | CDC42 effector protein 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT668946 | CNBP | CCHC-type zinc finger nucleic acid binding protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT691164 | APOL6 | apolipoprotein L6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT692696 | MEAF6 | MYST/Esa1 associated factor 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT693245 | HBS1L | HBS1 like translational GTPase | ![]() |
![]() |
2 | 2 | ||||||
MIRT695203 | SCAMP3 | secretory carrier membrane protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT701957 | MINK1 | misshapen like kinase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT706802 | APOL4 | apolipoprotein L4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT716899 | CACNB2 | calcium voltage-gated channel auxiliary subunit beta 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT717632 | HLX | H2.0 like homeobox | ![]() |
![]() |
2 | 2 | ||||||
MIRT719052 | ZNF281 | zinc finger protein 281 | ![]() |
![]() |
2 | 2 | ||||||
MIRT722973 | GDE1 | glycerophosphodiester phosphodiesterase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT723643 | RPTN | repetin | ![]() |
![]() |
2 | 2 | ||||||
MIRT734708 | NR3C2 | nuclear receptor subfamily 3 group C member 2 | ![]() |
![]() |
![]() |
![]() |
4 | 0 |
miRNA-Drug Associations | ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|