pre-miRNA Information | |
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pre-miRNA | hsa-mir-664a |
Genomic Coordinates | chr1: 220200538 - 220200619 |
Description | Homo sapiens miR-664 stem-loop |
Comment | This miRNA sequence overlaps an annotated snoRNA, ACA38b. However, both miR and miR* sequences are identified in reference , and the sequence is homologous with rat mir-664. |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-664a-3p | |||||||||||||||||||||||||||||||||||||||||||||
Sequence | 49| UAUUCAUUUAUCCCCAGCCUACA |71 | |||||||||||||||||||||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||||||||||||||||||||
Experiments | Illumina | DRVs in miRNA |
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SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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Human miRNA Tissue Atlas | |
miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | HSPA1B | ||||||||||||||||||||
Synonyms | HSP70-1B, HSP70-2, HSP70.2 | ||||||||||||||||||||
Description | heat shock protein family A (Hsp70) member 1B | ||||||||||||||||||||
Transcript | NM_005346 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on HSPA1B | |||||||||||||||||||||
3'UTR of HSPA1B (miRNA target sites are highlighted) |
>HSPA1B|NM_005346|3'UTR 1 GGGCCTTTGTTCTTTAGTATGTTTGTCTTTGAGGTGGACTGTTGGGACTCAAGGACTTTGCTGCTGTTTTCCTATGTCAT 81 TTCTGCTTCAGCTCTTTGCTGCTTCACTTCTTTGTAAAGTTGTAACCTGATGGTAATTAGCTGGCTTCATTATTTTTGTA 161 GTACAACCGATATGTTCATTAGAATTCTTTGCATTTAATGTTGATACTGTAAGGGTGTTTCGTTCCCTTTAAATGAATCA 241 ACACTGCCACCTTCTGTACGAGTTTGTTTGTTTTTTTTTTTTTTTTTTTTTTTTGCTTGGCGAAAACACTACAAAGGCTG 321 GGAATGTATGTTTTTATAATTTGTTTATTTAAATATGAAAAATAAAATGTTAAACTTTAAAAAAAAAAAAAAAAAAAAAA 401 AAAAAAAAA Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | HEK293 |
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 GSM545214. RNA binding protein: AGO3. Condition:Control
PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
Article |
- Hafner M; Landthaler M; Burger L; Khorshid et al. - Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
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CLIP-seq Support 1 for dataset GSM545214 | |
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Method / RBP | PAR-CLIP / AGO3 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000375650.3 | 3UTR | CUUUAAAUGAAUCAACACUGCCACCUUCUGUACGAGUUUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM545216 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / miR-124 transfection |
Location of target site | ENST00000375650.3 | 3UTR | UUCCCUUUAAAUGAAUCAACACUGCCACCUUCUGUACGAGUUUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||||||||||||||||||||||||||||||||||||||||||||
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MiRNA-Target Expression Profile (TCGA) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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88 hsa-miR-664a-3p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT035824 | HIAT1 | major facilitator superfamily domain containing 14A | 1 | 1 | ||||||||
MIRT035826 | FUS | FUS RNA binding protein | 1 | 1 | ||||||||
MIRT069432 | SIVA1 | SIVA1 apoptosis inducing factor | 2 | 2 | ||||||||
MIRT071494 | CALM1 | calmodulin 1 | 2 | 2 | ||||||||
MIRT100410 | HSPA1B | heat shock protein family A (Hsp70) member 1B | 2 | 2 | ||||||||
MIRT143469 | CHD9 | chromodomain helicase DNA binding protein 9 | 2 | 2 | ||||||||
MIRT191113 | ARF6 | ADP ribosylation factor 6 | 2 | 2 | ||||||||
MIRT235584 | SNRPB2 | small nuclear ribonucleoprotein polypeptide B2 | 2 | 8 | ||||||||
MIRT339131 | ARID1A | AT-rich interaction domain 1A | 2 | 2 | ||||||||
MIRT437450 | MAT1A | methionine adenosyltransferase 1A | 1 | 1 | ||||||||
MIRT442234 | BTD | biotinidase | 2 | 2 | ||||||||
MIRT443321 | SLC35G1 | solute carrier family 35 member G1 | 2 | 2 | ||||||||
MIRT443769 | HLF | HLF, PAR bZIP transcription factor | 2 | 2 | ||||||||
MIRT444352 | KIAA1211 | KIAA1211 | 2 | 2 | ||||||||
MIRT456348 | OLIG3 | oligodendrocyte transcription factor 3 | 2 | 8 | ||||||||
MIRT458866 | CD55 | CD55 molecule (Cromer blood group) | 2 | 2 | ||||||||
MIRT466169 | TMED5 | transmembrane p24 trafficking protein 5 | 2 | 2 | ||||||||
MIRT470445 | PPP1R15B | protein phosphatase 1 regulatory subunit 15B | 2 | 6 | ||||||||
MIRT471524 | PCGF3 | polycomb group ring finger 3 | 2 | 6 | ||||||||
MIRT477744 | EDN1 | endothelin 1 | 2 | 2 | ||||||||
MIRT482885 | CACNA2D3 | calcium voltage-gated channel auxiliary subunit alpha2delta 3 | 2 | 2 | ||||||||
MIRT496336 | PTPRT | protein tyrosine phosphatase, receptor type T | 2 | 2 | ||||||||
MIRT497703 | ARL6IP6 | ADP ribosylation factor like GTPase 6 interacting protein 6 | 2 | 2 | ||||||||
MIRT499068 | CTBP1 | C-terminal binding protein 1 | 2 | 4 | ||||||||
MIRT500296 | ZNF667 | zinc finger protein 667 | 2 | 8 | ||||||||
MIRT500506 | ZBTB34 | zinc finger and BTB domain containing 34 | 2 | 8 | ||||||||
MIRT501964 | MAPK8 | mitogen-activated protein kinase 8 | 2 | 2 | ||||||||
MIRT505457 | SUB1 | SUB1 homolog, transcriptional regulator | 2 | 4 | ||||||||
MIRT505955 | RAN | RAN, member RAS oncogene family | 2 | 6 | ||||||||
MIRT507512 | DYNLL2 | dynein light chain LC8-type 2 | 2 | 4 | ||||||||
MIRT512953 | MKI67 | marker of proliferation Ki-67 | 2 | 2 | ||||||||
MIRT520450 | TSPAN2 | tetraspanin 2 | 2 | 6 | ||||||||
MIRT525997 | MAGEL2 | MAGE family member L2 | 2 | 2 | ||||||||
MIRT526424 | ZNF695 | zinc finger protein 695 | 2 | 2 | ||||||||
MIRT527364 | KRTAP13-2 | keratin associated protein 13-2 | 2 | 2 | ||||||||
MIRT529612 | H1F0 | H1 histone family member 0 | 2 | 2 | ||||||||
MIRT529811 | TMLHE | trimethyllysine hydroxylase, epsilon | 2 | 2 | ||||||||
MIRT530971 | EXO5 | exonuclease 5 | 2 | 4 | ||||||||
MIRT531294 | WNT7A | Wnt family member 7A | 2 | 2 | ||||||||
MIRT531870 | POF1B | premature ovarian failure, 1B | 2 | 2 | ||||||||
MIRT532116 | G6PC | glucose-6-phosphatase catalytic subunit | 2 | 2 | ||||||||
MIRT533534 | TPR | translocated promoter region, nuclear basket protein | 2 | 2 | ||||||||
MIRT545934 | ZBTB44 | zinc finger and BTB domain containing 44 | 2 | 4 | ||||||||
MIRT546649 | RPS6KA5 | ribosomal protein S6 kinase A5 | 2 | 2 | ||||||||
MIRT548063 | GNS | glucosamine (N-acetyl)-6-sulfatase | 2 | 2 | ||||||||
MIRT548288 | FAM3C | family with sequence similarity 3 member C | 2 | 4 | ||||||||
MIRT551018 | SPPL3 | signal peptide peptidase like 3 | 2 | 2 | ||||||||
MIRT551139 | ZNF678 | zinc finger protein 678 | 2 | 2 | ||||||||
MIRT552398 | ZNF487P | zinc finger protein 487 | 1 | 1 | ||||||||
MIRT555640 | PHIP | pleckstrin homology domain interacting protein | 2 | 4 | ||||||||
MIRT556267 | MAPK6 | mitogen-activated protein kinase 6 | 2 | 2 | ||||||||
MIRT558864 | CD2AP | CD2 associated protein | 2 | 2 | ||||||||
MIRT559239 | BEND4 | BEN domain containing 4 | 2 | 2 | ||||||||
MIRT559438 | ARSJ | arylsulfatase family member J | 2 | 2 | ||||||||
MIRT559793 | ZNF415 | zinc finger protein 415 | 2 | 2 | ||||||||
MIRT562572 | CBX6 | chromobox 6 | 2 | 2 | ||||||||
MIRT562741 | ZNF83 | zinc finger protein 83 | 2 | 2 | ||||||||
MIRT564737 | ZNF23 | zinc finger protein 23 | 2 | 2 | ||||||||
MIRT565174 | LINC00598 | long intergenic non-protein coding RNA 598 | 2 | 2 | ||||||||
MIRT566301 | PPM1A | protein phosphatase, Mg2+/Mn2+ dependent 1A | 2 | 2 | ||||||||
MIRT571656 | SERBP1 | SERPINE1 mRNA binding protein 1 | 2 | 2 | ||||||||
MIRT610720 | NAV2 | neuron navigator 2 | 2 | 2 | ||||||||
MIRT611486 | ADCYAP1R1 | ADCYAP receptor type I | 2 | 4 | ||||||||
MIRT617118 | KANK2 | KN motif and ankyrin repeat domains 2 | 2 | 2 | ||||||||
MIRT617836 | SIGLEC10 | sialic acid binding Ig like lectin 10 | 2 | 2 | ||||||||
MIRT636145 | VLDLR | very low density lipoprotein receptor | 2 | 2 | ||||||||
MIRT638060 | YAE1D1 | Yae1 domain containing 1 | 2 | 4 | ||||||||
MIRT640159 | CDK13 | cyclin dependent kinase 13 | 2 | 2 | ||||||||
MIRT644257 | WEE2 | WEE1 homolog 2 | 2 | 2 | ||||||||
MIRT646838 | TLDC1 | TBC/LysM-associated domain containing 1 | 2 | 2 | ||||||||
MIRT653074 | ST8SIA4 | ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 4 | 2 | 2 | ||||||||
MIRT657671 | GPR26 | G protein-coupled receptor 26 | 2 | 2 | ||||||||
MIRT660601 | AP3M2 | adaptor related protein complex 3 mu 2 subunit | 2 | 2 | ||||||||
MIRT668908 | CREB1 | cAMP responsive element binding protein 1 | 2 | 2 | ||||||||
MIRT672685 | GTF2H5 | general transcription factor IIH subunit 5 | 2 | 2 | ||||||||
MIRT680977 | DCAF17 | DDB1 and CUL4 associated factor 17 | 2 | 2 | ||||||||
MIRT682271 | RS1 | retinoschisin 1 | 2 | 2 | ||||||||
MIRT702058 | RNMT | RNA guanine-7 methyltransferase | 2 | 2 | ||||||||
MIRT707786 | UNK | unkempt family zinc finger | 2 | 2 | ||||||||
MIRT709238 | RANGAP1 | Ran GTPase activating protein 1 | 2 | 2 | ||||||||
MIRT710119 | MED23 | mediator complex subunit 23 | 2 | 2 | ||||||||
MIRT710675 | ADAP2 | ArfGAP with dual PH domains 2 | 2 | 2 | ||||||||
MIRT712884 | NIPBL | NIPBL, cohesin loading factor | 2 | 2 | ||||||||
MIRT719015 | HPGD | 15-hydroxyprostaglandin dehydrogenase | 2 | 2 | ||||||||
MIRT723323 | COLEC10 | collectin subfamily member 10 | 2 | 2 | ||||||||
MIRT724947 | TXNL1 | thioredoxin like 1 | 2 | 2 | ||||||||
MIRT725535 | EN2 | engrailed homeobox 2 | 2 | 2 | ||||||||
MIRT734156 | FHL1 | four and a half LIM domains 1 | 3 | 0 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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