pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-4316 |
Genomic Coordinates | chr17: 77396984 - 77397054 |
Description | Homo sapiens miR-4316 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-4316 | |||||||||
Sequence | 11| GGUGAGGCUAGCUGGUG |27 | |||||||||
Evidence | Experimental | |||||||||
Experiments | SOLiD | |||||||||
SNPs in miRNA |
|
|||||||||
Putative Targets |
miRNA Expression profile | |
---|---|
Human miRNA Tissue Atlas | |
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | SURF4 | ||||||||||||||||||||
Synonyms | ERV29 | ||||||||||||||||||||
Description | surfeit 4 | ||||||||||||||||||||
Transcript | NM_033161 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SURF4 | |||||||||||||||||||||
3'UTR of SURF4 (miRNA target sites are highlighted) |
>SURF4|NM_033161|3'UTR 1 CAGTCACAGATCCCTACCTGCCTGGCTAAGACCCGTGGCCGTCAAGGACTGGTTCGGGGTGGATTCAACAAAACTGCCAG 81 CTTTTATGTATCCTCTTCCCTTCCCCTCCCTTGGTAAAGGCACAGATGTTTTGAGAACTTTATTTGCAGAGACACCTGAG 161 AATCGATGGCTCAGTCTGCTCTGGAGCCACAGTCTGGCGTCTGACCCTTCAGTGCAGGCCAGCCTGGCAGCTGGAAGCCT 241 CCCCCACGCCGAGGCTTTGGAGTGAACAGCCCGCTTGGCTGTGGCATCTCAGTCCTATTTTTGAGTTTTTTTGTGGGGGT 321 ACAGGAGGGGGCCTTCAAGCTGTACTGTGAGCAGACGCATTGGTATTATCATTCAAAGCAGTCTCCCTCTTATTTGTAAG 401 TTTACATTTTTAGCGGAAACTACTAAATTATTTTGGGTGGTTCAGCCAAACCTCAAAACAGTTAATCTCCCTGGTTTAAA 481 ATCACACCAGTGGCTTTGATGTTGTTTCTGCCCCGCATTGTATTTTATAGGAATAGTGAAAACATTTAGGGACACCCAAA 561 GAATGATGCAGTATTAAAGGGGTGGTAGAAGCTGCTGTTTATGATAAAAGTCATCGGTCAGAAAATCAGCTTGGATTGGT 641 GCCAAGTGTTTTATTGGGTAACACCCTGGGAGTTTTAGTAGCTTGAGGCAAGGTGGAGGGGCAAGAAGTCCTTGGGGAAG 721 CTGCTGGTCTGGGTGCTGCTGGCCTCCAAGCTGGCAGTGGGAAGGGCTAGTGAGACCACACAGGGGTAGCCCCAGCAGCA 801 GCACCCTGCAAGCCAGCCTGGCCAGCTGCTCAGACCAGCTTGCAGAGCCGCAGCCGCTGTGGGCAGGGGGTGTGGCAGGA 881 GCTCCCAGCACTGGAGACCCACGGACTCAACCCAGTTACCTCACATGGGGCCTTTTCTGAGCAAGGTCTCGAAAGCGCAG 961 GCCGCCCTGGCTGAGCAGCACCGCCCTTTCCCAGCTGCACTCGCCCTGTGGACAGCCCCGACACACCACTTTCCTGAGGC 1041 TGTCGCTCACTCAGATTGTCCGTTTGCTATGCCGAATGCAGCCAAAATTCCTTTTTACAATTTGTGATGCCTTACCGATT 1121 TGATCTTAATCCTGTATTTAAAGTTTTCTAACACTGCCTTATACTGTGTTTCTCTTTTTGGGGGAGCTTAACTGCTTGTT 1201 GCTCCCTGTCGTCTGCACCATAGTAAATGCCACAAGGGTAGTCGAACACCTCTCTGGCCCCTAGACCTATCTGGGGACAG 1281 GCTGGCTCAGCCTGTCTCCAGGGCTGCTGCGGCCCAGCCCCGAGCCTGCCTCCCTCTTGGCCTCTCATCCATTGGCTCTG 1361 CAGGGCAGGGGTGAGGCAGGTTTCTGCTCATAAGTGCTTTTGGAAGTCACCTACCTTTTTAACACAGCCGAACTAGTCCC 1441 AACGCGTTTGCAAATATTCCCCTGGTAGCCTACTTCCTTACCCCCGAATATTGGTAAGATCGAGCAATGGCTTCAGGACA 1521 TGGGTTCTCTTCTCCTGTGATCATTCAAGTGCTCACTGCATGAAGACTGGCTTGTCTCAGTGTTTCAACCTCACCAGGGC 1601 TGTCTCTTGGTCCACACCTCGCTCCCTGTTAGTGCCGTATGACAGCCCCCATCAAATGACCTTGGCCAAGTCACGGTTTC 1681 TCTGTGGTCAAGGTTGGTTGGCTGATTGGTGGAAAGTAGGGTGGACCAAAGGAGGCCACGTGAGCAGTCAGCACCAGTTC 1761 TGCACCAGCAGCGCCTCCGTCCTAGTGGGTGTTCCTGTTTCTCCTGGCCCTGGGTGGGCTAGGGCCTGATTCGGGAAGAT 1841 GCCTTTGCAGGGAGGGGAGGATAAGTGGGATCTACCAATTGATTCTGGCAAAACAATTTCTAAGATTTTTTTGCTTTATG 1921 TGGGAAACAGATCTAAATCTCATTTTATGCTGTATTTTATATCTTAGTTGTGTTTGAAAACGTTTTGATTTTTGGAAACA 2001 CATCAAAATAAATAATGGCGTTTGTTGTATGCAGTGTGATCCTAAAAAAAAAAAAAAAAAA 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 | 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 GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
||||||
miRNA-target interactions (Provided by authors) |
|
||||||
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]
|
CLIP-seq Support 1 for dataset GSM4903825 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / PID14_NS |
Location of target site | NM_033161 | 3UTR | AAGCCAGCCUGGCCAGCUGCUCAGACCAGCUUGCAGAGCCGCAGCCGCUGUGGGCAGGGGGUGUGGCAGGAGCUCCCAGCACUGGAGACCCACGGACUCAACCCAGUUACCUCACAUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161237 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM4903833 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_a |
Location of target site | NM_033161 | 3UTR | CCUCACAUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM4903834 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_b |
Location of target site | NM_033161 | 3UTR | CCUCACAUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM4903835 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_c |
Location of target site | NM_033161 | 3UTR | AUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 5 for dataset GSM4903836 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_a |
Location of target site | NM_033161 | 3UTR | AUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 6 for dataset GSM4903837 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_b |
Location of target site | NM_033161 | 3UTR | CAUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 7 for dataset GSM4903838 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_c |
Location of target site | NM_033161 | 3UTR | CUCAACCCAGUUACCUCACAUGGGGCCUUUUCUGAGCAAGGUCUCGAAAGCGCAGGCCGCCCUGGCUGAGCAGCACCGCCCUUUCCCAGCUGCACUCGCCCUGUGGACAGCCCCGACACACCACUUUCCUGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 8 for dataset GSM545216 | |
---|---|
Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / miR-124 transfection |
Location of target site | ENST00000545297.1 | 3UTR | ACUCAACCCAGUUACCUCACAUGGGGCCUUUUCUGAGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
74 hsa-miR-4316 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT080624 | PMAIP1 | phorbol-12-myristate-13-acetate-induced protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT095088 | SEC24A | SEC24 homolog A, COPII coat complex component | ![]() |
![]() |
2 | 4 | ||||||
MIRT123331 | CALU | calumenin | ![]() |
![]() |
2 | 2 | ||||||
MIRT154964 | RRM2 | ribonucleotide reductase regulatory subunit M2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT370850 | TGFBR2 | transforming growth factor beta receptor 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT442955 | SGCD | sarcoglycan delta | ![]() |
![]() |
2 | 2 | ||||||
MIRT448240 | ZNF774 | zinc finger protein 774 | ![]() |
![]() |
2 | 2 | ||||||
MIRT451710 | OLR1 | oxidized low density lipoprotein receptor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT452072 | ATP6V0B | ATPase H+ transporting V0 subunit b | ![]() |
![]() |
2 | 2 | ||||||
MIRT455665 | GLO1 | glyoxalase I | ![]() |
![]() |
2 | 2 | ||||||
MIRT460354 | TXNDC16 | thioredoxin domain containing 16 | ![]() |
![]() |
2 | 2 | ||||||
MIRT461908 | NECAB3 | N-terminal EF-hand calcium binding protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT462047 | HOXC13 | homeobox C13 | ![]() |
![]() |
2 | 2 | ||||||
MIRT462735 | EFNB1 | ephrin B1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT463409 | ZC3HAV1L | zinc finger CCCH-type containing, antiviral 1 like | ![]() |
![]() |
2 | 2 | ||||||
MIRT464952 | TWIST1 | twist family bHLH transcription factor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT465052 | TSR1 | TSR1, ribosome maturation factor | ![]() |
![]() |
2 | 2 | ||||||
MIRT467549 | SMARCD1 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT470226 | PRRC2A | proline rich coiled-coil 2A | ![]() |
![]() |
2 | 2 | ||||||
MIRT474081 | LMBR1L | limb development membrane protein 1 like | ![]() |
![]() |
2 | 2 | ||||||
MIRT474481 | KLHDC8B | kelch domain containing 8B | ![]() |
![]() |
2 | 2 | ||||||
MIRT474704 | KIF3A | kinesin family member 3A | ![]() |
![]() |
2 | 2 | ||||||
MIRT474897 | KCTD21 | potassium channel tetramerization domain containing 21 | ![]() |
![]() |
2 | 2 | ||||||
MIRT475203 | IL2RB | interleukin 2 receptor subunit beta | ![]() |
![]() |
2 | 2 | ||||||
MIRT477664 | EFHD2 | EF-hand domain family member D2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT477775 | E2F3 | E2F transcription factor 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT477940 | DPM2 | dolichyl-phosphate mannosyltransferase subunit 2, regulatory | ![]() |
![]() |
2 | 2 | ||||||
MIRT478224 | DDX52 | DExD-box helicase 52 | ![]() |
![]() |
2 | 2 | ||||||
MIRT479904 | CCDC117 | coiled-coil domain containing 117 | ![]() |
![]() |
2 | 2 | ||||||
MIRT480639 | BSCL2 | BSCL2, seipin lipid droplet biogenesis associated | ![]() |
![]() |
2 | 2 | ||||||
MIRT482435 | ADM | adrenomedullin | ![]() |
![]() |
2 | 10 | ||||||
MIRT483908 | GNB1L | G protein subunit beta 1 like | ![]() |
![]() |
2 | 2 | ||||||
MIRT484161 | FAM71B | family with sequence similarity 71 member B | ![]() |
![]() |
2 | 2 | ||||||
MIRT484405 | SNX19 | sorting nexin 19 | ![]() |
![]() |
2 | 2 | ||||||
MIRT485426 | LASP1 | LIM and SH3 protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT489788 | KRT80 | keratin 80 | ![]() |
![]() |
2 | 4 | ||||||
MIRT490813 | ASB1 | ankyrin repeat and SOCS box containing 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT491176 | LAMA5 | laminin subunit alpha 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT491573 | HSDL1 | hydroxysteroid dehydrogenase like 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT492633 | PLXNA1 | plexin A1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT492984 | NAV1 | neuron navigator 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT496441 | RAB11FIP4 | RAB11 family interacting protein 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT501829 | NCOA3 | nuclear receptor coactivator 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT502165 | KIAA0195 | transmembrane protein 94 | ![]() |
![]() |
2 | 2 | ||||||
MIRT508652 | DIABLO | diablo IAP-binding mitochondrial protein | ![]() |
![]() |
2 | 4 | ||||||
MIRT509554 | ACTG1 | actin gamma 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT520033 | YOD1 | YOD1 deubiquitinase | ![]() |
![]() |
2 | 6 | ||||||
MIRT523969 | DVL3 | dishevelled segment polarity protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT526150 | KIAA1456 | KIAA1456 | ![]() |
![]() |
2 | 2 | ||||||
MIRT530330 | ARHGAP1 | Rho GTPase activating protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT539985 | SLC24A4 | solute carrier family 24 member 4 | ![]() |
![]() |
2 | 4 | ||||||
MIRT540851 | NUP155 | nucleoporin 155 | ![]() |
![]() |
2 | 2 | ||||||
MIRT542326 | LIMD1 | LIM domains containing 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT558908 | CBX5 | chromobox 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT563663 | SMC4 | structural maintenance of chromosomes 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT565433 | SURF4 | surfeit 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT567773 | DGAT2 | diacylglycerol O-acyltransferase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT615573 | NCS1 | neuronal calcium sensor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT627336 | TTLL7 | tubulin tyrosine ligase like 7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT632965 | EIF2S3 | eukaryotic translation initiation factor 2 subunit gamma | ![]() |
![]() |
2 | 2 | ||||||
MIRT634307 | SNTN | sentan, cilia apical structure protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT641569 | RAX | retina and anterior neural fold homeobox | ![]() |
![]() |
2 | 2 | ||||||
MIRT660509 | ARL5A | ADP ribosylation factor like GTPase 5A | ![]() |
![]() |
2 | 2 | ||||||
MIRT662703 | C10orf111 | chromosome 10 open reading frame 111 | ![]() |
![]() |
2 | 4 | ||||||
MIRT663214 | ZNF277 | zinc finger protein 277 | ![]() |
![]() |
2 | 2 | ||||||
MIRT665318 | YIPF4 | Yip1 domain family member 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT695264 | CD209 | CD209 molecule | ![]() |
![]() |
2 | 2 | ||||||
MIRT696231 | LIN9 | lin-9 DREAM MuvB core complex component | ![]() |
![]() |
2 | 2 | ||||||
MIRT698867 | SRPR | SRP receptor alpha subunit | ![]() |
![]() |
2 | 2 | ||||||
MIRT702700 | IPO9 | importin 9 | ![]() |
![]() |
2 | 2 | ||||||
MIRT704236 | DHDDS | dehydrodolichyl diphosphate synthase subunit | ![]() |
![]() |
2 | 2 | ||||||
MIRT704935 | CCDC120 | coiled-coil domain containing 120 | ![]() |
![]() |
2 | 2 | ||||||
MIRT724285 | KCNMB1 | potassium calcium-activated channel subfamily M regulatory beta subunit 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT735579 | VEGFA | vascular endothelial growth factor A | ![]() |
![]() |
![]() |
3 | 0 |
miRNA-Drug Associations | ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|