miRTarBase - #MIRT554741


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pre-miRNA Information
pre-miRNA hsa-mir-4677   
Genomic Coordinates chr1: 243346176 - 243346255
Description Homo sapiens miR-4677 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4677-3p
Sequence 50| UCUGUGAGACCAAAGAACUACU |71
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1481229343 11 dbSNP
rs771267188 18 dbSNP
rs1254655423 20 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol RHOC   
Synonyms ARH9, ARHC, H9, RHOH9
Description ras homolog family member C
Transcript NM_001042678   
Other Transcripts NM_001042679 , NM_175744   
Expression
Putative miRNA Targets on RHOC
3'UTR of RHOC
(miRNA target sites are highlighted)		 
>RHOC|NM_001042678|3'UTR
   1 GATCCCCAAGGCCTTTCCTACATGCCCCCTCCCTTCACAGGGGTACAGAAATTATCCCCCTACAACCCCAGCCTCCTGAG
  81 GGCTCCATGCTGAAGGCTCCCATTTTCAGTTCCCTCCTGCCCAGGACTGCATTGTTTTCTAGCCCCGAGGTGGTGGCACG
 161 GGCCCTCCCTCCCAGCGCTCTGGGAGCCACGCCTATGCCCTGCCCTTCCTCAGGGCCCCTGGGGATCTTGCCCCCTTTGA
 241 CCTTCCCCAAAGGATGGTCACACACCAGCACTTTATACACTTCTGGCTCACAGGAAAGTGTCTGCAGTAGGGGACCCAGA
 321 GTCCCAGGCCCCTGGAGTTGTTTTCGGCAGGGGCCTTGTCTCTCACTGCATTTGGTCAGGGGGGCATGAATAAAGGCTAC
 401 AGGCTCCAACGTGAAAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' ucaucaaGAA-ACCAGAGUGUCu 5'
                 ||| ||| ||||||| 
Target 5' ttatacaCTTCTGG-CTCACAGg 3'
 273 - 294 154.00 -16.30
2 
miRNA  3' ucaucaagaaaccaGAGUGUCu 5'
                        :|||||| 
Target 5' acatgccccctcccTTCACAGg 3'
 20 - 41 124.00 -8.70
3 
miRNA  3' ucaucaaGAAACCAGAGUGUCu 5'
                 |||   |||||| | 
Target 5' caggggcCTTGTCTCTCACTGc 3'
 348 - 369 119.00 -9.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN4892301 18 COSMIC
COSN30125773 58 COSMIC
COSN30140590 77 COSMIC
COSN31492559 83 COSMIC
COSN31491166 92 COSMIC
COSN31522746 96 COSMIC
COSN31546169 146 COSMIC
COSN30540189 260 COSMIC
COSN29468816 261 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs113093065 2 dbSNP
rs1427956507 3 dbSNP
rs1480599776 4 dbSNP
rs116729270 7 dbSNP
rs1443953840 8 dbSNP
rs763859296 9 dbSNP
rs757975795 11 dbSNP
rs868412438 14 dbSNP
rs752324572 18 dbSNP
rs1382244887 20 dbSNP
rs764951682 21 dbSNP
rs1174148638 22 dbSNP
rs558533932 23 dbSNP
rs75601992 25 dbSNP
rs776576925 26 dbSNP
rs1176645269 27 dbSNP
rs766271845 28 dbSNP
rs1016623954 31 dbSNP
rs1195474590 36 dbSNP
rs1233986452 45 dbSNP
rs760792564 46 dbSNP
rs956328993 48 dbSNP
rs773150755 54 dbSNP
rs748324494 56 dbSNP
rs530153735 57 dbSNP
rs768925209 60 dbSNP
rs1201443823 61 dbSNP
rs1059340 63 dbSNP
rs749634907 72 dbSNP
rs1195856901 77 dbSNP
rs780751103 79 dbSNP
rs758874251 83 dbSNP
rs1267632653 89 dbSNP
rs756669632 90 dbSNP
rs1340782251 91 dbSNP
rs746578969 94 dbSNP
rs777150290 95 dbSNP
rs1028500786 96 dbSNP
rs1335770147 97 dbSNP
rs1233051967 99 dbSNP
rs757863771 100 dbSNP
rs1359588192 109 dbSNP
rs752311555 112 dbSNP
rs1361734281 115 dbSNP
rs1421389827 117 dbSNP
rs764899240 118 dbSNP
rs1158399666 121 dbSNP
rs750535130 123 dbSNP
rs1471843006 124 dbSNP
rs997897983 126 dbSNP
rs754807808 128 dbSNP
rs753607543 129 dbSNP
rs1301851009 130 dbSNP
rs869165355 139 dbSNP
rs902053407 143 dbSNP
rs1040549559 146 dbSNP
rs1272585515 147 dbSNP
rs999800238 151 dbSNP
rs902781532 152 dbSNP
rs1043952998 159 dbSNP
rs1318900093 160 dbSNP
rs1305316666 162 dbSNP
rs373863359 162 dbSNP
rs1355572577 165 dbSNP
rs946715433 167 dbSNP
rs916545592 169 dbSNP
rs878927338 170 dbSNP
rs1290948524 174 dbSNP
rs1211131898 175 dbSNP
rs761361568 175 dbSNP
rs1190519939 176 dbSNP
rs939430029 177 dbSNP
rs1436903082 179 dbSNP
rs1059411 180 dbSNP
rs1022939745 182 dbSNP
rs1239230764 184 dbSNP
rs927830778 190 dbSNP
rs1162014947 191 dbSNP
rs561023978 192 dbSNP
rs1391686545 195 dbSNP
rs1385184798 203 dbSNP
rs972521258 205 dbSNP
rs1162071245 208 dbSNP
rs887825672 212 dbSNP
rs1365109249 214 dbSNP
rs543440941 216 dbSNP
rs1450217352 224 dbSNP
rs931128837 230 dbSNP
rs1322305339 232 dbSNP
rs897105769 234 dbSNP
rs1249182216 235 dbSNP
rs909803848 239 dbSNP
rs1338165401 240 dbSNP
rs1198654783 244 dbSNP
rs984022922 245 dbSNP
rs1395660874 249 dbSNP
rs1459664480 265 dbSNP
rs1037339394 269 dbSNP
rs1059479 270 dbSNP
rs1059482 283 dbSNP
rs1255872779 286 dbSNP
rs953847837 288 dbSNP
rs1195460570 292 dbSNP
rs1467047243 293 dbSNP
rs1266780443 295 dbSNP
rs1190210436 298 dbSNP
rs1371790570 304 dbSNP
rs943946061 309 dbSNP
rs1205723224 313 dbSNP
rs1171419734 315 dbSNP
rs1402756285 317 dbSNP
rs912228249 318 dbSNP
rs1059512 319 dbSNP
rs1027992485 322 dbSNP
rs530803333 329 dbSNP
rs565485066 332 dbSNP
rs1379615499 339 dbSNP
rs985108987 345 dbSNP
rs932395328 346 dbSNP
rs1349008698 348 dbSNP
rs997971478 349 dbSNP
rs1218733531 353 dbSNP
rs1279517877 358 dbSNP
rs1321024904 365 dbSNP
rs776061300 365 dbSNP
rs914319620 367 dbSNP
rs1483793206 377 dbSNP
rs1202478429 379 dbSNP
rs965104245 379 dbSNP
rs1232765962 380 dbSNP
rs1425828567 381 dbSNP
rs1031399479 384 dbSNP
rs1175610906 385 dbSNP
rs1359902153 388 dbSNP
rs768415443 389 dbSNP
rs1467420319 402 dbSNP
rs1000114216 403 dbSNP
rs1031905859 404 dbSNP
rs1382288617 405 dbSNP
rs1400502680 410 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 389.0
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ucaucaaGAA-ACCAGAGUGUCu 5'
                 ||| ||| ||||||| 
Target 5' uuauacaCUUCUGG-CUCACAG- 3'
 		16 - 36
Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM4903831
Method / RBP HITS-CLIP / AGO
Cell line / Condition Human neurons / 124TD_shELAVL3_a
Location of target site NM_001042679 | 3UTR | CUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161238
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_175744 | 3UTR | CUCAGGGCCCCUGGGGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
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_175744 | 3UTR | CCCUGGGGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
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_175744 | 3UTR | UGGGGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
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_175744 | 3UTR | GGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
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_175744 | 3UTR | UGGGGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
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_175744 | 3UTR | UGGGGAUCUUGCCCCCUUUGACCUUCCCCAAAGGAUGGUCACACACCAGCACUUUAUACACUUCUGGCUCACAGGAAAGUGUCUGCAGUAGGGGACCCAGAGUCCCAGGCCCCUGGAGUUGUUUUCGGCAGGGGCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000339083.7 | 3UTR | UCACACACCAGCACUUUAUACACUUCUGGCUCACAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
61 hsa-miR-4677-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT277530 HSP90AA1 heat shock protein 90 alpha family class A member 1 2 2
MIRT296646 RPS21 ribosomal protein S21 2 4
MIRT306961 THRB thyroid hormone receptor beta 2 2
MIRT439091 MYC MYC proto-oncogene, bHLH transcription factor 0 1
MIRT443953 LRIT3 leucine rich repeat, Ig-like and transmembrane domains 3 2 2
MIRT445487 KLF12 Kruppel like factor 12 2 2
MIRT446637 SDC3 syndecan 3 2 2
MIRT448594 PCP4L1 Purkinje cell protein 4 like 1 2 2
MIRT449822 FNBP1 formin binding protein 1 2 2
MIRT450422 BCL2L14 BCL2 like 14 2 2
MIRT454907 SEPT8 septin 8 2 17
MIRT466442 TFAM transcription factor A, mitochondrial 2 6
MIRT474198 LEPRE1 prolyl 3-hydroxylase 1 1 1
MIRT474486 KLHDC8B kelch domain containing 8B 2 2
MIRT474900 KCTD21 potassium channel tetramerization domain containing 21 2 2
MIRT477670 EFHD2 EF-hand domain family member D2 2 2
MIRT483912 GNB1L G protein subunit beta 1 like 2 2
MIRT484163 FAM71B family with sequence similarity 71 member B 2 2
MIRT487565 LOXL2 lysyl oxidase like 2 2 2
MIRT489678 CYP1A1 cytochrome P450 family 1 subfamily A member 1 2 2
MIRT491482 APC2 APC2, WNT signaling pathway regulator 2 6
MIRT492745 PER1 period circadian clock 1 2 10
MIRT499212 CHRDL1 chordin like 1 2 4
MIRT501197 SUMO1 small ubiquitin-like modifier 1 2 2
MIRT522622 MAP7D1 MAP7 domain containing 1 2 4
MIRT523971 DVL3 dishevelled segment polarity protein 3 2 2
MIRT541017 WIPI2 WD repeat domain, phosphoinositide interacting 2 2 2
MIRT554741 RHOC ras homolog family member C 2 2
MIRT558910 CBX5 chromobox 5 2 2
MIRT561466 TCEB3 elongin A 2 2
MIRT564039 BIRC5 baculoviral IAP repeat containing 5 2 2
MIRT564508 DUSP3 dual specificity phosphatase 3 2 2
MIRT566854 LRRC58 leucine rich repeat containing 58 2 2
MIRT574110 SPINT2 serine peptidase inhibitor, Kunitz type 2 2 2
MIRT611056 DAB2 DAB2, clathrin adaptor protein 2 2
MIRT615578 NCS1 neuronal calcium sensor 1 2 2
MIRT615742 EIF4EBP1 eukaryotic translation initiation factor 4E binding protein 1 2 2
MIRT626785 IL18RAP interleukin 18 receptor accessory protein 2 2
MIRT627338 TTLL7 tubulin tyrosine ligase like 7 2 2
MIRT629039 KLLN killin, p53-regulated DNA replication inhibitor 2 2
MIRT637643 RASGRP1 RAS guanyl releasing protein 1 2 2
MIRT641769 ZNF207 zinc finger protein 207 2 2
MIRT645719 PTPRF protein tyrosine phosphatase, receptor type F 2 2
MIRT652155 TRIM71 tripartite motif containing 71 2 2
MIRT659216 CXXC5 CXXC finger protein 5 2 2
MIRT661995 EFTUD2 elongation factor Tu GTP binding domain containing 2 2 2
MIRT662711 C10orf111 chromosome 10 open reading frame 111 2 4
MIRT663216 ZNF277 zinc finger protein 277 2 2
MIRT668715 DIP2C disco interacting protein 2 homolog C 2 2
MIRT675132 FSD2 fibronectin type III and SPRY domain containing 2 2 2
MIRT686180 ZNHIT6 zinc finger HIT-type containing 6 2 2
MIRT695993 SNX19 sorting nexin 19 2 2
MIRT702346 KLHL7 kelch like family member 7 2 2
MIRT702702 IPO9 importin 9 2 2
MIRT708232 PPP1R26 protein phosphatase 1 regulatory subunit 26 2 2
MIRT713311 SNRNP25 small nuclear ribonucleoprotein U11/U12 subunit 25 2 2
MIRT713528 PAFAH2 platelet activating factor acetylhydrolase 2 2 2
MIRT714651 FSTL1 follistatin like 1 2 2
MIRT715549 FPGS folylpolyglutamate synthase 2 2
MIRT724289 KCNMB1 potassium calcium-activated channel subfamily M regulatory beta subunit 1 2 2
MIRT724433 TFCP2L1 transcription factor CP2 like 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-4677 Doxorubicin 31703 NSC123127 approved resistant High Triple-Negative Breast Cancer cell line (MDA-MB-231, MDA-MB-468)
hsa-mir-4677 Ceritinib 57379345 NSC776422 approved resistant High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-mir-4677 Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)
hsa-miR-4677-3p Ceritinib 57379345 NSC776422 approved resistant High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-miR-4677-3p Etoposide 36462 NSC141540 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-4677-3p Doxorubicin 31703 NSC123127 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-4677-3p Vinorelbine 44424639 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-4677-3p Vincristine 5978 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-4677-3p Paclitaxel 36314 NSC125973 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-4677-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4677-3p Prednisone/Azathioprine/Methotrexate/Cyclophosphamide/Mycophenolate mofetil resistant tissue (myasthenia gravis)
hsa-miR-4677-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-4677-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)
hsa-miR-4677-3p Ceritinib 57379345 NSC776422 approved resistant cell line (H3122)

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