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Center for Computational Systems Medicine
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Gene Summary

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Translation studies in PubMed

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Exon Skipping Events

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Expression

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Expression Regulation

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Associated Genes

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Protein 3D Structure

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Protein-Protein Interaction

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Mutations

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Prognostic Analysis

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Gender Association

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Age Association

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Related Drugs

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Related Diseases

Translation Factor: RPL10A (NCBI Gene ID:4736)


Gene Summary

check button Gene Summary
Gene InformationGene Name: RPL10A
Gene ID: 4736
Gene Symbol

RPL10A

Gene ID

4736

Gene Nameribosomal protein L10a
SynonymsCSA19|Csa-19|L10A|NEDD6
Cytomap

6p21.31

Type of Geneprotein-coding
Description60S ribosomal protein L10aNEDD-6large ribosomal subunit protein uL1neural precursor cell expressed developmentally down-regulated protein 6
Modification date20200320
UniProtAcc

P62906


check button Child GO biological process term(s) under GO:0006412
GO IDGO term
GO:0005840Ribosome
GO:0002181Cytoplasmic translation
GO:0006412Translation


check button Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneRPL10A

GO:0002181

cytoplasmic translation

25957688



check button Inferred gene age of translation factor.
GeneInferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25
RPL10A>1119.25


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Translation Studies in PubMed

check button We searched PubMed using 'RPL10A[title] AND translation [title] AND human.'
GeneTitlePMID
RPL10A..


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Exon Skipping Events

check buttonSkipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.
all structure

check button Open reading frame (ORF) analsis of exon skipping events based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ENSTExon skip start (DNA)Exon Skip end (DNA)ORF
ENST000003222033543672335436804In-frame
ENST000003222033543715735437306Frame-shift
ENST000003222033543795535438128Frame-shift

check button Exon skipping position in the amino acid sequence.
ENSTExon skip start (DNA)Exon Skip end (DNA)Len(transcript seq)Exon skip start (mRNA)Exon Skip end (mRNA)Len(amino acid seq)Exon skip start (AA)Exon Skip end (AA)
ENST0000032220335436723354368047331081882172753

check button Potentially (partially) lost protein functional features of UniProt.
UniProtAccExon skip start (AA)Exon Skip end (AA)Function feature start (AA)Function feature end (AA)Functional feature typeFunctional feature desc.
P6290627532217ChainID=PRO_0000125818;Note=60S ribosomal protein L10a


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Expression


check buttonGene expression level across TCGA pancancer
all structure

check buttonGene expression level across GTEx pantissue
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check buttonExpression level of gene isoforms across TCGA pancancer
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check buttonExpression level of gene isoforms across GTEx pantissue
all structure

check buttonCancer(tissue) type-specific expression level of Translation factor using z-score distriution
all structure

check buttonDifferential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)
all structure
Cancer typeTranslation factorFCadj.pval
BLCARPL10A-6.446578051406520.000164031982421875
KICHRPL10A1.571077903720510.0124664902687073
KIRCRPL10A-2.34550280902265.61779186490163e-09


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Expression Regulation


check buttonTranslation factor expression regulation through miRNA binding
Cancer typeGenemiRNATargetScan binding score (Context++ score percentile)CoefficientPvalue


check buttonTranslation factor expression regulation through methylation in the promoter of Translation factor
all structure
Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a

check buttonTranslation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)
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Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a

check buttonTranslation factor expression regulation through copy number variation of Translation factor
all structure
Cancer typeGeneCoefficientPvalue

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Associated Genes


check button Strongly correlated genes belong to cellular important gene groups with RPL10A (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)
all structure
Cancer typeGene groupTranslation factorCorrelated geneCoefficientPvalue
CHOLCell metabolism geneRPL10AIMPDH20.8346892141.04E-12
CHOLCGCRPL10ANACA0.8385375166.53E-13
CHOLIUPHARRPL10AIMPDH20.8346892141.04E-12
CHOLTSGRPL10AGAS50.8186720076.41E-12
DLBCCell metabolism geneRPL10ATOMM220.8003868488.66E-12
DLBCCell metabolism geneRPL10ASNRPD20.8272975264.23E-13
DLBCCell metabolism geneRPL10AGEMIN70.8247878475.72E-13
DLBCCell metabolism geneRPL10ANME20.820720889.26E-13
DLBCCGCRPL10ANACA0.836275941.37E-13
DLBCEpifactorRPL10AFBL0.843423945.33E-14
DLBCTFRPL10AZNF5810.8009467938.17E-12
DLBCTFRPL10ANME20.820720889.26E-13
DLBCTSGRPL10AGLTSCR20.8210706798.89E-13
DLBCTSGRPL10AGNB2L10.9221028061.36E-20
GBMCell metabolism geneRPL10ASSR20.8188895097.59E-43
GBMCell metabolism geneRPL10ACCT40.8083710295.70E-41
GBMCell metabolism geneRPL10APFDN50.8107048452.24E-41
GBMTSGRPL10AGAS50.812483211.09E-41
LAMLTSGRPL10AGNB2L10.8347225873.59E-46
LAMLTSGRPL10AGAS50.8017742844.46E-40
MESOTSGRPL10AGNB2L10.8414406271.93E-24
PRADEpifactorRPL10AFBL0.8130813727.26E-131
PRADTSGRPL10AGNB2L10.8282125886.26E-140
THYMEpifactorRPL10AFBL0.802836181.00E-28
UCSEpifactorRPL10AFBL0.802836181.00E-28
UVMCell metabolism geneRPL10ALTA4H0.8445378967.39E-23
UVMIUPHARRPL10ALTA4H0.8445378967.39E-23
UVMTSGRPL10AST130.847325483.86E-23


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Protein structure


check button Protein 3D structure
Visit iCn3D.


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Protein-Protein Interaction


check button Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure

check buttonOverlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure
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* Edge colors based on TCGA cancer types.

check button* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))
all structure
Cancer typeTranslation factorInteracting protein coding geneFCadj.pval
KIRPRPL10ARPL18A-1.516513928088850.00016188295558095
KICHRPL10ARPS27A1.753966937859560.000187873840332031
KIRPRPL10ARPS16-1.359570436175170.00019507110118866
COADRPL10ARPS31.487303751430140.000411599874496461
KIRPRPL10ARPS11-1.018615705651030.00105937570333481
LIHCRPL10ARPL8-4.845882849745580.00110314154326131
PRADRPL10ARPL18A1.406001757484990.00205137828390396
KICHRPL10ARPL191.369011828940890.00250792503356934
KICHRPL10ARPS121.269973817584310.00308787822723389
LUADRPL10ARPL19-1.313980266157250.00993159558412698
THCARPL10ARPS16-6.163227981565770.0115764821363307
BLCARPL10ARPS12-1.478046734404210.0204124450683594
BLCARPL10ARPS27A-1.047474700691880.0258216857910156
HNSCRPL10ARPS3-4.735058190951350.0273726439852453
COADRPL10ARPS111.353075489982040.0312207043170929
LUSCRPL10ARPL19-2.146698895166660.044366810398747
KIRCRPL10ARPL19-2.734852712766761.33980982873695e-10
BRCARPL10ARPS12-4.912393274782441.85340619742495e-09
KIRPRPL10ARPL37-1.174216219471392.26888805627823e-05
KIRCRPL10ARPL35-1.064752380593922.72286325678163e-08
KIRCRPL10ARPL8-1.182524599717735.64962994208288e-07
KIRPRPL10ARPL8-1.530036923501196.0301274061203e-05
KIRCRPL10ARPS16-1.661498698893847.8509870430991e-09
BRCARPL10ARPS27A-4.285121482004247.8788217967112e-14
KIRCRPL10ARPL37-2.871988220584648.03913394748564e-12
KIRPRPL10ARPL35-1.529811019754969.0546440333128e-05
KIRCRPL10ARPS3-1.295608479263879.05905681935088e-10
KIRCRPL10ARPL18A-4.430793049608439.2516163152192e-11


check button Protein-protein interactors with this translation factor (BIOGRID-3.4.160)
PPI interactors with RPL10A
RRP1B, Rrp1b, CDK5RAP3, DCC, HDAC5, NOP56, VHL, SIRT7, CUL3, CUL4A, CUL5, CDK2, CUL1, COPS5, CAND1, RPL21, RPL6, RPL7A, RPS3A, RPS3, RPS9, RPL4, RPL7, RPLP0, RPL11, RPL12, RPL13, RPL14, RPL15, RPL17, RPL18A, RPL18, RPL19, RPL23, RPL24, RPL30, RPL31, RPL37A, RPL3, RPL5, RPL8, RPL9, RPS11, RPS13, RPS15A, RPS16, RPS20, RPS23, RPS24, RPS25, RPS28, RPS2, RPS4X, RPS5, RPS6, RPS8, RPSA, RPL23A, RPS26, RPS12, RPS19, RPL22, RPL32, RPS21, RPS27A, RPL29, EEF1A1, EEF2, SLC25A5, ILF2, NAP1L1, HNRNPM, ILF3, ACTA2, HSP90AB1, RPS27L, RPL10L, RPLP0P6, RAD18, S100A10, SLC25A6, PSMB1, ESR1, FN1, VCAM1, UBL4A, ITGA4, PAN2, SRPR, ACTB, YWHAQ, TARDBP, CEP250, TP53, TUBG1, HUWE1, RGS17, CUL7, OBSL1, CCDC8, RNF2, HIST1H1A, DDX27, HIST2H2BF, RPL26L1, URB1, NOL8, NPM1, GTPBP4, WDR89, RPL36AL, NOP2, FYTTD1, MDM2, GZF1, ZCCHC7, DHX8, ZC3H3, PRR11, ZNF707, ZRSR2, BRIX1, MRTO4, PABPC1, POLR1A, RNPS1, RPL10, RPL13A, RPL27, RPL27A, RPL34, RPL35, RPL35A, RPL36, RPL38, RPLP1, RPLP2, RPS10, RPS14, RPS18, LOC101929876, RPS27, RPS7, SSR3, TUBB4B, NTRK1, PTEN, XPO1, HNRNPU, TFG, CENPQ, CENPU, Eif3a, Eif3e, Srp72, Rrbp1, MCM2, ZNF746, CNBP, SART3, MAGEB10, ZC3HAV1, PRDM5, RBM34, HIST1H1E, GLTSCR2, MECP2, RRS1, KIAA0020, KNOP1, RBM4B, GPATCH4, DGCR8, WDR46, U2AF2, HIST1H1T, RRP8, CYLD, COX15, DLD, HSD17B10, PDHA1, TRIM25, UBE2A, BRCA1, YAP1, MTF1, CFTR, TMPO, PPP1CC, CTNNB1, DIMT1, JUP, TRIP4, PRPF8, EFTUD2, AAR2, PIH1D1, TNIP2, CHD3, RNF4, CHD4, LARP7, TNF, RIOK1, HEXIM1, MEPCE, PPT1, AGR2, RECQL4, DCPS, RNF144A, REST, MYC, CDK9, Prkaa1, Prkab1, RPS6KB2, FBL, HIST1H3A, GRWD1, RC3H1, RC3H2, ACTC1, PHB, RBX1, NR2C2, UCHL3, PPARG, EIF5A, VRK1, VRK3, HIST1H4A, DYRK1A, SNRNP70, PTPN6, ITFG1, ARAF, HMGB1, BIRC3, STAU1, NFX1, WWP2, BRD7, MATR3, Dnajc17, APP, CMTR1, ARIH2, PLEKHA4, TFCP2, FANCD2, HCVgp1, ZC3H18, MAP3K14, NCK1, RRBP1, CASQ2, SCN4A, MAP9, SPEN, PCDH11X, COL23A1, PIK3R6, LOC728637, SNIP1, M, nsp4, nsp6, NEK4, DUX4, CIT, ANLN, AURKB, CHMP4B, CHMP4C, ECT2, KIF14, KIF20A, KIF23, PRC1, GRSF1, MKI67, LDLR, LRRC59, BRD4, Apc2, RBM39, FBP1, IFI16, BKRF1, USP15, DNAJC1, DNAJC25, DNAJC2, DRG1, DNAJC9, SETD8, OGT, DDRGK1, SPOP, PARK2, UFL1, TRIM37, HTRA4, FZR1, WDR5, PAGE4, NAA40, SRSF5, REXO4, ADARB1, HIST1H1B, MYBBP1A, ZNF48, CCDC140, GLYR1, HERC5, C8orf33, MAP7D1, NEIL1, PAK1IP1, RPF1, SRPK2, SRSF6, YTHDC2, RPS4Y1, MAGEB2, DDX10, DDX54, LYAR, ZNF668, PRKRA, ZNF346, DDX51, ZNF800, BUD13, TSPYL1, LIN28A, PPAN-P2RY11, FAM111A, PBRM1, CCDC137, DDX18, GTPBP10, FTSJ3, NCL, NIFK, NOC3L, TAF1C, DDX24, NOC2L, ZNF512, NPM3, NIP7, DDX50, ZNF524, STAU2, DDX31, SREK1, TAF1B, SPATS2L, ZNF574, ZCCHC6, NSA2, ZNF770, SURF6, XRN1, TTF1, RSBN1, ABT1, SPRTN, BTF3, FBXW7, Nudt21, RCHY1, CCNF, N, SIRT6, RB1CC1, KLF4,


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Mutations


check button Clinically associated variants from ClinVar.
GeneChrPositionRefSeqVarSeqRefSeeqVarTypePathogenicDiseaseVarInfo


check button nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.
all structure


check button SNVs and Indels
GeneCancer typeChromosomeStartEndRefSeeqMutSeqMutation typeAAchange# samples

check buttonCopy number variation (CNV) of RPL10A
* Click on the image to open the original image in a new window.
all structure

check buttonFusion gene breakpoints (product of the structural variants (SVs)) across RPL10A
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


check button Fusion genes with this translation factor from FusionGDB2.0.
FusionGDB2 IDDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
88140N/ABE673489AC091042.1chr1865042372-RPL10Achr635438557-
88140N/AEC545315AC091042.1chr1865042528+RPL10Achr635438430+
75760N/ABI859991RPL10Achr635438557+AC091042.1chr1865042372+
88732N/ABI857658RPL10Achr635438557+DIAPH2chrX96204684+
82588N/ADA314410RPL10Achr635436754+DPP9chr194723759-
75760OVTCGA-13-0760-01ARPL10Achr635438128+FANCEchr635430566+
75760N/AAI201829RPL10Achr635438102-ITGB5chr3124482531+
94335N/ABG034060RPL10Achr635438558+PTPRGchr361728136-
94335N/ABI497110RPL10Achr635438556+PTPRGchr361728473-
94335N/ABI860452RPL10Achr635438556+PTPRGchr361728754-
94335N/ABM015176RPL10Achr635438557+PTPRGchr361728122-
94335N/AEC563709RPL10Achr635438557+PTPRGchr361728145-
88140N/AAA491868RPL10Achr635438467+RPL10Achr635438557-
88140N/AAA730358RPL10Achr635438557+RPL10Achr635438467-
91953HNSCTCGA-D6-A6ESRPL10Achr635438511+S100A8chr1153363022-
88141Non-CancerERR315358SUPT3Hchr645332938-RPL10Achr635436576+


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Prognostic Analysis


check button Kaplan-Meier plots with logrank tests of overall survival (OS)
all structure
Cancer typeTranslation factorCoefficentHazard ratioWald test pvalLikelihool ratio pvalLogrank test pval# samples


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Translation factor and Gender


check button Differential gene expression between female and male. (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
KIRCRPL10A0.0002042416129555410.0057
BRCARPL10A0.02717926585215270.73
MESORPL10A0.02964461603719350.77

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Translation factor and Age


check button Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
TGCTRPL10A0.01563361478785020.48
LGGRPL10A0.01486824255516360.48
BRCARPL10A0.002543480929046860.084
PAADRPL10A0.04279070963465631

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Related Drugs


check button Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)
UniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases


check button Diseases associated with this translation factor.
(DisGeNet 4.0)
Disease IDDisease Name# PubMedsDisease source
C0152013Adenocarcinoma of lung (disorder)1CTD_human