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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: RPS17 (NCBI Gene ID:6218)


Gene Summary

check button Gene Summary
Gene InformationGene Name: RPS17
Gene ID: 6218
Gene Symbol

RPS17

Gene ID

6218

Gene Nameribosomal protein S17
SynonymsDBA4|RPS17L|RPS17L1|RPS17L2|S17
Cytomap

15q25.2

Type of Geneprotein-coding
Description40S ribosomal protein S17small ribosomal subunit protein eS17
Modification date20200313
UniProtAcc

P08708


check button Child GO biological process term(s) under GO:0006412
GO IDGO term
GO:0005840Ribosome
GO:0002181Cytoplasmic translation
GO:0006413Translational initiation
GO:0006412Translation


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


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
RPS17(733 - 1119.25]


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Translation Studies in PubMed

check button We searched PubMed using 'RPS17[title] AND translation [title] AND human.'
GeneTitlePMID
RPS17..


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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

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)

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.


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Expression


check buttonGene expression level across TCGA pancancer
all structure

check buttonGene expression level across GTEx pantissue
all structure

check buttonExpression level of gene isoforms across TCGA pancancer
all structure

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
KICHRPS17-9.741281239608140.000556409358978271
HNSCRPS17-1.419324062707920.00608886057921154
KIRCRPS17-1.141060593357711.12651178935203e-06


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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
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)
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
Cancer typeGeneCoefficientPvalue
GBMRPS170.1191156190.029152604
LGGRPS170.0514786360.030179778

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Associated Genes


check button Strongly correlated genes belong to cellular important gene groups with RPS17 (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 geneRPS17SNRPD20.8062702152.33E-11
CHOLCGCRPS17NACA0.8388405116.29E-13
CHOLEpifactorRPS17FBL0.8030696373.20E-11
DLBCCell metabolism geneRPS17FAU0.8016372377.61E-12
DLBCCell metabolism geneRPS17HSCB0.8107053742.88E-12
DLBCCell metabolism geneRPS17SNRPD20.8480593722.81E-14
DLBCCell metabolism geneRPS17TOMM220.8497905542.20E-14
DLBCCell metabolism geneRPS17NME20.851075161.84E-14
DLBCCGCRPS17NACA0.8519444771.62E-14
DLBCEpifactorRPS17FBL0.8211337468.82E-13
DLBCTFRPS17NME20.851075161.84E-14
DLBCTSGRPS17GNB2L10.8789628872.13E-16
GBMTSGRPS17GAS50.8234037271.09E-43
PRADCell metabolism geneRPS17SNRPD20.8047860383.07E-126
PRADCGCRPS17NACA0.8152583454.06E-132
PRADEpifactorRPS17FBL0.8161763051.19E-132
PRADTSGRPS17GAS50.8112931147.54E-130
PRADTSGRPS17GNB2L10.8265124297.23E-139
THYMCell metabolism geneRPS17SNRPD10.8004473291.92E-28
THYMCell metabolism geneRPS17SNRPE0.8014157471.48E-28
THYMCell metabolism geneRPS17PSMC30.8025537061.08E-28
THYMCell metabolism geneRPS17PFDN50.8035287368.31E-29
THYMCell metabolism geneRPS17EBP0.8060468364.16E-29
THYMCell metabolism geneRPS17ITPA0.8086814061.99E-29
THYMCell metabolism geneRPS17SSR20.8091223481.76E-29
THYMCell metabolism geneRPS17PSMB30.8148708893.37E-30
THYMCell metabolism geneRPS17EXOSC50.8163129942.21E-30
THYMCell metabolism geneRPS17PSMB70.82506331.56E-31
THYMCell metabolism geneRPS17TIMM130.8251907791.50E-31
THYMCell metabolism geneRPS17SNRPD30.8275499027.14E-32
THYMCell metabolism geneRPS17POLR2H0.8291861924.25E-32
THYMCell metabolism geneRPS17HMBS0.8321507321.63E-32
THYMCell metabolism geneRPS17FAU0.8390517491.63E-33
THYMCell metabolism geneRPS17SLC27A50.8408733068.74E-34
THYMCell metabolism geneRPS17SNRPD20.849561483.95E-35
THYMCell metabolism geneRPS17TIMM8B0.8534927059.12E-36
THYMEpifactorRPS17NOC2L0.8091492541.74E-29
THYMEpifactorRPS17EXOSC50.8163129942.21E-30
THYMEpifactorRPS17SIRT60.8200201267.31E-31
THYMEpifactorRPS17BRMS10.838799381.78E-33
THYMEpifactorRPS17TAF100.846417841.24E-34
THYMEpifactorRPS17FBL0.8475928758.10E-35
THYMIUPHARRPS17SIRT60.8200201267.31E-31
THYMIUPHARRPS17SLC27A50.8408733068.74E-34
THYMTFRPS17ZNF5110.803682517.97E-29
THYMTFRPS17ZNF7870.8050567175.47E-29
THYMTSGRPS17SIRT60.8200201267.31E-31
THYMTSGRPS17GNB2L10.8338077879.48E-33
THYMTSGRPS17BRMS10.838799381.78E-33
UCSCell metabolism geneRPS17SNRPD10.8004473291.92E-28
UCSCell metabolism geneRPS17SNRPE0.8014157471.48E-28
UCSCell metabolism geneRPS17PSMC30.8025537061.08E-28
UCSCell metabolism geneRPS17PFDN50.8035287368.31E-29
UCSCell metabolism geneRPS17EBP0.8060468364.16E-29
UCSCell metabolism geneRPS17ITPA0.8086814061.99E-29
UCSCell metabolism geneRPS17SSR20.8091223481.76E-29
UCSCell metabolism geneRPS17PSMB30.8148708893.37E-30
UCSCell metabolism geneRPS17EXOSC50.8163129942.21E-30
UCSCell metabolism geneRPS17PSMB70.82506331.56E-31
UCSCell metabolism geneRPS17TIMM130.8251907791.50E-31
UCSCell metabolism geneRPS17SNRPD30.8275499027.14E-32
UCSCell metabolism geneRPS17POLR2H0.8291861924.25E-32
UCSCell metabolism geneRPS17HMBS0.8321507321.63E-32
UCSCell metabolism geneRPS17FAU0.8390517491.63E-33
UCSCell metabolism geneRPS17SLC27A50.8408733068.74E-34
UCSCell metabolism geneRPS17SNRPD20.849561483.95E-35
UCSCell metabolism geneRPS17TIMM8B0.8534927059.12E-36
UCSEpifactorRPS17NOC2L0.8091492541.74E-29
UCSEpifactorRPS17EXOSC50.8163129942.21E-30
UCSEpifactorRPS17SIRT60.8200201267.31E-31
UCSEpifactorRPS17BRMS10.838799381.78E-33
UCSEpifactorRPS17TAF100.846417841.24E-34
UCSEpifactorRPS17FBL0.8475928758.10E-35
UCSIUPHARRPS17SIRT60.8200201267.31E-31
UCSIUPHARRPS17SLC27A50.8408733068.74E-34
UCSTFRPS17ZNF5110.803682517.97E-29
UCSTFRPS17ZNF7870.8050567175.47E-29
UCSTSGRPS17SIRT60.8200201267.31E-31
UCSTSGRPS17GNB2L10.8338077879.48E-33
UCSTSGRPS17BRMS10.838799381.78E-33
UVMCell metabolism geneRPS17SEC11A0.8350698596.13E-22


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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
KIRPRPS17RPL18A-1.516513928088850.00016188295558095
KICHRPS17RPS27A1.753966937859560.000187873840332031
KIRPRPS17RPS16-1.359570436175170.00019507110118866
COADRPS17RPS31.487303751430140.000411599874496461
KIRPRPS17RPS11-1.018615705651030.00105937570333481
LIHCRPS17RPL8-4.845882849745580.00110314154326131
PRADRPS17RPL18A1.406001757484990.00205137828390396
KICHRPS17RPL191.369011828940890.00250792503356934
KICHRPS17RPS121.269973817584310.00308787822723389
LUADRPS17RPL19-1.313980266157250.00993159558412698
THCARPS17RPS16-6.163227981565770.0115764821363307
BLCARPS17RPS12-1.478046734404210.0204124450683594
BLCARPS17RPS27A-1.047474700691880.0258216857910156
HNSCRPS17RPS3-4.735058190951350.0273726439852453
COADRPS17RPS111.353075489982040.0312207043170929
LUSCRPS17RPL19-2.146698895166660.044366810398747
KIRCRPS17RPL19-2.734852712766761.33980982873695e-10
BRCARPS17RPS12-4.912393274782441.85340619742495e-09
KIRPRPS17RPL37-1.174216219471392.26888805627823e-05
KIRCRPS17RPL35-1.064752380593922.72286325678163e-08
KIRCRPS17RPL8-1.182524599717735.64962994208288e-07
KIRPRPS17RPL8-1.530036923501196.0301274061203e-05
KIRCRPS17RPS16-1.661498698893847.8509870430991e-09
BRCARPS17RPS27A-4.285121482004247.8788217967112e-14
KIRCRPS17RPL37-2.871988220584648.03913394748564e-12
KIRPRPS17RPL35-1.529811019754969.0546440333128e-05
KIRCRPS17RPS3-1.295608479263879.05905681935088e-10
KIRCRPS17RPL18A-4.430793049608439.2516163152192e-11


check button Protein-protein interactors with this translation factor (BIOGRID-3.4.160)
PPI interactors with RPS17
CACNA1A, EBNA-LP, VHL, RAD21, ARRB1, ARRB2, CUL3, CDK2, CUL1, COPS5, CAND1, RPS4X, RPL14, RPL19, RPL21, RPL24, RPL27, RPL31, RPL37A, RPL6, RPLP2, RPS24, RPSA, RPS23, RPS16, RPL10, RPS2, RPS15A, RPL5, RPS26, RPL9, RPL12, RPS28, RPL23, RPL4, RPLP1, RPS9, RPL22, RPS15, RPS8, RPS7, RPS3A, RPS25, RPS3, RPL8, RPS13, RPL18, RPS6, RPS21, FAU, RPS29, ILF3, RBM28, RPLP0P6, SMURF1, FN1, VCAM1, NOS2, UBL4A, ITGA4, UL122, PAN2, TARDBP, RPS11, RPS10, RPS19, RPS20, rev, CDC37L1, NUDC, CEP250, CEP57, CEP76, TP53, TUBG1, TUBGCP3, HUWE1, RNF2, WDR76, FRMD5, RPS6KB2, RPL23A, RPLP0, LOC101929876, PTEN, XPO1, HIST1H3E, HNRNPU, NPM1, CKAP5, Cbx1, Ktn1, Rpl35, Srp72, Rrbp1, CRY2, MCM2, RC3H1, CDC73, ZNF746, HIST1H1E, RRS1, BHLHA15, NCL, CYLD, FOXA1, TRIM25, HEY1, HDAC6, TMPO, CTNNB1, HDAC4, YAF2, PRPF8, EFTUD2, AAR2, PIH1D1, RPTOR, CHD3, CHD4, LARP7, RNF31, TNF, CDC34, RIOK1, HEXIM1, MEPCE, RECQL4, REST, MYC, CDK9, Prkab1, GRWD1, KIAA1429, EIF4B, RC3H2, ZBTB7A, PHB, RBX1, PPP1CC, VRK1, VRK3, HIST1H4A, SNRNP70, DUSP15, DUSP5, MTMR2, PTP4A3, PTPN3, PTPN6, ITFG1, HMGB1, BIRC3, NFX1, ORF9b, SOX2, TRIM28, CMTR1, ARIH2, PLEKHA4, YAP1, TFCP2, FANCD2, HCVgp1, ZC3H18, ESR1, NEK4, DUX4, CIT, ANLN, AURKB, CHMP4B, CHMP4C, ECT2, KIF14, KIF20A, KIF23, PRC1, LRRC59, INS, BRD4, NUPR1, CIC, N, Apc2, RBM39, ASXL1, BAG5, UFL1, DDRGK1, ATG3, FZR1, ZBTB2, SRSF5, HIST1H1C, KRR1, HIST1H1B, HIST2H2AC, LIN28A, YBX2, HIST1H2AM, RPSAP58, FGF13, HIST1H1D, S100P, HIST1H2AE, SURF6, RPL35, ZNF346, SRSF6, HIST1H1A, NEIL1, SPRTN, BTF3, FBXW7, RCHY1, SQSTM1, PSMD9, Paxip1, PAGR1, Wdr82, KLF15, KLF16, KLF5, KLF8, SOX5, SOX6,


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Mutations


check button Clinically associated variants from ClinVar.
GeneChrPositionRefSeqVarSeqRefSeeqVarTypePathogenicDiseaseVarInfo
RPS17chr1582821296CTsingle_nucleotide_variantLikely_benignnot_providedSO:0001627|intron_variantSO:0001627|intron_variant
RPS17chr1582822729TCsingle_nucleotide_variantLikely_benignnot_providedSO:0001619|non-coding_transcript_variant,SO:0001819|synonymous_variantSO:0001619|non-coding_transcript_variant,SO:0001819|synonymous_variant
RPS17chr1582823346CCTCMicrosatellitePathogenicDiamond-Blackfan_anemia_4SO:0001589|frameshift_variant,SO:0001619|non-coding_transcript_variantSO:0001589|frameshift_variant,SO:0001619|non-coding_transcript_variant
RPS17chr1582823390ACsingle_nucleotide_variantPathogenicDiamond-Blackfan_anemia_4SO:0001587|nonsense,SO:0001619|non-coding_transcript_variantSO:0001587|nonsense,SO:0001619|non-coding_transcript_variant
RPS17chr1582823390AGsingle_nucleotide_variantUncertain_significancenot_specifiedSO:0001619|non-coding_transcript_variant,SO:0001819|synonymous_variantSO:0001619|non-coding_transcript_variant,SO:0001819|synonymous_variant
RPS17chr1582824389CCTGCDeletionUncertain_significancenot_providedSO:0001619|non-coding_transcript_variant,SO:0001822|inframe_deletionSO:0001619|non-coding_transcript_variant,SO:0001822|inframe_deletion
RPS17chr1582824702GCsingle_nucleotide_variantBenignnot_providedSO:0001619|non-coding_transcript_variant,SO:0001627|intron_variantSO:0001619|non-coding_transcript_variant,SO:0001627|intron_variant
RPS17chr1582824835ACsingle_nucleotide_variantPathogenicDiamond-Blackfan_anemia_4SO:0001582|initiatior_codon_variant,SO:0001583|missense_variant,SO:0001619|non-coding_transcript_variantSO:0001582|initiatior_codon_variant,SO:0001583|missense_variant,SO:0001619|non-coding_transcript_variant
RPS17chr1582824890ATsingle_nucleotide_variantBenignnot_provided


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


check button SNVs and Indels
GeneCancer typeChromosomeStartEndRefSeeqMutSeqMutation typeAAchange# samples

check buttonCopy number variation (CNV) of RPS17
* 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 RPS17
* 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
101497N/AAA535940C2orf91chr242178588+RPS17chr1583205503+
101497N/ABF244993CAPNS1chr1936640761+RPS17chr1583209190-
101497N/AAI969969CCDC149chr424868413-RPS17chr1583205504+
101497N/AEC559380DNAH12chr357491138-RPS17chr1583208885-
99621N/ABI862080RPS17chr1583205503-ANK3chr1062108102+
96510N/ABE905390RPS17chr1583205504-C11orf80chr1166516340+
82388N/ABF687839RPS17chr1583205509-C20orf196chr205805289-
92661OVTCGA-04-1357-01ARPS17chr1582823333-CD74chr5149792312-
77498N/ACD240141RPS17chr1583205506-CES5AP1chr2223720126+
77498PRADTCGA-KC-A4BNRPS17chr1582822714-CHAF1Bchr2137759896+
77498PRADTCGA-KC-A4BN-01ARPS17chr1583207057-CHAF1Bchr2137759896+
102842N/AAA527955RPS17chr1583205503-DAB1chr158573140+
86779N/ABM015885RPS17chr1583205503-KLHL28chr1445406361-
87220N/ABG032138RPS17chr1583205504-MAP7chr6136724043+
77498N/ACB219922RPS17chr1583207104-PTPN7chr1202116297+
101497N/AAX340711RPS17chr1583205570-RPS17chr1583208799-
91964N/ABI856351RPS17chr1583205506-SNX29chr1612566388+
101916OVTCGA-25-1313-01ARPS17chr1582823337-SPP1chr488896865+
101916OVTCGA-61-2000-01ARPS17chr1582823332-SPP1chr488896869+
101916OVTCGA-61-2109-01ARPS17chr1582823336-SPP1chr488896865+
102816N/AAX341364RPS17chr1583208882+SPTBN1chr254896741-
101110N/ABG034564RPS17chr1583205506-YPEL1chr2222078879-
77498N/AAA506679RPS17chr1583205512-ZNF141chr4336753-
77498N/ABC022370RPS17chr1583205509-ZNF141chr4336753-
77498N/ABG032122RPS17chr1583205504-ZNF141chr4336753-
77498N/ACN446909RPS17chr1583205503-ZNF141chr4336753-
101497Non-CancerTCGA-IN-8462-11ASEC11Achr1585259256-RPS17chr1582824540-
101497N/AAA533301TYRO3chr1541857799+RPS17chr1583205506+
101497N/AAA858143XKR6chr811025410-RPS17chr1583205506+
101501N/AAA229106ZNF141chr4336753+RPS17chr1583205506+
101501N/AAA513246ZNF141chr4336753+RPS17chr1583205504+
101501N/AAA654541ZNF141chr4336753+RPS17chr1583205503+
101501N/ABE838490ZNF141chr4336753+RPS17chr1583207056+


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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
KIRCRPS170.0001545808565034540.0043
TGCTRPS170.01253405407934060.34
MESORPS170.02505564214570060.65

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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
STADRPS170.02948864352850430.91
LUSCRPS170.02631482215169040.84
LGGRPS170.0371441879237081
BRCARPS171.26025794953158e-050.00042

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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
C2675860Diamond-Blackfan Anemia 43CTD_human;GENOMICS_ENGLAND
C1260899Anemia, Diamond-Blackfan2CTD_human;GENOMICS_ENGLAND