RPS9 ribosomal protein S9 [Homo sapiens (human)] - Gene

Summary

Official Symbol: RPS9provided by HGNC
Official Full Name: ribosomal protein S9provided by HGNC
Primary source: HGNC:HGNC:10442
See related: Ensembl:ENSG00000170889 MIM:603631; AllianceGenome:HGNC:10442
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: S9; uS4
Summary: Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S4P family of ribosomal proteins. It is located in the cytoplasm. Variable expression of this gene in colorectal cancers compared to adjacent normal tissues has been observed, although no correlation between the level of expression and the severity of the disease has been found. As is typical for genes encoding ribosomal proteins, multiple processed pseudogenes derived from this gene are dispersed through the genome. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in ovary (RPKM 603.9), bone marrow (RPKM 379.2) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19q13.42

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (54200858..54207647)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (57281246..57288035)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (54704726..54711515)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

LAPTM4B promotes AML progression through regulating RPS9/STAT3 axis.
Title: LAPTM4B promotes AML progression through regulating RPS9/STAT3 axis.
LncRNA BRCAT54 inhibits the tumorigenesis of non-small cell lung cancer by binding to RPS9 to transcriptionally regulate JAK-STAT and calcium pathway genes.
Title: LncRNA BRCAT54 inhibits the tumorigenesis of non-small cell lung cancer by binding to RPS9 to transcriptionally regulate JAK-STAT and calcium pathway genes.
Inhibition of RPS9 can promote apoptosis, cell cycle arrest, and proliferation of myeloma cells. RPS9 can affect the activation of NF-kappaB pathway and cell apoptosis through SENP1
Title: [Ribosomal Protein S9 Expression in Multiple Myeloma and Its Effect on Cell Biological Function].
RPS9/LILRB3 (rs11666543) was associated with Takayasu arteritis.
Title: Identification of Susceptibility Loci in IL6, RPS9/LILRB3, and an Intergenic Locus on Chromosome 21q22 in Takayasu Arteritis in a Genome-Wide Association Study.
Evaluating different RPS9 fragments for their ability to bind NPM1 indicated that there are two binding sites for NPM1 on RPS9.
Title: Elucidation of motifs in ribosomal protein S9 that mediate its nucleolar localization and binding to NPM1/nucleophosmin.
ribosomal protein S9 silencing elicits a multitude of cellular responses inhibiting the growth of cancer cells subsequent to p53 activation
Title: Silencing of ribosomal protein S9 elicits a multitude of cellular responses inhibiting the growth of cancer cells subsequent to p53 activation.
Observational study of gene-disease association. (HuGE Navigator)
Title: Sequential use of transcriptional profiling, expression quantitative trait mapping, and gene association implicates MMP20 in human kidney aging.
B23 selectively stores, and protects ribosomal protein S9 in nucleoli and therefore could facilitate ribosome biogenesis.
Title: Ribosomal protein S9 is a novel B23/NPM-binding protein required for normal cell proliferation.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Envelope surface glycoprotein gp120	env	Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S9 (RPS9), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Gag-Pol	gag-pol	Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S9 (RPS9), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Nef	nef	Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S9 (RPS9), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed
Pr55(Gag)	gag	Tandem affinity purification and mass spectrometry analysis identify ribosomal protein S9 (RPS9), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells	PubMed

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ECD23168 (e-PCR)
- UniSTS:304152

stSG605908 (e-PCR)
- UniSTS:448032

ECD13419 (e-PCR)
- UniSTS:294449

RP_S9 (e-PCR)
- UniSTS:16182

ECD13943 (e-PCR)
- UniSTS:294968

ECD03144 (e-PCR)
- UniSTS:284231

MARC_4557-4558:966894548:1 (e-PCR)
- UniSTS:269391

ECD19623 (e-PCR)
- UniSTS:300628

GDB:314949 (e-PCR)
- UniSTS:156503

ECD09100 (e-PCR)
- UniSTS:290146

ECD16557 (e-PCR)
- UniSTS:297572

REN92078 (e-PCR)
- UniSTS:416876

REN92079 (e-PCR)
- UniSTS:416877

REN92080 (e-PCR)
- UniSTS:416878

REN92081 (e-PCR)
- UniSTS:416879

REN92082 (e-PCR)
- UniSTS:416880

REN92083 (e-PCR)
- UniSTS:416881

REN92084 (e-PCR)
- UniSTS:416882

REN92086 (e-PCR)
- UniSTS:416884

ECD20947 (e-PCR)
- UniSTS:301945

ECD08372 (e-PCR)
- UniSTS:289420

ECD14060 (e-PCR)
- UniSTS:295085

ECD21792 (e-PCR)
- UniSTS:302784

REN91916 (e-PCR)
- UniSTS:416714

REN91917 (e-PCR)
- UniSTS:416715

REN91918 (e-PCR)
- UniSTS:416716

REN91919 (e-PCR)
- UniSTS:416717

REN91920 (e-PCR)
- UniSTS:416718

REN91921 (e-PCR)
- UniSTS:416719

REN91922 (e-PCR)
- UniSTS:416720

REN91923 (e-PCR)
- UniSTS:416721

REN91924 (e-PCR)
- UniSTS:416722

REN91925 (e-PCR)
- UniSTS:416723

REN91926 (e-PCR)
- UniSTS:416724

REN91927 (e-PCR)
- UniSTS:416725

REN91928 (e-PCR)
- UniSTS:416726

REN91929 (e-PCR)
- UniSTS:416727

REN91930 (e-PCR)
- UniSTS:416728

REN91931 (e-PCR)
- UniSTS:416729

REN91932 (e-PCR)
- UniSTS:416730

REN91933 (e-PCR)
- UniSTS:416731

REN91934 (e-PCR)
- UniSTS:416732

REN91935 (e-PCR)
- UniSTS:416733

REN91936 (e-PCR)
- UniSTS:416734

REN91937 (e-PCR)
- UniSTS:416735

REN91938 (e-PCR)
- UniSTS:416736

REN91939 (e-PCR)
- UniSTS:416737

REN91940 (e-PCR)
- UniSTS:416738

REN91941 (e-PCR)
- UniSTS:416739

ECD03563 (e-PCR)
- UniSTS:284644

REN91942 (e-PCR)
- UniSTS:416740

REN91943 (e-PCR)
- UniSTS:416741

REN91944 (e-PCR)
- UniSTS:416742

REN91945 (e-PCR)
- UniSTS:416743

REN91946 (e-PCR)
- UniSTS:416744

REN91947 (e-PCR)
- UniSTS:416745

REN91948 (e-PCR)
- UniSTS:416746

REN91949 (e-PCR)
- UniSTS:416747

REN91950 (e-PCR)
- UniSTS:416748

REN91951 (e-PCR)
- UniSTS:416749

REN91952 (e-PCR)
- UniSTS:416750

REN91953 (e-PCR)
- UniSTS:416751

REN91954 (e-PCR)
- UniSTS:416752

REN91955 (e-PCR)
- UniSTS:416753

REN91956 (e-PCR)
- UniSTS:416754

REN91957 (e-PCR)
- UniSTS:416755

REN91958 (e-PCR)
- UniSTS:416756

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables rRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of ribosome	HDA more info	PubMed
enables structural constituent of ribosome	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of ribosome	IDA Inferred from Direct Assay more info	PubMed
enables translation regulator activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in cytoplasmic translation	IC Inferred by Curator more info	PubMed
involved_in cytoplasmic translation	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in ribosomal small subunit biogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in ribosomal small subunit biogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in translation	IC Inferred by Curator more info	PubMed
involved_in translation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	NAS Non-traceable Author Statement more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
located_in cytosolic ribosome	IDA Inferred from Direct Assay more info	PubMed
part_of cytosolic small ribosomal subunit	HDA more info	PubMed
part_of cytosolic small ribosomal subunit	IBA Inferred from Biological aspect of Ancestor more info
part_of cytosolic small ribosomal subunit	IDA Inferred from Direct Assay more info	PubMed
part_of cytosolic small ribosomal subunit	NAS Non-traceable Author Statement more info	PubMed
located_in extracellular exosome	HDA more info	PubMed
located_in focal adhesion	HDA more info	PubMed
located_in membrane	HDA more info	PubMed
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	HDA more info	PubMed
part_of ribonucleoprotein complex	IDA Inferred from Direct Assay more info	PubMed
located_in ribosome	NAS Non-traceable Author Statement more info	PubMed
part_of small-subunit processome	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: small ribosomal subunit protein uS4

Names: 40S ribosomal protein S9

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001013.4 → NP_001004.2 small ribosomal subunit protein uS4 isoform a

See identical proteins and their annotated locations for NP_001004.2

Status: REVIEWED

Description

Transcript Variant: This variant (1), as well as variants 2, 3, and 4, encodes isoform a.

Source sequence(s)

AB055775, BC007410, U14971

Consensus CDS

CCDS12884.1

UniProtKB/Swiss-Prot

A9C4C1, P46781, Q4QRK7, Q9BVZ0

Related

ENSP00000302896.4, ENST00000302907.9

Conserved Domains (1) summary

PTZ00155
Location:11 → 177

PTZ00155; 40S ribosomal protein S9; Provisional
NM_001321701.2 → NP_001308630.1 small ribosomal subunit protein uS4 isoform a

Status: REVIEWED

Description

Transcript Variant: This variant (2), as well as variants 1, 3, and 4, encodes isoform a.

Source sequence(s)

BC050660, CD389050

Consensus CDS

CCDS12884.1

UniProtKB/Swiss-Prot

A9C4C1, P46781, Q4QRK7, Q9BVZ0

Conserved Domains (1) summary

PTZ00155
Location:11 → 177

PTZ00155; 40S ribosomal protein S9; Provisional
NM_001321702.2 → NP_001308631.1 small ribosomal subunit protein uS4 isoform a

Status: REVIEWED

Description

Transcript Variant: This variant (3), as well as variants 1, 2, and 4, encodes isoform a.

Source sequence(s)

AC245052, BC050660, BM313608, CD389050

Consensus CDS

CCDS12884.1

UniProtKB/Swiss-Prot

A9C4C1, P46781, Q4QRK7, Q9BVZ0

Related

ENSP00000375632.1, ENST00000391752.5

Conserved Domains (1) summary

PTZ00155
Location:11 → 177

PTZ00155; 40S ribosomal protein S9; Provisional
NM_001321704.2 → NP_001308633.1 small ribosomal subunit protein uS4 isoform a

Status: REVIEWED

Description

Transcript Variant: This variant (4), as well as variants 1, 2, and 3, encodes isoform a.

Source sequence(s)

BC050660, BQ069656, CD389050

Consensus CDS

CCDS12884.1

UniProtKB/Swiss-Prot

A9C4C1, P46781, Q4QRK7, Q9BVZ0

Conserved Domains (1) summary

PTZ00155
Location:11 → 177

PTZ00155; 40S ribosomal protein S9; Provisional
NM_001321705.2 → NP_001308634.1 small ribosomal subunit protein uS4 isoform b

Status: REVIEWED

Source sequence(s)

AW163829, BC050660, CD389050

Conserved Domains (1) summary

PTZ00155
Location:11 → 136

PTZ00155; 40S ribosomal protein S9; Provisional
NM_001321706.2 → NP_001308635.1 small ribosomal subunit protein uS4 isoform c

Status: REVIEWED

Source sequence(s)

BC050660, CD389050

Consensus CDS

CCDS82397.1

UniProtKB/TrEMBL

A8MXK4, F2Z3C0

Related

ENSP00000375631.3, ENST00000391751.7

Conserved Domains (1) summary

PTZ00155
Location:11 → 76

PTZ00155; 40S ribosomal protein S9; Provisional

RNA

NR_135762.2 RNA Sequence

Status: REVIEWED

Source sequence(s)

BC050660, BG911482, CD389050

Related

ENST00000436445.5
NR_135763.2 RNA Sequence

Status: REVIEWED

Source sequence(s)

BC050660, BG753945, CD389050

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000019.10 Reference GRCh38.p14 Primary Assembly

Range

54200858..54207647

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017027112.2 → XP_016882601.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4, F2Z3C0

Conserved Domains (1) summary

PTZ00155
Location:11 → 76

PTZ00155; 40S ribosomal protein S9; Provisional

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

NW_003571054.1 Reference GRCh38.p14 ALT_REF_LOCI_1

Range

175657..182446

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

NW_003571055.2 Reference GRCh38.p14 ALT_REF_LOCI_2

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054330201.1 → XP_054186176.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054330200.1 → XP_054186175.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_3

Genomic

NW_003571056.2 Reference GRCh38.p14 ALT_REF_LOCI_3

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054330497.1 → XP_054186472.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_4

Genomic

NW_003571057.2 Reference GRCh38.p14 ALT_REF_LOCI_4

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054330747.1 → XP_054186722.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054330746.1 → XP_054186721.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_5

Genomic

NW_003571058.2 Reference GRCh38.p14 ALT_REF_LOCI_5

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054330978.1 → XP_054186953.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054330977.1 → XP_054186952.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_6

Genomic

NW_003571059.2 Reference GRCh38.p14 ALT_REF_LOCI_6

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054331261.1 → XP_054187236.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054331260.1 → XP_054187235.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_7

Genomic

NW_003571060.1 Reference GRCh38.p14 ALT_REF_LOCI_7

Range

175830..182618

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054331530.1 → XP_054187505.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_8

Genomic

NW_003571061.2 Reference GRCh38.p14 ALT_REF_LOCI_8

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054333575.1 → XP_054189550.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054333574.1 → XP_054189549.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Reference GRCh38.p14 ALT_REF_LOCI_9

Genomic

NT_187693.1 Reference GRCh38.p14 ALT_REF_LOCI_9

Range

175840..182629

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054333677.1 → XP_054189652.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054333676.1 → XP_054189651.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4

Alternate T2T-CHM13v2.0

Genomic

NC_060943.1 Alternate T2T-CHM13v2.0

Range

57281246..57288035

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054321702.1 → XP_054177677.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4
XM_054321701.1 → XP_054177676.1 small ribosomal subunit protein uS4 isoform X1

UniProtKB/TrEMBL

A8MXK4