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RPS4Y2 ribosomal protein S4 Y-linked 2 [ Homo sapiens (human) ]

Gene ID: 140032, updated on 17-Sep-2024

Summary

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Official Symbol
RPS4Y2provided by HGNC
Official Full Name
ribosomal protein S4 Y-linked 2provided by HGNC
Primary source
HGNC:HGNC:18501
See related
Ensembl:ENSG00000280969 MIM:400030; AllianceGenome:HGNC:18501
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
RPS4Y2P
Summary
The protein encoded by this gene is a ribosomal protein that is highly similar to RPS4Y1. This gene is located in the male-specific region of the Y chromosome. [provided by RefSeq, Aug 2012]
Expression
Low expression observed in reference dataset See more
Orthologs
all
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Genomic context

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See RPS4Y2 in Genome Data Viewer
Location:
Yq11.223
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) Y NC_000024.10 (20756108..20781032)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) Y NC_060948.1 (21631330..21656255)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) Y NC_000024.9 (22917994..22942918)

Chromosome Y - NC_000024.10Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 8, member A1 pseudogene Neighboring gene transducin beta like 1 Y-linked pseudogene 1 Neighboring gene heat shock transcription factor Y-linked 4, pseudogene Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene 17

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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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Related articles in PubMed

  1. LncPRYP4-3 serves as a novel diagnostic biomarker for dissecting subtypes of metabolic associated fatty liver disease by targeting RPS4Y2. Yang H, et al. Clin Exp Med, 2020 Nov. PMID 32494880
  2. The human RPS4 paralogue on Yq11.223 encodes a structurally conserved ribosomal protein and is preferentially expressed during spermatogenesis. Lopes AM, et al. BMC Mol Biol, 2010 May 7. PMID 20459660, Free PMC Article
  3. Primer-BLAST: a tool to design target-specific primers for polymerase chain reaction. Ye J, et al. BMC Bioinformatics, 2012 Jun 18. PMID 22708584, Free PMC Article
  4. Y Chromosome Infertility. Adam MP, et al. , 1993. PMID 20301513
  5. HectD1 controls hematopoietic stem cell regeneration by coordinating ribosome assembly and protein synthesis. Lv K, et al. Cell Stem Cell, 2021 Jul 1. PMID 33711283, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncPRYP4-3 serves as a novel diagnostic biomarker for dissecting subtypes of metabolic associated fatty liver disease by targeting RPS4Y2.
    Title: LncPRYP4-3 serves as a novel diagnostic biomarker for dissecting subtypes of metabolic associated fatty liver disease by targeting RPS4Y2.
  2. One of the Y-linked copies of the ribosomal protein S4 is expressed during spermatogenesis and germ cell development and the C-terminus of the protein has some degree of functional specialisation of this protein in spermatogenesis.
    Title: The human RPS4 paralogue on Yq11.223 encodes a structurally conserved ribosomal protein and is preferentially expressed during spermatogenesis.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description Tests
Spermatogenic failure, Y-linked, 2
MedGen: C1839071 OMIM: 415000 GeneReviews: Y Chromosome Infertility
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Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular_function ND
No biological Data available
more info
  
enables rRNA binding IEA
Inferred from Electronic Annotation
more info
  
enables structural constituent of ribosome IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in translation IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
part_of cytosolic small ribosomal subunit IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
small ribosomal subunit protein eS4, Y isoform 2
Names
40S ribosomal protein S4, Y
ribosomal protein S4, Y-linked 2 pseudogene
small ribosomal subunit protein eS4
small ribosomal subunit protein eS4, Y

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.

Genomic

  1. NG_032924.1 RefSeqGene

    Range
    5041..29965
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001039567.3 → NP_001034656.1  small ribosomal subunit protein eS4, Y isoform 2

    See identical proteins and their annotated locations for NP_001034656.1

    Status: REVIEWED

    Source sequence(s)
    AF497481
    Consensus CDS
    CCDS44028.1
    UniProtKB/Swiss-Prot
    A6NIR6, Q8TD47
    UniProtKB/TrEMBL
    Q496E4
    Related
    ENSP00000486252.1, ENST00000629237.2
    Conserved Domains (5) summary
    PLN00036
    Location:1 → 260
    PLN00036; 40S ribosomal protein S4; Provisional
    cd06087
    Location:175 → 229
    KOW_RPS4; KOW motif of Ribosomal Protein S4 (RPS4)
    pfam00900
    Location:95 → 169
    Ribosomal_S4e; Ribosomal family S4e
    pfam08071
    Location:3 → 39
    RS4NT; RS4NT (NUC023) domain
    pfam16121
    Location:212 → 259
    40S_S4_C; 40S ribosomal protein S4 C-terminus

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000024.10 Reference GRCh38.p14 Primary Assembly

    Range
    20756108..20781032
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060948.1 Alternate T2T-CHM13v2.0

    Range
    21631330..21656255
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_138963.1: Suppressed sequence

    Description
    NM_138963.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8TD47.3 GenPept UniProtKB/Swiss-Prot:Q8TD47

Gene LinkOut

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