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    RPL13 ribosomal protein L13 [ Homo sapiens (human) ]

    Gene ID: 6137, updated on 17-Jun-2024

    Summary

    Official Symbol
    RPL13provided by HGNC
    Official Full Name
    ribosomal protein L13provided by HGNC
    Primary source
    HGNC:HGNC:10303
    See related
    Ensembl:ENSG00000167526 MIM:113703; AllianceGenome:HGNC:10303
    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
    L13; BBC1; eL13; D16S44E; SEMDIST; D16S444E
    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 60S subunit. The protein belongs to the L13E family of ribosomal proteins. It is located in the cytoplasm. This gene is expressed at significantly higher levels in benign breast lesions than in breast carcinomas. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2011]
    Expression
    Ubiquitous expression in ovary (RPKM 234.6), spleen (RPKM 109.8) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RPL13 in Genome Data Viewer
    Location:
    16q24.3; 17p11.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (89560657..89566829)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (95641207..95647429)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (89627065..89633237)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101930112 Neighboring gene uncharacterized LOC101927863 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11414 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7909 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7910 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7911 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7912 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89585576-89586076 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89586077-89586577 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr16:89588494-89589051 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89589052-89589608 Neighboring gene SPG7 matrix AAA peptidase subunit, paraplegin Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11415 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11416 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:89601956-89602646 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:89625532-89625751 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11417 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7913 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7914 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89630776-89631518 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89631519-89632262 Neighboring gene small nucleolar RNA, C/D box 68 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:89640372-89640629 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7915 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7916 Neighboring gene copine 7 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:89665942-89666855 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:89679650-89679808 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89681214-89681918 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89681919-89682621 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89689900-89690772 Neighboring gene dipeptidase 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_46531 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:89698470-89699324

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify ribosomal protein L13 (RPL13), 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 L13 (RPL13), 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 L13 (RPL13), 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 L13 (RPL13), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Tat tat Expression of HIV-1 Tat upregulates the abundance of ribosomal protein L13 (RPL13) in the nucleoli of Jurkat T-cells PubMed
    Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of ribosomal protein L13 (RPL13) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ27453, FLJ27454, FLJ38635, MGC71373, MGC117342

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    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 structural constituent of ribosome IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables structural constituent of ribosome NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in blastocyst development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in bone development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 translation NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    part_of cytosolic large ribosomal subunit HDA PubMed 
    part_of cytosolic large ribosomal subunit IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of cytosolic large ribosomal subunit IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of cytosolic large ribosomal subunit IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in cytosolic ribosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
     
    located_in membrane HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleus HDA PubMed 
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    large ribosomal subunit protein eL13
    Names
    60S ribosomal protein L13
    breast basic conserved 1
    breast basic conserved protein 1
    NP_000968.2
    NP_001230060.1
    NP_150254.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_000977.4NP_000968.2  large ribosomal subunit protein eL13 isoform 1

      See identical proteins and their annotated locations for NP_000968.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) is the predominant transcript. It encodes the longest isoform (1).
      Source sequence(s)
      AC092123, BC106058
      Consensus CDS
      CCDS10979.1
      UniProtKB/Swiss-Prot
      B4DLX3, F5H1S2, P26373, Q3KQT8, Q567Q8, Q9BPX0
      UniProtKB/TrEMBL
      A8K4C8, Q6NZ55
      Related
      ENSP00000307889.5, ENST00000311528.10
      Conserved Domains (1) summary
      pfam01294
      Location:8187
      Ribosomal_L13e; Ribosomal protein L13e
    2. NM_001243131.1NP_001230060.1  large ribosomal subunit protein eL13 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) has an additional splice junction in the CDS, compared to variant 1. The resulting isoform (3) lacks an internal segment, compared to isoform 1.
      Source sequence(s)
      AC092123, AK297198, BC106058
      Consensus CDS
      CCDS58492.1
      UniProtKB/Swiss-Prot
      P26373
      Related
      ENSP00000438959.2, ENST00000452368.7
      Conserved Domains (1) summary
      cl01799
      Location:13137
      Ribosomal_L13e; Ribosomal protein L13e
    3. NM_033251.2NP_150254.1  large ribosomal subunit protein eL13 isoform 1

      See identical proteins and their annotated locations for NP_150254.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has a different 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AC092123, BC020804
      Consensus CDS
      CCDS10979.1
      UniProtKB/Swiss-Prot
      B4DLX3, F5H1S2, P26373, Q3KQT8, Q567Q8, Q9BPX0
      UniProtKB/TrEMBL
      A8K4C8, Q6NZ55
      Related
      ENSP00000376811.3, ENST00000393099.3
      Conserved Domains (1) summary
      pfam01294
      Location:8187
      Ribosomal_L13e; Ribosomal protein L13e

    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

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      89560657..89566829
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      95641207..95647429
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001243130.1: Suppressed sequence

      Description
      NM_001243130.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.