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RPL13 ribosomal protein L13 [ Homo sapiens (human) ]

Gene ID: 6137, updated on 4-Oct-2020

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
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; 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

Genomic context

See RPL13 in Genome Data Viewer
Location:
16q24.3; 17p11.2
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (89560657..89566829)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (89613324..89633237)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101930112 Neighboring gene uncharacterized LOC101927863 Neighboring gene SPG7 matrix AAA peptidase subunit, paraplegin Neighboring gene small nucleolar RNA, C/D box 68 Neighboring gene copine 7 Neighboring gene dipeptidase 1

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

Homology

Clone Names

  • FLJ27453, FLJ27454, FLJ38635, MGC71373, MGC117342

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural constituent of ribosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
structural constituent of ribosome NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
SRP-dependent cotranslational protein targeting to membrane TAS
Traceable Author Statement
more info
 
bone development IMP
Inferred from Mutant Phenotype
more info
PubMed 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS
Traceable Author Statement
more info
 
translation NAS
Non-traceable Author Statement
more info
PubMed 
translational initiation TAS
Traceable Author Statement
more info
 
viral transcription TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol IMP
Inferred from Mutant Phenotype
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
cytosolic large ribosomal subunit HDA PubMed 
cytosolic large ribosomal subunit IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosolic ribosome TAS
Traceable Author Statement
more info
PubMed 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 
membrane HDA PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleus HDA PubMed 

General protein information

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

NCBI Reference Sequences (RefSeq)

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  60S ribosomal protein L13 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
    P26373
    UniProtKB/TrEMBL
    A8K4C8
    Related
    ENSP00000307889.5, ENST00000311528.9
    Conserved Domains (1) summary
    pfam01294
    Location:8187
    Ribosomal_L13e; Ribosomal protein L13e
  2. NM_001243131.1NP_001230060.1  60S ribosomal protein L13 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  60S ribosomal protein L13 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
    P26373
    UniProtKB/TrEMBL
    A8K4C8
    Related
    ENSP00000376811.3, ENST00000393099.3
    Conserved Domains (1) summary
    pfam01294
    Location:8187
    Ribosomal_L13e; Ribosomal protein L13e

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    89560657..89566829
    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.
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