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RPL6 ribosomal protein L6 [ Homo sapiens (human) ]

Gene ID: 6128, updated on 3-May-2020

Summary

Official Symbol
RPL6provided by HGNC
Official Full Name
ribosomal protein L6provided by HGNC
Primary source
HGNC:HGNC:10362
See related
Ensembl:ENSG00000089009 MIM:603703
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
L6; TXREB1; SHUJUN-2; TAXREB107
Summary
This gene encodes a protein component of the 60S ribosomal subunit. This protein can bind specifically to domain C of the tax-responsive enhancer element of human T-cell leukemia virus type 1, and may participate in tax-mediated transactivation of transcription. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed throughout the genome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2016]
Expression
Ubiquitous expression in ovary (RPKM 360.8), lymph node (RPKM 224.8) and 25 other tissues See more
Orthologs

Genomic context

See RPL6 in Genome Data Viewer
Location:
12q24.13
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (112405181..112418850, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (112842994..112856647, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene HECT domain E3 ubiquitin protein ligase 4 Neighboring gene DnaJ (Hsp40) homolog, subfamily C, member 2 pseudogene Neighboring gene ribosomal protein L7a pseudogene 60 Neighboring gene protein tyrosine phosphatase non-receptor type 11 Neighboring gene rabphilin 3A Neighboring gene microRNA 1302-1

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?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study identifies three new susceptibility loci for esophageal squamous-cell carcinoma in Chinese populations.
NHGRI GWA Catalog
Meta-analysis of genome-wide association studies identifies common variants associated with blood pressure variation in east Asians.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify ribosomal protein L6 (RPL6), 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 L6 (RPL6), 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 L6 (RPL6), 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 L6 (RPL6), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev HIV-1 Rev interacting protein, ribosomal protein L6 (RPL6), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human 60S ribosomal protein L6 (RPL6) at amino acid residues 88-89 by the HIV-1 protease 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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding TAS
Traceable Author Statement
more info
PubMed 
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cadherin binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural constituent of ribosome IBA
Inferred from Biological aspect of Ancestor
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
 
cytoplasmic translation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasmic translation IDA
Inferred from Direct Assay
more info
PubMed 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay TAS
Traceable Author Statement
more info
 
regulation of transcription, DNA-templated TAS
Traceable Author Statement
more info
PubMed 
ribosomal large subunit assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
cytoplasmic ribonucleoprotein granule IDA
Inferred from Direct Assay
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 large ribosomal subunit IDA
Inferred from Direct Assay
more info
PubMed 
focal adhesion HDA PubMed 
membrane HDA PubMed 
nucleus HDA PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
polysomal ribosome IDA
Inferred from Direct Assay
more info
PubMed 
postsynaptic density IEA
Inferred from Electronic Annotation
more info
 
rough endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
60S ribosomal protein L6
Names
DNA-binding protein TAXREB107
large ribosomal subunit protein eL6
neoplasm-related protein C140
tax-responsive enhancer element-binding protein 107

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_000970.5NP_000961.2  60S ribosomal protein L6 isoform 1

    See identical proteins and their annotated locations for NP_000961.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is the predominant variant. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Related
    ENSP00000202773.9, ENST00000202773.13
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  2. NM_001024662.3NP_001019833.1  60S ribosomal protein L6 isoform 1

    See identical proteins and their annotated locations for NP_001019833.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, BC022444, BP285025
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3, Q8TBK5
    Related
    ENSP00000403172.2, ENST00000424576.6
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  3. NM_001320137.2NP_001307066.1  60S ribosomal protein L6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, BP285025, CB140996, CD049618
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  4. NM_001320138.2NP_001307067.1  60S ribosomal protein L6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, BP308263
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  5. NM_001320139.2NP_001307068.1  60S ribosomal protein L6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, CD688935, HY016219
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  6. NM_001320140.2NP_001307069.1  60S ribosomal protein L6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, CD640506, CD688935
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  7. NM_001320141.2NP_001307070.1  60S ribosomal protein L6 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks an exon and contains three alternate exons in the 5' UTR compared to variant 1. Variants 1, 2, 3, 4, 5, 6, and 7 encode the same isoform (1).
    Source sequence(s)
    AI583261, BC004138, BG722198
    Consensus CDS
    CCDS9162.1
    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  8. NM_001320142.1NP_001307071.1  60S ribosomal protein L6 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AI583261, BG030827, HY038019
    Conserved Domains (2) summary
    COG2163
    Location:29153
    RPL14A; Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]
    cd13156
    Location:25177
    KOW_RPL6; KOW motif of Ribosomal Protein L6

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    112405181..112418850 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019781.1XP_016875270.1  60S ribosomal protein L6 isoform X1

    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
  2. XM_017019782.1XP_016875271.1  60S ribosomal protein L6 isoform X1

    UniProtKB/Swiss-Prot
    Q02878
    UniProtKB/TrEMBL
    A0A024RBK3
    Conserved Domains (2) summary
    cd13156
    Location:136288
    KOW_RPL6; KOW motif of Ribosomal Protein L6
    pfam03868
    Location:4395
    Ribosomal_L6e_N; Ribosomal protein L6, N-terminal domain
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