Human Gene RPL7 (uc003xzg.3) Description and Page Index
  Description: Homo sapiens ribosomal protein L7 (RPL7), mRNA.
RefSeq Summary (NM_000971): 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 L30P family of ribosomal proteins. It contains an N-terminal basic region-leucine zipper (BZIP)-like domain and the RNP consensus submotif RNP2. In vitro the BZIP-like domain mediates homodimerization and stable binding to DNA and RNA, with a preference for 28S rRNA and mRNA. The protein can inhibit cell-free translation of mRNAs, suggesting that it plays a regulatory role in the translation apparatus. It is located in the cytoplasm. The protein has been shown to be an autoantigen in patients with systemic autoimmune diseases, such as systemic lupus erythematosus. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR5189652.111484.1, SRR1660803.39838.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA2155371, SAMEA2155751 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000352983.7/ ENSP00000339795.2 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr8:74,202,874-74,205,869 Size: 2,996 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr8:74,203,279-74,205,847 Size: 2,569 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:74,202,874-74,205,869)mRNA (may differ from genome)Protein (248 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RL7_HUMAN
DESCRIPTION: RecName: Full=60S ribosomal protein L7;
FUNCTION: Binds to G-rich structures in 28S rRNA and in mRNAs. Plays a regulatory role in the translation apparatus; inhibits cell-free translation of mRNAs.
SUBUNIT: Homodimer.
SIMILARITY: Belongs to the ribosomal protein L30P family.
SEQUENCE CAUTION: Sequence=CAA41026.1; Type=Erroneous initiation;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RPL7
CDC HuGE Published Literature: RPL7

-  MalaCards Disease Associations
  MalaCards Gene Search: RPL7
Diseases sorted by gene-association score: systemic lupus erythematosus (4), collagen disease (3), retinitis pigmentosa 22 (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 130.50 RPKM in Ovary
Total median expression: 2719.92 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -2.3022-0.105 Picture PostScript Text
3' UTR -9.1068-0.134 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR018038 - Ribosomal_L30_CS
IPR016082 - Ribosomal_L30_ferredoxin-like
IPR012988 - Ribosomal_L30_N
IPR005998 - Ribosomal_L7_euk

Pfam Domains:
PF00327 - Ribosomal protein L30p/L7e
PF08079 - Ribosomal L30 N-terminal domain

SCOP Domains:
55129 - Ribosomal protein L30p/L7e

ModBase Predicted Comparative 3D Structure on P18124
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsemblFlyBaseWormBaseSGD
 Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
 AlignmentAlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0042803 protein homodimerization activity

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0002181 cytoplasmic translation
GO:0006364 rRNA processing
GO:0006412 translation
GO:0006413 translational initiation
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
GO:0042273 ribosomal large subunit biogenesis

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex


-  Descriptions from all associated GenBank mRNAs
  BC009599 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:14690 IMAGE:4134557), complete cds.
X57958 - H.sapiens mRNA for ribosomal protein L7.
BC017216 - Homo sapiens cDNA clone IMAGE:4137930, **** WARNING: chimeric clone ****.
BC071671 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:87872 IMAGE:4392472), complete cds.
BC071895 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:88574 IMAGE:6568654), complete cds.
BC087837 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:102766 IMAGE:6170371), complete cds.
BC071894 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:88573 IMAGE:2906310), complete cds.
BC006095 - Homo sapiens ribosomal protein L7, mRNA (cDNA clone MGC:12719 IMAGE:2821364), complete cds.
X57959 - H.sapiens mRNA for ribosomal protein L7.
AK225246 - Homo sapiens mRNA for 60S ribosomal protein L7 variant, clone: DMC02040.
AK225254 - Homo sapiens mRNA for 60S ribosomal protein L7 variant, clone: DMC00343.
L16558 - Human ribosomal protein L7 (RPL7) mRNA, complete cds.
AK291119 - Homo sapiens cDNA FLJ78488 complete cds, highly similar to Homo sapiens ribosomal protein L7 (RPL7), mRNA.
X52967 - Human mRNA for ribosomal protein L7.
LF358298 - JP 2014500723-A/165801: Polycomb-Associated Non-Coding RNAs.
CR456773 - Homo sapiens full open reading frame cDNA clone RZPDo834E054D for gene RPL7, ribosomal protein L7; complete cds, incl. stopcodon.
AK313365 - Homo sapiens cDNA, FLJ93893, Homo sapiens ribosomal protein L7 (RPL7), mRNA.
KJ892024 - Synthetic construct Homo sapiens clone ccsbBroadEn_01418 RPL7 gene, encodes complete protein.
AB529035 - Synthetic construct DNA, clone: pF1KB3443, Homo sapiens RPL7 gene for ribosomal protein L7, without stop codon, in Flexi system.
LF357742 - JP 2014500723-A/165245: Polycomb-Associated Non-Coding RNAs.
LF379808 - JP 2014500723-A/187311: Polycomb-Associated Non-Coding RNAs.
LF357741 - JP 2014500723-A/165244: Polycomb-Associated Non-Coding RNAs.
LF379806 - JP 2014500723-A/187309: Polycomb-Associated Non-Coding RNAs.
LF358296 - JP 2014500723-A/165799: Polycomb-Associated Non-Coding RNAs.
LF379805 - JP 2014500723-A/187308: Polycomb-Associated Non-Coding RNAs.
BC070215 - Homo sapiens cDNA clone IMAGE:6732612, partial cds.
JD019884 - Sequence 908 from Patent EP1572962.
AB055763 - Homo sapiens mRNA for ribosomal protein L7, partial cds.
MA593875 - JP 2018138019-A/165801: Polycomb-Associated Non-Coding RNAs.
MA593319 - JP 2018138019-A/165245: Polycomb-Associated Non-Coding RNAs.
MA615385 - JP 2018138019-A/187311: Polycomb-Associated Non-Coding RNAs.
MA593318 - JP 2018138019-A/165244: Polycomb-Associated Non-Coding RNAs.
MA615383 - JP 2018138019-A/187309: Polycomb-Associated Non-Coding RNAs.
MA593873 - JP 2018138019-A/165799: Polycomb-Associated Non-Coding RNAs.
MA615382 - JP 2018138019-A/187308: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03010 - Ribosome

Reactome (by CSHL, EBI, and GO)

Protein P18124 (Reactome details) participates in the following event(s):

R-HSA-72672 The 60S subunit joins the translation initiation complex
R-HSA-156826 Dissociation of L13a from the 60s ribosomal subunit
R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome
R-HSA-72671 eIF5B:GTP is hydrolyzed and released
R-HSA-156907 Aminoacyl-tRNA binds to the ribosome at the A-site
R-HSA-2408529 Sec-tRNA(Sec):EEFSEC:GTP binds to 80S Ribosome
R-HSA-141691 GTP bound eRF3:eRF1 complex binds the peptidyl tRNA:mRNA:80S Ribosome complex
R-HSA-156915 Translocation of ribosome by 3 bases in the 3' direction
R-HSA-141671 Polypeptide release from the eRF3-GDP:eRF1:mRNA:80S Ribosome complex
R-HSA-156912 Peptide transfer from P-site tRNA to the A-site tRNA
R-HSA-927832 UPF1 binds an mRNP with a termination codon preceding an Exon Junction Complex
R-HSA-927789 Formation of UPF1:eRF3 complex on mRNA with a premature termination codon and no Exon Junction Complex
R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP)
R-HSA-156923 Hydrolysis of eEF1A:GTP
R-HSA-5333615 80S:Met-tRNAi:mRNA:SECISBP2:Sec-tRNA(Sec):EEFSEC:GTP is hydrolysed to 80S:Met-tRNAi:mRNA:SECISBP2:Sec and EEFSEC:GDP by EEFSEC
R-HSA-141673 GTP Hydrolysis by eRF3 bound to the eRF1:mRNA:polypeptide:80S Ribosome complex
R-HSA-927889 SMG1 phosphorylates UPF1 (enhanced by Exon Junction Complex)
R-HSA-1799329 Signal peptidase hydrolyzes signal peptide from ribosome-associated nascent protein
R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex
R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-156827 L13a-mediated translation
R-HSA-72689 Formation of a pool of free 40S subunits
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-9010553 Regulation of expression of SLITs and ROBOs
R-HSA-72737 Cap-dependent Translation Initiation
R-HSA-72613 Eukaryotic Translation Initiation
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-156902 Peptide chain elongation
R-HSA-2408557 Selenocysteine synthesis
R-HSA-72764 Eukaryotic Translation Termination
R-HSA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-HSA-72766 Translation
R-HSA-376176 Signaling by ROBO receptors
R-HSA-192823 Viral mRNA Translation
R-HSA-72312 rRNA processing
R-HSA-156842 Eukaryotic Translation Elongation
R-HSA-2408522 Selenoamino acid metabolism
R-HSA-927802 Nonsense-Mediated Decay (NMD)
R-HSA-392499 Metabolism of proteins
R-HSA-422475 Axon guidance
R-HSA-168273 Influenza Viral RNA Transcription and Replication
R-HSA-8953854 Metabolism of RNA
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1266738 Developmental Biology
R-HSA-168255 Influenza Life Cycle
R-HSA-1430728 Metabolism
R-HSA-168254 Influenza Infection
R-HSA-5663205 Infectious disease
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: A8K504, NM_000971, NP_000962, P18124, Q15289, Q3KQU0, Q5I0X1, Q6IBM9, RL7_HUMAN
UCSC ID: uc003xzg.3
RefSeq Accession: NM_000971
Protein: P18124 (aka RL7_HUMAN)
CCDS: CCDS6212.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_000971.3
exon count: 7CDS single in 3' UTR: no RNA size: 866
ORF size: 747CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1691.00frame shift in genome: no % Coverage: 96.65
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.