Human Gene RPS27L (uc002aly.3) Description and Page Index
  Description: Homo sapiens ribosomal protein S27-like (RPS27L), mRNA.
RefSeq Summary (NM_015920): This gene encodes a protein sharing 96% amino acid similarity with ribosomal protein S27, which suggests the encoded protein may be a component of the 40S ribosomal subunit. [provided by RefSeq, Jul 2008]. ##Evidence-Data-START## Transcript exon combination :: BG612857.1, SRR1660805.26233.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1966682, SAMEA1968189 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000330964.10/ ENSP00000331019.5 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr15:63,445,539-63,449,741 Size: 4,203 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr15:63,446,231-63,449,604 Size: 3,374 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:63,445,539-63,449,741)mRNA (may differ from genome)Protein (84 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKB

-  Comments and Description Text from UniProtKB
  ID: RS27L_HUMAN
DESCRIPTION: RecName: Full=40S ribosomal protein S27-like;
COFACTOR: Binds 1 zinc ion per subunit (Potential).
INTERACTION: Q00987:MDM2; NbExp=6; IntAct=EBI-355126, EBI-389668;
SIMILARITY: Belongs to the ribosomal protein S27e family.

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 49.05 RPKM in Cells - Transformed fibroblasts
Total median expression: 855.85 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -60.20137-0.439 Picture PostScript Text
3' UTR -154.50692-0.223 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
IPR000592 - Ribosomal_S27e
IPR023407 - Ribosomal_S27e_Zn-bd_dom
IPR011332 - Ribosomal_zn-bd_dom

Pfam Domains:
PF01667 - Ribosomal protein S27

SCOP Domains:
57829 - Zn-binding ribosomal proteins

ModBase Predicted Comparative 3D Structure on Q71UM5
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 orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0008494 translation activator activity
GO:0008656 cysteine-type endopeptidase activator activity involved in apoptotic process
GO:0046872 metal ion binding

Biological Process:
GO:0000028 ribosomal small subunit assembly
GO:0006412 translation
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0006978 DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator
GO:0031571 mitotic G1 DNA damage checkpoint
GO:0042771 intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
GO:0045727 positive regulation of translation

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005840 ribosome
GO:0022627 cytosolic small ribosomal subunit


-  Descriptions from all associated GenBank mRNAs
  BC031307 - Homo sapiens ribosomal protein S27-like, mRNA (cDNA clone IMAGE:5273583), with apparent retained intron.
AF070668 - Homo sapiens 40S ribosomal protein S27 isoform mRNA, complete cds.
BC047648 - Homo sapiens ribosomal protein S27-like, mRNA (cDNA clone IMAGE:4837132), with apparent retained intron.
AK024591 - Homo sapiens cDNA: FLJ20938 fis, clone ADSE01577.
BC003667 - Homo sapiens ribosomal protein S27-like, mRNA (cDNA clone MGC:12175 IMAGE:3827362), complete cds.
JD225954 - Sequence 206978 from Patent EP1572962.
JD078413 - Sequence 59437 from Patent EP1572962.
HQ448713 - Synthetic construct Homo sapiens clone IMAGE:100072157; CCSB005640_03 ribosomal protein S27-like (RPS27L) gene, encodes complete protein.
KJ898814 - Synthetic construct Homo sapiens clone ccsbBroadEn_08208 RPS27L gene, encodes complete protein.
KJ902547 - Synthetic construct Homo sapiens clone ccsbBroadEn_11941 RPS27L gene, encodes complete protein.
AB464687 - Synthetic construct DNA, clone: pF1KB8865, Homo sapiens RPS27L gene for ribosomal protein S27-like, without stop codon, in Flexi system.
JD486592 - Sequence 467616 from Patent EP1572962.
JD241354 - Sequence 222378 from Patent EP1572962.
JD146009 - Sequence 127033 from Patent EP1572962.

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

Reactome (by CSHL, EBI, and GO)

Protein Q71UM5 (Reactome details) participates in the following event(s):

R-HSA-72676 eIF3 and eIF1A bind to the 40S subunit
R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome
R-HSA-72672 The 60S subunit joins the translation initiation complex
R-HSA-72619 eIF2:GTP is hydrolyzed, eIFs are released
R-HSA-72691 Formation of the 43S pre-initiation complex
R-HSA-156808 Formation of translation initiation complexes yielding circularized Ceruloplasmin mRNA in a 'closed-loop' conformation
R-HSA-157849 Formation of translation initiation complexes containing mRNA that does not circularize
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-72621 Ribosomal scanning
R-HSA-72697 Start codon recognition
R-HSA-156823 Association of phospho-L13a with GAIT element of Ceruloplasmin mRNA
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-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-72689 Formation of a pool of free 40S subunits
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-9010553 Regulation of expression of SLITs and ROBOs
R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-HSA-72649 Translation initiation complex formation
R-HSA-72737 Cap-dependent Translation Initiation
R-HSA-72312 rRNA processing
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-72702 Ribosomal scanning and start codon recognition
R-HSA-156827 L13a-mediated translation
R-HSA-72662 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
R-HSA-72613 Eukaryotic Translation Initiation
R-HSA-8953854 Metabolism of RNA
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-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: NM_015920, NP_057004, Q71UM5, Q9BTJ1, RS27L_HUMAN
UCSC ID: uc002aly.3
RefSeq Accession: NM_015920
Protein: Q71UM5 (aka RS27L_HUMAN or R27L_HUMAN)
CCDS: CCDS42048.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_015920.3
exon count: 4CDS single in 3' UTR: no RNA size: 1084
ORF size: 255CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 681.50frame shift in genome: no % Coverage: 100.00
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
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.