Human Gene RPL9 (uc022btz.1) Description and Page Index
  Description: Homo sapiens ribosomal protein L9 (RPL9), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chrX:23,854,761-23,855,459 Size: 699 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chrX:23,854,859-23,855,437 Size: 579 Coding Exon Count: 1 

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 (chrX:23,854,761-23,855,459)mRNA (may differ from genome)Protein (192 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaCGAP
EnsemblEntrez GeneExonPrimerGeneCardsHGNCLynx
MGIneXtProtOMIMPubMedReactomeStanford SOURCE
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RL9_HUMAN
DESCRIPTION: RecName: Full=60S ribosomal protein L9;
SIMILARITY: Belongs to the ribosomal protein L6P family.

-  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: 0.87 RPKM in Ovary
Total median expression: 19.80 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 -2.6022-0.118 Picture PostScript Text
3' UTR -15.8498-0.162 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
IPR000702 - Ribosomal_L6
IPR020040 - Ribosomal_L6_a/b-dom
IPR002359 - Ribosomal_L6_CS2

Pfam Domains:
PF00347 - Ribosomal protein L6

SCOP Domains:
56053 - Ribosomal protein L6

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2CQL
- NMR MuPIT


ModBase Predicted Comparative 3D Structure on P32969
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 BrowserGenome BrowserGenome BrowserGenome Browser
   Gene DetailsGene DetailsGene Details
   Gene SorterGene SorterGene Sorter
  EnsemblFlyBaseWormBaseSGD
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence
  AlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0006413 translational initiation
GO:0006614 SRP-dependent cotranslational protein targeting to membrane

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0022625 cytosolic large ribosomal subunit


-  Descriptions from all associated GenBank mRNAs
  AB062431 - Homo sapiens OK/SW-cl.103 mRNA for ribosomal protein L9, complete cds.
BC004156 - Homo sapiens ribosomal protein L9, mRNA (cDNA clone MGC:2418 IMAGE:2961026), complete cds.
BC004206 - Homo sapiens ribosomal protein L9, mRNA (cDNA clone MGC:4066 IMAGE:2961026), complete cds.
BC031906 - Homo sapiens ribosomal protein L9, mRNA (cDNA clone MGC:29903 IMAGE:4996986), complete cds.
D14531 - Homo sapiens mRNA for rat ribosomal protein L9 homologue, complete cds.
U21138 - Human ribosomal protein L9 mRNA, complete cds.
BC000483 - Homo sapiens ribosomal protein L9, mRNA (cDNA clone MGC:8704 IMAGE:2964733), complete cds.
AK130966 - Homo sapiens cDNA FLJ27456 fis, clone TST99901, highly similar to 60S ribosomal protein L9.
AK303908 - Homo sapiens cDNA FLJ52179 complete cds, highly similar to 60S ribosomal protein L9.
BC066318 - Homo sapiens ribosomal protein L9, mRNA (cDNA clone MGC:87207 IMAGE:5277491), complete cds.
LF210608 - JP 2014500723-A/18111: Polycomb-Associated Non-Coding RNAs.
AY320412 - Homo sapiens nasopharyngeal carcinoma-associated antigen NPC-A-16 mRNA, complete cds.
LF208489 - JP 2014500723-A/15992: Polycomb-Associated Non-Coding RNAs.
AK312241 - Homo sapiens cDNA, FLJ92535, Homo sapiens ribosomal protein L9 (RPL9), mRNA.
DQ892727 - Synthetic construct clone IMAGE:100005357; FLH189153.01X; RZPDo839C0274D ribosomal protein L9 (RPL9) gene, encodes complete protein.
DQ892959 - Synthetic construct Homo sapiens clone IMAGE:100005589; FLH263532.01X; RZPDo839A0577D ribosomal protein L9 (RPL9) gene, encodes complete protein.
DQ895974 - Synthetic construct Homo sapiens clone IMAGE:100010434; FLH189149.01L; RZPDo839C0264D ribosomal protein L9 (RPL9) gene, encodes complete protein.
AB529031 - Synthetic construct DNA, clone: pF1KB3429, Homo sapiens RPL9 gene for ribosomal protein L9, without stop codon, in Flexi system.
MA446185 - JP 2018138019-A/18111: Polycomb-Associated Non-Coding RNAs.
MA444066 - JP 2018138019-A/15992: Polycomb-Associated Non-Coding RNAs.
LF339234 - JP 2014500723-A/146737: Polycomb-Associated Non-Coding RNAs.
JD190153 - Sequence 171177 from Patent EP1572962.
LF376973 - JP 2014500723-A/184476: Polycomb-Associated Non-Coding RNAs.
JD019249 - Sequence 273 from Patent EP1572962.
JD035736 - Sequence 16760 from Patent EP1572962.
LF358632 - JP 2014500723-A/166135: Polycomb-Associated Non-Coding RNAs.
DQ592209 - Homo sapiens piRNA piR-59321, complete sequence.
LF376972 - JP 2014500723-A/184475: Polycomb-Associated Non-Coding RNAs.
LF338298 - JP 2014500723-A/145801: Polycomb-Associated Non-Coding RNAs.
MA574811 - JP 2018138019-A/146737: Polycomb-Associated Non-Coding RNAs.
MA612550 - JP 2018138019-A/184476: Polycomb-Associated Non-Coding RNAs.
MA594209 - JP 2018138019-A/166135: Polycomb-Associated Non-Coding RNAs.
MA612549 - JP 2018138019-A/184475: Polycomb-Associated Non-Coding RNAs.
MA573875 - JP 2018138019-A/145801: Polycomb-Associated Non-Coding RNAs.
DL492354 - Novel nucleic acids.
DL490843 - Novel nucleic acids.
D28399 - Homo sapiens mRNA for ribosomal protein L9, 5'UTR region.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P32969 (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: D28399, NM_001024921, NP_001020092, OK/SW-cl.103, P32969, RL9_HUMAN, RPL9P7, RPL9P8, RPL9P9
UCSC ID: uc022btz.1
Representative RNA: D28399
Protein: P32969 (aka RL9_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: D28399.1
exon count: 1CDS single in 3' UTR: no RNA size: 32
ORF size: 579CDS single in intron: no Alignment % ID: 96.88
txCdsPredict score: 779.00frame shift in genome: no % Coverage: 87.50
has start codon: yes stop codon in genome: no # of Alignments: 3
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.