Mouse Gene Rpl12 (ENSMUST00000126610.1) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus ribosomal protein L12 (Rpl12), mRNA. (from RefSeq NM_009076)
Gencode Transcript: ENSMUST00000126610.1
Gencode Gene: ENSMUSG00000038900.17
Transcript (Including UTRs)
   Position: mm10 chr2:32,961,559-32,964,496 Size: 2,938 Total Exon Count: 7 Strand: +
Coding Region
   Position: mm10 chr2:32,961,803-32,963,996 Size: 2,194 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:32,961,559-32,964,496)mRNA (may differ from genome)Protein (165 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsPubMedSOURCE
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q5BLK0_MOUSE
DESCRIPTION: SubName: Full=MCG18564, isoform CRA_a; SubName: Full=MCG20026; SubName: Full=Ribosomal protein L12;
SIMILARITY: Belongs to the ribosomal protein L11P family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -103.00244-0.422 Picture PostScript Text
3' UTR -140.50500-0.281 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
IPR000911 - Ribosomal_L11
IPR020783 - Ribosomal_L11_C
IPR020785 - Ribosomal_L11_CS
IPR020784 - Ribosomal_L11_N

Pfam Domains:
PF00298 - Ribosomal protein L11, RNA binding domain
PF03946 - Ribosomal protein L11, N-terminal domain

SCOP Domains:
46906 - Ribosomal protein L11, C-terminal domain
54747 - Ribosomal L11/L12e N-terminal domain

ModBase Predicted Comparative 3D Structure on Q5BLK0
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserNo orthologNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details    Gene Details
Gene Sorter    Gene Sorter
GenBank EnsemblEnsemblWormBaseSGD
Protein Sequence  Protein SequenceProtein Sequence 
Alignment  AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003735 structural constituent of ribosome

Biological Process:
GO:0006412 translation

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005840 ribosome


-  Descriptions from all associated GenBank mRNAs
  LF193265 - JP 2014500723-A/768: Polycomb-Associated Non-Coding RNAs.
AK167761 - Mus musculus TIB-55 BB88 cDNA, RIKEN full-length enriched library, clone:I730008D20 product:ribosomal protein L12, full insert sequence.
AK151532 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830031G18 product:ribosomal protein L12, full insert sequence.
AK012349 - Mus musculus 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2700038O13 product:ribosomal protein L12, full insert sequence.
AK002973 - Mus musculus adult male brain cDNA, RIKEN full-length enriched library, clone:0710001M22 product:ribosomal protein L12, full insert sequence.
AK151592 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830031P15 product:ribosomal protein L12, full insert sequence.
AK008347 - Mus musculus adult male small intestine cDNA, RIKEN full-length enriched library, clone:2010107K17 product:ribosomal protein L12, full insert sequence.
AK088464 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430018F03 product:ribosomal protein L12, full insert sequence.
AK144905 - Mus musculus lung RCB-0558 LLC cDNA, RIKEN full-length enriched library, clone:G730050P17 product:ribosomal protein L12, full insert sequence.
AK168121 - Mus musculus CRL-1722 L5178Y-R cDNA, RIKEN full-length enriched library, clone:I730058O21 product:ribosomal protein L12, full insert sequence.
AK012428 - Mus musculus 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2700054O07 product:ribosomal protein L12, full insert sequence.
AK150318 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830002M11 product:ribosomal protein L12, full insert sequence.
AK148566 - Mus musculus 2 days neonate sympathetic ganglion cDNA, RIKEN full-length enriched library, clone:7120408K13 product:ribosomal protein L12, full insert sequence.
BC018321 - Mus musculus ribosomal protein L12, mRNA (cDNA clone MGC:7907 IMAGE:3583073), complete cds.
L04280 - Mus musculus ribosomal protein (Rpl12) mRNA, complete cds.
BC081469 - Mus musculus ribosomal protein L12, mRNA (cDNA clone MGC:102182 IMAGE:6824411), complete cds.
BC075731 - Mus musculus ribosomal protein L12, mRNA (cDNA clone IMAGE:6511935), partial cds.
BC090393 - Mus musculus ribosomal protein L12, mRNA (cDNA clone MGC:102573 IMAGE:5011867), complete cds.
AK194205 - Mus musculus cDNA, clone:Y1G0114J21, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000062192, based on BLAT search.
AK198056 - Mus musculus cDNA, clone:Y1G0127A01, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000062192, based on BLAT search.
AK204715 - Mus musculus cDNA, clone:Y1G0149G10, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000062192, based on BLAT search.
DQ548284 - Mus musculus piRNA piR-16396, complete sequence.
AK207120 - Mus musculus cDNA, clone:Y2G0106P20, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000062192, based on BLAT search.
AK214195 - Mus musculus cDNA, clone:Y2G0131A01, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000062192, based on BLAT search.
MA428842 - JP 2018138019-A/768: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu03010 - Ribosome

-  Other Names for This Gene
  Alternate Gene Symbols: mCG_18564, mCG_20026, NM_009076, Q5BLK0, Q5BLK0_MOUSE, RP23-365F1.2-001, uc008jhe.1, uc008jhe.2, uc008jhe.3
UCSC ID: uc008jhe.3
RefSeq Accession: NM_009076
Protein: Q5BLK0 CCDS: CCDS15936.1

-  Gene Model Information
  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.