Human Gene RRP12 (uc009xvm.3)
  Description: Homo sapiens ribosomal RNA processing 12 homolog (S. cerevisiae) (RRP12), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr10:99,116,458-99,150,601 Size: 34,144 Total Exon Count: 28 Strand: -
Coding Region
   Position: hg19 chr10:99,116,851-99,150,549 Size: 33,699 Coding Exon Count: 28 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:99,116,458-99,150,601)mRNA (may differ from genome)Protein (1015 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
TreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F5H456_HUMAN
DESCRIPTION: SubName: Full=RRP12-like protein;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RRP12
CDC HuGE Published Literature: RRP12

-  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: 12.57 RPKM in Testis
Total median expression: 246.52 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 -2.6052-0.050 Picture PostScript Text
3' UTR -153.60393-0.391 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
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR012978 - Uncharacterised_NUC173

Pfam Domains:
PF08161 - NUC173 domain

SCOP Domains:
48371 - ARM repeat

ModBase Predicted Comparative 3D Structure on F5H456
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK056614 - Homo sapiens cDNA FLJ32052 fis, clone NTONG2001532, weakly similar to NEUROFILAMENT TRIPLET M PROTEIN.
BC002621 - Homo sapiens ribosomal RNA processing 12 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3161717), partial cds.
AL832924 - Homo sapiens mRNA; cDNA DKFZp762P1116 (from clone DKFZp762P1116).
BC012745 - Homo sapiens ribosomal RNA processing 12 homolog (S. cerevisiae), mRNA (cDNA clone MGC:15361 IMAGE:4025242), complete cds.
AK021460 - Homo sapiens cDNA FLJ11398 fis, clone HEMBA1000637.
AK131283 - Homo sapiens cDNA FLJ16235 fis, clone FEBRA2028516.
AB014590 - Homo sapiens KIAA0690 mRNA for KIAA0690 protein.
AK022496 - Homo sapiens cDNA FLJ12434 fis, clone NT2RM1000037, highly similar to Homo sapiens mRNA for KIAA0690 protein.
JD497123 - Sequence 478147 from Patent EP1572962.
JD144304 - Sequence 125328 from Patent EP1572962.
JD405363 - Sequence 386387 from Patent EP1572962.
JD260875 - Sequence 241899 from Patent EP1572962.
JD377543 - Sequence 358567 from Patent EP1572962.
JD515883 - Sequence 496907 from Patent EP1572962.
JD537113 - Sequence 518137 from Patent EP1572962.
JD137509 - Sequence 118533 from Patent EP1572962.
JD441329 - Sequence 422353 from Patent EP1572962.
JD543575 - Sequence 524599 from Patent EP1572962.
JD443715 - Sequence 424739 from Patent EP1572962.
AK296315 - Homo sapiens cDNA FLJ58506 complete cds.
JD218266 - Sequence 199290 from Patent EP1572962.
AB383957 - Synthetic construct DNA, clone: pF1KSDA0690, Homo sapiens RRP12 gene for RRP12-like protein, complete cds, without stop codon, in Flexi system.
AK000238 - Homo sapiens cDNA FLJ20231 fis, clone COLF5511, highly similar to AB014590 Homo sapiens mRNA for KIAA0690 protein.

-  Other Names for This Gene
  Alternate Gene Symbols: AK131283, F5H456, F5H456_HUMAN, NM_001145114, NP_001138586
UCSC ID: uc009xvm.3
RefSeq Accession: NM_001145114
Protein: F5H456

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK131283.1
exon count: 28CDS single in 3' UTR: no RNA size: 3501
ORF size: 3048CDS single in intron: no Alignment % ID: 99.77
txCdsPredict score: 6122.00frame shift in genome: no % Coverage: 99.74
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.