Human Gene RRP12 (ENST00000370992.9_11) from GENCODE V47lift37
  Description: ribosomal RNA processing 12 homolog, transcript variant 1 (from RefSeq NM_015179.4)
Gencode Transcript: ENST00000370992.9_11
Gencode Gene: ENSG00000052749.15_16
Transcript (Including UTRs)
   Position: hg19 chr10:99,116,458-99,161,097 Size: 44,640 Total Exon Count: 34 Strand: -
Coding Region
   Position: hg19 chr10:99,116,851-99,160,988 Size: 44,138 Coding Exon Count: 34 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:99,116,458-99,161,097)mRNA (may differ from genome)Protein (1297 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RRP12_HUMAN
DESCRIPTION: RecName: Full=RRP12-like protein;
INTERACTION: Q9NY93:DDX56; NbExp=1; IntAct=EBI-310743, EBI-372376;
SUBCELLULAR LOCATION: Nucleus, nucleolus. Nucleus membrane; Single-pass membrane protein (Potential).
TISSUE SPECIFICITY: Weakly expressed. Expressed at intermediate level in testis and ovary.
SIMILARITY: Belongs to the RRP12 family.
SEQUENCE CAUTION: Sequence=BAA31665.1; Type=Erroneous initiation;

-  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

+  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 -31.60109-0.290 Picture PostScript Text
3' UTR -149.50393-0.380 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
48431 - Lipovitellin-phosvitin complex, superhelical domain

ModBase Predicted Comparative 3D Structure on Q5JTH9
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 orthologGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031965 nuclear membrane


-  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.
BC042908 - Homo sapiens KIAA0690, mRNA (cDNA clone IMAGE:5480170), partial cds.
CU680388 - Synthetic construct Homo sapiens gateway clone IMAGE:100020578 5' read RRP12 mRNA.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DK00, E9PCK7, ENST00000370992.1, ENST00000370992.2, ENST00000370992.3, ENST00000370992.4, ENST00000370992.5, ENST00000370992.6, ENST00000370992.7, ENST00000370992.8, KIAA0690, NM_015179, Q5JTH8, Q5JTH9, Q69YK4, Q96E87, Q9BUH3, Q9Y4C7, RRP12_HUMAN, uc318iuw.1, uc318iuw.2
UCSC ID: ENST00000370992.9_11
RefSeq Accession: NM_015179.4
Protein: Q5JTH9 (aka RRP12_HUMAN)

-  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.