Human Gene PPM1B (uc002rts.3)
  Description: Homo sapiens protein phosphatase, Mg2+/Mn2+ dependent, 1B (PPM1B), transcript variant 4, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:44,396,000-44,436,571 Size: 40,572 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr2:44,428,339-44,436,486 Size: 8,148 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:44,396,000-44,436,571)mRNA (may differ from genome)Protein (327 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMalacardsMGIPubMed
ReactomeUniProtKBWikipedia

-  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): PPM1B
CDC HuGE Published Literature: PPM1B

-  MalaCards Disease Associations
  MalaCards Gene Search: PPM1B
Diseases sorted by gene-association score: hypotonia-cystinuria syndrome* (15)
* = Manually curated disease association

-  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: 21.25 RPKM in Muscle - Skeletal
Total median expression: 534.61 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 -209.10428-0.489 Picture PostScript Text
3' UTR -30.0085-0.353 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
  Pfam Domains:
PF00481 - Protein phosphatase 2C
PF07830 - Protein serine/threonine phosphatase 2C, C-terminal domain

SCOP Domains:
81606 - Protein serine/threonine phosphatase 2C, catalytic domain

ModBase Predicted Comparative 3D Structure on O75688-5
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  DQ023509 - Homo sapiens PPM1B beta isoform variant 4 (PPM1B) mRNA, complete cds, alternatively spliced.
AK056009 - Homo sapiens cDNA FLJ31447 fis, clone NT2NE2000913, highly similar to Protein phosphatase 2C isoform beta (EC 3.1.3.16).
DQ023510 - Homo sapiens PPM1B beta isoform variant 5 (PPM1B) mRNA, complete cds, alternatively spliced.
AK291214 - Homo sapiens cDNA FLJ77281 complete cds, highly similar to Homo sapiens protein phosphatase 1B (formerly 2C),magnesium-dependent, beta isoform (PPM1B), transcript variant 2,mRNA.
DQ023508 - Homo sapiens PPM1B beta isoform variant 2 (PPM1B) mRNA, complete cds, alternatively spliced.
DQ023511 - Homo sapiens PPM1B beta isoform variant 6 (PPM1B) mRNA, partial cds, alternatively spliced.
BC064381 - Homo sapiens protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform, mRNA (cDNA clone MGC:74583 IMAGE:5734287), complete cds.
AJ271832 - Homo sapiens mRNA for protein phosphatase 1B2 (PPM1B2 gene).
AJ271835 - Homo sapiens mRNA for protein phosphatase 1B1 (PPM1B1 gene).
BC012002 - Homo sapiens protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform, mRNA (cDNA clone IMAGE:4517367), complete cds.
AL833035 - Homo sapiens mRNA; cDNA DKFZp666O168 (from clone DKFZp666O168).
AB464099 - Synthetic construct DNA, clone: pF1KB8150, Homo sapiens PPM1B gene for protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform, without stop codon, in Flexi system.
AJ005801 - Homo sapiens mRNA for protein phosphatase 2C (beta).
AF294792 - Homo sapiens Ser/Thr protein phosphatase type 2C beta 2 isoform mRNA, complete cds, alternatively spliced.
AF136972 - Homo sapiens protein phosphatase 2C-like protein mRNA, complete cds.
JD271926 - Sequence 252950 from Patent EP1572962.
JD056799 - Sequence 37823 from Patent EP1572962.
JD484754 - Sequence 465778 from Patent EP1572962.
JD520869 - Sequence 501893 from Patent EP1572962.
JD192223 - Sequence 173247 from Patent EP1572962.
JD126461 - Sequence 107485 from Patent EP1572962.
JD126462 - Sequence 107486 from Patent EP1572962.
JD130548 - Sequence 111572 from Patent EP1572962.
JD328839 - Sequence 309863 from Patent EP1572962.
JD438591 - Sequence 419615 from Patent EP1572962.
HQ448711 - Synthetic construct Homo sapiens clone IMAGE:100072155; CCSB008740_01 protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform (PPM1B) gene, encodes complete protein.
KJ891861 - Synthetic construct Homo sapiens clone ccsbBroadEn_01255 PPM1B gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04010 - MAPK signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein O75688 (Reactome details) participates in the following event(s):

R-HSA-1169405 ISGylation of protein phosphatase 1 beta (PP2CB)
R-HSA-1169408 ISG15 antiviral mechanism
R-HSA-1169410 Antiviral mechanism by IFN-stimulated genes
R-HSA-913531 Interferon Signaling
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001033556, NP_001028728, O75688-5, PP2CB
UCSC ID: uc002rts.3
RefSeq Accession: NM_001033556
Protein: O75688-5, splice isoform of O75688 CCDS: CCDS46272.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001033556.1
exon count: 3CDS single in 3' UTR: no RNA size: 1497
ORF size: 984CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2021.00frame 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: 105# 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.