Human Gene PRRG4 (uc001mtx.3) Description and Page Index
  Description: Homo sapiens proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane) (PRRG4), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:32,851,481-32,879,669 Size: 28,189 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr11:32,852,076-32,875,073 Size: 22,998 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:32,851,481-32,879,669)mRNA (may differ from genome)Protein (226 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: TMG4_HUMAN
DESCRIPTION: RecName: Full=Transmembrane gamma-carboxyglutamic acid protein 4; AltName: Full=Proline-rich gamma-carboxyglutamic acid protein 4; Short=Proline-rich Gla protein 4; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Expressed in lung, liver, kidney, pancreas and placenta.
PTM: Gla residues are produced after subsequent post-translational modifications of glutamate by a vitamin K-dependent gamma- carboxylase.
SIMILARITY: Contains 1 Gla (gamma-carboxy-glutamate) domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): PRRG4
CDC HuGE Published Literature: PRRG4
Positive Disease Associations: Parkinson Disease , Parkinson's disease (age of onset)
Related Studies:
  1. Parkinson Disease
    Jeanne C Latourelle et al. BMC medical genetics 2009, Genomewide association study for onset age in Parkinson disease., BMC medical genetics. [PubMed 19772629]
    Taken together, these results suggest an influence of genes involved in endocytosis and lysosomal sorting in PD pathogenesis.
  2. Parkinson's disease (age of onset)
    Latourelle ,et al. 2009, Genomewide Association Study for Onset Age in Parkinson Disease, BMC medical genetics 2009 10 : 98. [PubMed 19772629]
    Taken together, these results suggest an influence of genes involved in endocytosis and lysosomal sorting in PD pathogenesis.

-  MalaCards Disease Associations
  MalaCards Gene Search: PRRG4
Diseases sorted by gene-association score: wagr syndrome (5)

-  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: 16.17 RPKM in Esophagus - Mucosa
Total median expression: 112.24 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 -124.50261-0.477 Picture PostScript Text
3' UTR -1592.584596-0.347 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
IPR017857 - Coagulation_fac_subgr_Gla_dom
IPR000294 - GLA_domain

Pfam Domains:
PF00594 - Vitamin K-dependent carboxylation/gamma-carboxyglutamic (GLA) domain

SCOP Domains:
57630 - GLA-domain

ModBase Predicted Comparative 3D Structure on Q9BZD6
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 BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0005509 calcium ion binding

Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005576 extracellular region
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC010052 - Homo sapiens proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane), mRNA (cDNA clone MGC:19793 IMAGE:3841745), complete cds.
BC063393 - Homo sapiens proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane), mRNA (cDNA clone MGC:74683 IMAGE:5183337), complete cds.
JD129525 - Sequence 110549 from Patent EP1572962.
JD444040 - Sequence 425064 from Patent EP1572962.
AF326351 - Homo sapiens transmembrane gamma-carboxyglutamic acid protein 4 TMG4 mRNA, complete cds.
JD329474 - Sequence 310498 from Patent EP1572962.
KJ906308 - Synthetic construct Homo sapiens clone ccsbBroadEn_15978 PRRG4 gene, encodes complete protein.
KU178766 - Homo sapiens proline rich Gla 4 (transmembrane) isoform 1 (PRRG4) mRNA, partial cds.
KU178767 - Homo sapiens proline rich Gla 4 (transmembrane) isoform 2 (PRRG4) mRNA, complete cds, alternatively spliced.
KU178768 - Homo sapiens proline rich Gla 4 (transmembrane) isoform 3 (PRRG4) mRNA, complete cds, alternatively spliced.
DQ892884 - Synthetic construct clone IMAGE:100005514; FLH190640.01X; RZPDo839C0676D proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane) (PRRG4) gene, encodes complete protein.
DQ896133 - Synthetic construct Homo sapiens clone IMAGE:100010593; FLH190636.01L; RZPDo839C0666D proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane) (PRRG4) gene, encodes complete protein.
CU687690 - Synthetic construct Homo sapiens gateway clone IMAGE:100021624 5' read PRRG4 mRNA.
KJ894642 - Synthetic construct Homo sapiens clone ccsbBroadEn_04036 PRRG4 gene, encodes complete protein.
JD158938 - Sequence 139962 from Patent EP1572962.
JD208730 - Sequence 189754 from Patent EP1572962.
JD112123 - Sequence 93147 from Patent EP1572962.
JD488600 - Sequence 469624 from Patent EP1572962.
JD488211 - Sequence 469235 from Patent EP1572962.
JD544027 - Sequence 525051 from Patent EP1572962.
JD484525 - Sequence 465549 from Patent EP1572962.
JD473598 - Sequence 454622 from Patent EP1572962.
JD378246 - Sequence 359270 from Patent EP1572962.
JD537382 - Sequence 518406 from Patent EP1572962.
JD194819 - Sequence 175843 from Patent EP1572962.
BC063641 - Homo sapiens cDNA clone IMAGE:4745832, partial cds.
JD048019 - Sequence 29043 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_024081, NP_076986, PRGP4, Q9BZD6, TMG4, TMG4_HUMAN
UCSC ID: uc001mtx.3
RefSeq Accession: NM_024081
Protein: Q9BZD6 (aka TMG4_HUMAN)
CCDS: CCDS7881.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_024081.5
exon count: 6CDS single in 3' UTR: no RNA size: 5538
ORF size: 681CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1486.00frame 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: 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.