Human Gene GPN3 (ENST00000228827.8_7) from GENCODE V47lift37
  Description: GPN-loop GTPase 3, transcript variant 1 (from RefSeq NM_016301.4)
Gencode Transcript: ENST00000228827.8_7
Gencode Gene: ENSG00000111231.9_9
Transcript (Including UTRs)
   Position: hg19 chr12:110,890,291-110,906,062 Size: 15,772 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr12:110,890,839-110,906,008 Size: 15,170 Coding Exon Count: 8 

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 (chr12:110,890,291-110,906,062)mRNA (may differ from genome)Protein (284 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GPN3_HUMAN
DESCRIPTION: RecName: Full=GPN-loop GTPase 3; AltName: Full=ATP-binding domain 1 family member C;
SUBUNIT: Homodimer.
SIMILARITY: Belongs to the GPN-loop GTPase family.
SEQUENCE CAUTION: Sequence=CAD97937.1; 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: 29.61 RPKM in Testis
Total median expression: 558.57 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 -18.4054-0.341 Picture PostScript Text
3' UTR -107.40548-0.196 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
IPR004130 - Uncharacterised_ATP-bd

Pfam Domains:
PF03029 - Conserved hypothetical ATP binding protein

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases
53795 - PEP carboxykinase-like

ModBase Predicted Comparative 3D Structure on Q9UHW5
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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0016787 hydrolase activity

Cellular Component:
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  BC008416 - Homo sapiens GPN-loop GTPase 3, mRNA (cDNA clone MGC:14560 IMAGE:4048678), complete cds.
LF384016 - JP 2014500723-A/191519: Polycomb-Associated Non-Coding RNAs.
BX537973 - Homo sapiens mRNA; cDNA DKFZp686I0686 (from clone DKFZp686I0686); complete cds.
BC031024 - Homo sapiens GPN-loop GTPase 3, mRNA (cDNA clone MGC:32810 IMAGE:4695834), complete cds.
AY359078 - Homo sapiens clone DNA84928 PRYA1876 (UNQ1876) mRNA, complete cds.
AF117229 - Homo sapiens protein x 0004 mRNA, complete cds.
AK223209 - Homo sapiens mRNA for protein x 0004 variant, clone: SPL03173.
JD488826 - Sequence 469850 from Patent EP1572962.
AY364262 - Homo sapiens clone peg2133 protein x 0004 mRNA, complete cds.
JD383046 - Sequence 364070 from Patent EP1572962.
AM992619 - Homo sapiens mRNA for GPN-loop GTPase 3 (GPN3 gene), from liver cDNA library.
AM992620 - Homo sapiens mRNA for GPN-loop GTPase 3 (GPN3 gene), from foetal ovary cDNA library.
AK314946 - Homo sapiens cDNA, FLJ95858, highly similar to Homo sapiens ATP binding domain 1 family, member C (ATPBD1C), mRNA.
CU689082 - Synthetic construct Homo sapiens gateway clone IMAGE:100022223 5' read ATPBD1C mRNA.
KJ898848 - Synthetic construct Homo sapiens clone ccsbBroadEn_08242 GPN3 gene, encodes complete protein.
KJ898849 - Synthetic construct Homo sapiens clone ccsbBroadEn_08243 GPN3 gene, encodes complete protein.
AB528074 - Synthetic construct DNA, clone: pF1KE0454, Homo sapiens GPN3 gene for GPN-loop GTPase 3, without stop codon, in Flexi system.
AM393009 - Synthetic construct Homo sapiens clone IMAGE:100002153 for hypothetical protein (ATPBD1C gene).
AM393821 - Synthetic construct Homo sapiens clone IMAGE:100002148 for hypothetical protein (ATPBD1C gene).
CU678955 - Synthetic construct Homo sapiens gateway clone IMAGE:100017623 5' read ATPBD1C mRNA.
LF359594 - JP 2014500723-A/167097: Polycomb-Associated Non-Coding RNAs.
MA619593 - JP 2018138019-A/191519: Polycomb-Associated Non-Coding RNAs.
MA595171 - JP 2018138019-A/167097: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AD-009, ATPBD1C, B2RC54, D4YWV1, ENST00000228827.1, ENST00000228827.2, ENST00000228827.3, ENST00000228827.4, ENST00000228827.5, ENST00000228827.6, ENST00000228827.7, F5H759, GPN3 , GPN3_HUMAN, NM_016301, Q53FS3, Q6UVZ6, Q7Z3D3, Q8NEI2, Q96HK9, Q9UHW5, uc317dot.1, uc317dot.2, UNQ1876/PRO4319
UCSC ID: ENST00000228827.8_7
RefSeq Accession: NM_016301.4
Protein: Q9UHW5 (aka GPN3_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.