Human Gene GPN2 (uc001bnd.1)
  Description: Homo sapiens GPN-loop GTPase 2 (GPN2), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:27,205,873-27,216,869 Size: 10,997 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr1:27,206,168-27,216,587 Size: 10,420 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:27,205,873-27,216,869)mRNA (may differ from genome)Protein (310 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GPN2_HUMAN
DESCRIPTION: RecName: Full=GPN-loop GTPase 2; AltName: Full=ATP-binding domain 1 family member B;
SIMILARITY: Belongs to the GPN-loop GTPase family.

-  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: 10.22 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 317.67 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 -113.00282-0.401 Picture PostScript Text
3' UTR -104.90295-0.356 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

ModBase Predicted Comparative 3D Structure on Q9H9Y4
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 BrowserGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
  EnsemblFlyBaseWormBaseSGD
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence
  AlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003674 molecular_function
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0016787 hydrolase activity

Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005575 cellular_component
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AY358864 - Homo sapiens clone DNA145690 AGAA5828 (UNQ5828) mRNA, complete cds.
LF206657 - JP 2014500723-A/14160: Polycomb-Associated Non-Coding RNAs.
BC007815 - Homo sapiens GPN-loop GTPase 2, mRNA (cDNA clone MGC:14380 IMAGE:4299794), complete cds.
BC008634 - Homo sapiens GPN-loop GTPase 2, mRNA (cDNA clone MGC:9656 IMAGE:3463813), complete cds.
BC020272 - Homo sapiens GPN-loop GTPase 2, mRNA (cDNA clone IMAGE:3544026).
AK022535 - Homo sapiens cDNA FLJ12473 fis, clone NT2RM1000924, weakly similar to HYPOTHETICAL 39.7 KD PROTEIN C34E10.2 IN CHROMOSOME III.
AK001211 - Homo sapiens cDNA FLJ10349 fis, clone NT2RM2001100.
JD396731 - Sequence 377755 from Patent EP1572962.
JD287931 - Sequence 268955 from Patent EP1572962.
JD465984 - Sequence 447008 from Patent EP1572962.
JD218405 - Sequence 199429 from Patent EP1572962.
JD542194 - Sequence 523218 from Patent EP1572962.
AY364261 - Homo sapiens clone peg2039 hypothetical protein (FLJ10349) mRNA, complete cds.
JD444567 - Sequence 425591 from Patent EP1572962.
JD450394 - Sequence 431418 from Patent EP1572962.
JD253929 - Sequence 234953 from Patent EP1572962.
JD267884 - Sequence 248908 from Patent EP1572962.
JD060719 - Sequence 41743 from Patent EP1572962.
JD535648 - Sequence 516672 from Patent EP1572962.
JD310093 - Sequence 291117 from Patent EP1572962.
HQ448689 - Synthetic construct Homo sapiens clone IMAGE:100072132; CCSB002785_02 ATP binding domain 1 family, member B (GPN2) gene, encodes complete protein.
KJ899010 - Synthetic construct Homo sapiens clone ccsbBroadEn_08404 GPN2 gene, encodes complete protein.
KJ899011 - Synthetic construct Homo sapiens clone ccsbBroadEn_08405 GPN2 gene, encodes complete protein.
CU675813 - Synthetic construct Homo sapiens gateway clone IMAGE:100018832 5' read ATPBD1B mRNA.
LF356961 - JP 2014500723-A/164464: Polycomb-Associated Non-Coding RNAs.
JD024466 - Sequence 5490 from Patent EP1572962.
JD036134 - Sequence 17158 from Patent EP1572962.
JD025062 - Sequence 6086 from Patent EP1572962.
JD393712 - Sequence 374736 from Patent EP1572962.
JD032017 - Sequence 13041 from Patent EP1572962.
JD228277 - Sequence 209301 from Patent EP1572962.
MA442234 - JP 2018138019-A/14160: Polycomb-Associated Non-Coding RNAs.
MA592538 - JP 2018138019-A/164464: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ATPBD1B, GPN2_HUMAN, NM_018066, NP_060536, Q96HG4, Q9H9Y4, Q9NUE1, Q9NW30, UNQ5828/PRO19647
UCSC ID: uc001bnd.1
RefSeq Accession: NM_018066
Protein: Q9H9Y4 (aka GPN2_HUMAN)
CCDS: CCDS289.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_018066.3
exon count: 5CDS single in 3' UTR: no RNA size: 1510
ORF size: 933CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2066.00frame 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.