Human Gene GKN2 (uc002sfa.3) Description and Page Index
  Description: Homo sapiens gastrokine 2 (GKN2), mRNA.
RefSeq Summary (NM_182536): The secretory protein encoded by this gene is produced in gastric surface mucous cells, where it can bind trefoil factor family peptide 1 or gastrokine-1. This gene may be a tumor suppressor gene, as its expression is markedly decreased in gastric cancer tissues. The encoded protein interacts with gastrokine-1 and regulates homeostasis of the gastric mucosa. [provided by RefSeq, Dec 2015]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: AF494509.2, AJ966788.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA2142586, SAMEA2147920 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000328895.9/ ENSP00000329292.4 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr2:69,172,364-69,180,102 Size: 7,739 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr2:69,172,500-69,179,993 Size: 7,494 Coding Exon Count: 6 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:69,172,364-69,180,102)mRNA (may differ from genome)Protein (184 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: GKN2_HUMAN
DESCRIPTION: RecName: Full=Gastrokine-2; AltName: Full=Blottin; AltName: Full=Down-regulated in gastric cancer; AltName: Full=Trefoil factor interactions(z) 1; Flags: Precursor;
SUBUNIT: Interacts with TFF2 (By similarity). Heterodimer with TFF1; disulfide linked.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Expressed in gastric mucosa.
SIMILARITY: Contains 1 BRICHOS domain.

-  MalaCards Disease Associations
  MalaCards Gene Search: GKN2
Diseases sorted by gene-association score: gastric cancer, somatic (2), internuclear ophthalmoplegia (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 137.79 RPKM in Stomach
Total median expression: 150.27 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 -20.62109-0.189 Picture PostScript Text
3' UTR -12.68136-0.093 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
IPR007084 - BRICHOS_dom

Pfam Domains:
PF04089 - BRICHOS domain

ModBase Predicted Comparative 3D Structure on Q86XP6
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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    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0042127 regulation of cell proliferation

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0045178 basal part of cell


-  Descriptions from all associated GenBank mRNAs
  AF494509 - Homo sapiens GDDR (GDDR) mRNA, complete cds.
AY943908 - Homo sapiens blottin precursor, mRNA, complete cds.
AY358664 - Homo sapiens clone DNA57834 VLTI465 (UNQ465) mRNA, complete cds.
AJ966788 - Homo sapiens mRNA for TFIZ1 protein (XP114236 gene).
BC110809 - Homo sapiens gastrokine 2, mRNA (cDNA clone IMAGE:5186851), with apparent retained intron.
JD438701 - Sequence 419725 from Patent EP1572962.
JD363248 - Sequence 344272 from Patent EP1572962.
BC146484 - Synthetic construct Homo sapiens clone IMAGE:100015065, MGC:180188 gastrokine 2 (GKN2) mRNA, encodes complete protein.
BC140335 - Synthetic construct Homo sapiens clone IMAGE:100014309, MGC:173187 gastrokine 2 (GKN2) mRNA, encodes complete protein.
AB463672 - Synthetic construct DNA, clone: pF1KB7242, Homo sapiens GKN2 gene for gastrokine 2, without stop codon, in Flexi system.
JD067775 - Sequence 48799 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BLOT, GDDR, GKN2_HUMAN, NM_182536, NP_872342, Q6UWS6, Q86XP6, TFIZ1, UNQ465/PRO813
UCSC ID: uc002sfa.3
RefSeq Accession: NM_182536
Protein: Q86XP6 (aka GKN2_HUMAN)
CCDS: CCDS33215.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_182536.2
exon count: 6CDS single in 3' UTR: no RNA size: 826
ORF size: 555CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1310.00frame shift in genome: no % Coverage: 96.85
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.