Human Gene GPATCH2L (uc001xsh.3)
  Description: Homo sapiens G patch domain containing 2-like (GPATCH2L), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr14:76,618,259-76,669,134 Size: 50,876 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr14:76,620,707-76,668,194 Size: 47,488 Coding Exon Count: 9 

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 (chr14:76,618,259-76,669,134)mRNA (may differ from genome)Protein (482 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GPT2L_HUMAN
DESCRIPTION: RecName: Full=G patch domain-containing protein 2-like;
SEQUENCE CAUTION: Sequence=BAA86466.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAA91325.1; Type=Frameshift; Positions=344; Sequence=BAA91411.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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: 7.70 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 161.78 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 -37.0086-0.430 Picture PostScript Text
3' UTR -271.34940-0.289 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
IPR026291 - Gpatch2

ModBase Predicted Comparative 3D Structure on Q9NWQ4
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 orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding


-  Descriptions from all associated GenBank mRNAs
  BC058032 - Homo sapiens chromosome 14 open reading frame 118, mRNA (cDNA clone MGC:61896 IMAGE:4703539), complete cds.
AB032978 - Homo sapiens mRNA for KIAA1152 protein, partial cds.
AK000696 - Homo sapiens cDNA FLJ20689 fis, clone KAIA2890.
JD302244 - Sequence 283268 from Patent EP1572962.
AK023523 - Homo sapiens cDNA FLJ13461 fis, clone PLACE1003375.
CU691290 - Synthetic construct Homo sapiens gateway clone IMAGE:100022417 5' read C14orf118 mRNA.
AB384124 - Synthetic construct DNA, clone: pF1KSDA1152, Homo sapiens C14orf118 gene for C14orf118 protein, complete cds, without stop codon, in Flexi system.
KJ902851 - Synthetic construct Homo sapiens clone ccsbBroadEn_12245 C14orf118 gene, encodes complete protein.
BC038835 - Homo sapiens, Similar to hypothetical protein FLJ20689, clone IMAGE:5164184, mRNA.
AK000895 - Homo sapiens cDNA FLJ10033 fis, clone HEMBA1000872.
JD207280 - Sequence 188304 from Patent EP1572962.
AK055384 - Homo sapiens cDNA FLJ30822 fis, clone FEBRA2001610.
JD351190 - Sequence 332214 from Patent EP1572962.
JD320939 - Sequence 301963 from Patent EP1572962.
JD400703 - Sequence 381727 from Patent EP1572962.
JD110689 - Sequence 91713 from Patent EP1572962.
JD513271 - Sequence 494295 from Patent EP1572962.
JD262671 - Sequence 243695 from Patent EP1572962.
JD317337 - Sequence 298361 from Patent EP1572962.
JD303837 - Sequence 284861 from Patent EP1572962.
JD240578 - Sequence 221602 from Patent EP1572962.
JD558903 - Sequence 539927 from Patent EP1572962.
JD371404 - Sequence 352428 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KN42, C14orf118, GPT2L_HUMAN, KIAA1152, NM_017926, NP_060396, Q6PEJ7, Q9H3M3, Q9NWH0, Q9NWQ4, Q9ULR8
UCSC ID: uc001xsh.3
RefSeq Accession: NM_017926
Protein: Q9NWQ4 (aka GPT2L_HUMAN)
CCDS: CCDS9848.1, CCDS9849.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_017926.2
exon count: 10CDS single in 3' UTR: no RNA size: 2478
ORF size: 1449CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2487.00frame shift in genome: no % Coverage: 99.88
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.