Human Gene PBDC1 (ENST00000373357.3_3) from GENCODE V47lift37
  Description: polysaccharide biosynthesis domain containing 1, transcript variant 2 (from RefSeq NM_001300888.2)
Gencode Transcript: ENST00000373357.3_3
Gencode Gene: ENSG00000102390.12_9
Transcript (Including UTRs)
   Position: hg19 chrX:75,392,875-75,398,031 Size: 5,157 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chrX:75,392,974-75,397,852 Size: 4,879 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:75,392,875-75,398,031)mRNA (may differ from genome)Protein (232 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: A6NDF3_HUMAN
DESCRIPTION: SubName: Full=UPF0368 protein Cxorf26;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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: 27.82 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 694.45 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 -34.2099-0.345 Picture PostScript Text
3' UTR -41.00179-0.229 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
IPR021148 - Put_polysacc_synth
IPR008476 - UPF0368_met/fun
IPR023139 - Yst0336-like_domain

Pfam Domains:
PF04669 - Polysaccharide biosynthesis

ModBase Predicted Comparative 3D Structure on A6NDF3
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 DetailsGene Details    
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-  Descriptions from all associated GenBank mRNAs
  AY927529 - Homo sapiens mRNA sequence.
AY927616 - Homo sapiens mRNA sequence.
BC001220 - Homo sapiens chromosome X open reading frame 26, mRNA (cDNA clone MGC:874 IMAGE:3528586), complete cds.
JD204006 - Sequence 185030 from Patent EP1572962.
AF151079 - Homo sapiens HSPC245 mRNA, complete cds.
BC051894 - Homo sapiens chromosome X open reading frame 26, mRNA (cDNA clone MGC:60319 IMAGE:6528202), complete cds.
CU674612 - Synthetic construct Homo sapiens gateway clone IMAGE:100020633 5' read CXorf26 mRNA.
HQ448025 - Synthetic construct Homo sapiens clone IMAGE:100071400; CCSB003629_04 chromosome X open reading frame 26 (CXorf26) gene, encodes complete protein.
KJ893866 - Synthetic construct Homo sapiens clone ccsbBroadEn_03260 CXorf26 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NDF3, A6NDF3_HUMAN, ENST00000373357.1, ENST00000373357.2, NM_001300888, PBDC1 , uc318krx.1, uc318krx.2
UCSC ID: ENST00000373357.3_3
RefSeq Accession: NM_001300888.2
Protein: A6NDF3

-  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.