Human Gene CLEC17A (uc010xnu.2)
  Description: Homo sapiens C-type lectin domain family 17, member A (CLEC17A), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:14,693,896-14,721,956 Size: 28,061 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr19:14,693,973-14,717,860 Size: 23,888 Coding Exon Count: 12 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:14,693,896-14,721,956)mRNA (may differ from genome)Protein (265 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIOMIMPubMed
UniProtKBBioGrid CRISPR DB

-  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


+  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: 58.48 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 72.53 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 -27.3077-0.355 Picture PostScript Text
3' UTR -405.601135-0.357 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
  ModBase Predicted Comparative 3D Structure on Q6ZS10-2
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK127809 - Homo sapiens cDNA FLJ45910 fis, clone PEBLM2003935.
BC140848 - Homo sapiens C-type lectin domain family 17, member A, mRNA (cDNA clone MGC:176525 IMAGE:9021716), complete cds.
BC144664 - Homo sapiens cDNA clone IMAGE:9053195.
BC144665 - Homo sapiens C-type lectin domain family 17, member A, mRNA (cDNA clone MGC:178213 IMAGE:9053196), complete cds.
KJ905667 - Synthetic construct Homo sapiens clone ccsbBroadEn_15319 CLEC17A-like gene, encodes complete protein.
JD197523 - Sequence 178547 from Patent EP1572962.
JD293173 - Sequence 274197 from Patent EP1572962.
JD270485 - Sequence 251509 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BC144665, NM_207390, NP_997273, Q6ZS10-2
UCSC ID: uc010xnu.2
RefSeq Accession: NM_207390
Protein: Q6ZS10-2, splice isoform of Q6ZS10

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC144665.1
exon count: 13CDS single in 3' UTR: no RNA size: 1247
ORF size: 798CDS single in intron: no Alignment % ID: 99.92
txCdsPredict score: 1628.00frame 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.