Human Gene NAXD (uc001vrc.3)
  Description: Homo sapiens carbohydrate kinase domain containing (NAXD), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr13:111,267,931-111,292,342 Size: 24,412 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr13:111,268,022-111,290,868 Size: 22,847 Coding Exon Count: 10 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:111,267,931-111,292,342)mRNA (may differ from genome)Protein (390 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHPRDLynxMGIOMIMPubMed
ReactomeTreefamUniProtKBWikipediaBioGrid 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: 46.41 RPKM in Ovary
Total median expression: 1180.77 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 -37.7091-0.414 Picture PostScript Text
3' UTR -520.841474-0.353 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
  Pfam Domains:
PF01256 - Carbohydrate kinase

SCOP Domains:
53613 - Ribokinase-like

ModBase Predicted Comparative 3D Structure on Q8IW45-2
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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
Gene Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK298917 - Homo sapiens cDNA FLJ55241 complete cds.
AK093771 - Homo sapiens cDNA FLJ36452 fis, clone THYMU2013916.
AX748297 - Sequence 1822 from Patent EP1308459.
AK302117 - Homo sapiens cDNA FLJ55262 complete cds.
AK296758 - Homo sapiens cDNA FLJ61130 complete cds.
AK057767 - Homo sapiens cDNA FLJ25038 fis, clone CBL03089.
AK296227 - Homo sapiens cDNA FLJ52550 complete cds.
BC000577 - Homo sapiens hypothetical protein FLJ10769, mRNA (cDNA clone IMAGE:3162721), **** WARNING: chimeric clone ****.
AK024260 - Homo sapiens cDNA FLJ14198 fis, clone NT2RP3002512.
BC041028 - Homo sapiens carbohydrate kinase domain containing, mRNA (cDNA clone MGC:52265 IMAGE:4098260), complete cds.
AK001631 - Homo sapiens cDNA FLJ10769 fis, clone NT2RP4000151.
AK225129 - Homo sapiens mRNA for FLJ10769 protein variant, clone: CBL04383.
KJ902870 - Synthetic construct Homo sapiens clone ccsbBroadEn_12264 CARKD gene, encodes complete protein.
AF091088 - Homo sapiens clone 664 unknown mRNA, partial sequence.
AK058043 - Homo sapiens cDNA FLJ25314 fis, clone SYN01173.
AK091867 - Homo sapiens cDNA FLJ34548 fis, clone HLUNG2009225.
AY203948 - Homo sapiens LP3298 mRNA, complete cds.
JD303975 - Sequence 284999 from Patent EP1572962.
JD142522 - Sequence 123546 from Patent EP1572962.
JD478178 - Sequence 459202 from Patent EP1572962.
JD164447 - Sequence 145471 from Patent EP1572962.
JD142088 - Sequence 123112 from Patent EP1572962.
JD232660 - Sequence 213684 from Patent EP1572962.
JD137908 - Sequence 118932 from Patent EP1572962.
BC005150 - Homo sapiens hypothetical protein FLJ10769, mRNA (cDNA clone IMAGE:3507998), partial cds.
JD465605 - Sequence 446629 from Patent EP1572962.
AF151071 - Homo sapiens HSPC237 mRNA, complete cds.
JD088038 - Sequence 69062 from Patent EP1572962.
JD404212 - Sequence 385236 from Patent EP1572962.
DQ588336 - Homo sapiens piRNA piR-55448, complete sequence.
JD484026 - Sequence 465050 from Patent EP1572962.
JD470907 - Sequence 451931 from Patent EP1572962.
BC006416 - Homo sapiens cDNA clone IMAGE:3628583.
JD483049 - Sequence 464073 from Patent EP1572962.
JD339409 - Sequence 320433 from Patent EP1572962.
JD291562 - Sequence 272586 from Patent EP1572962.
JD533171 - Sequence 514195 from Patent EP1572962.
JD426853 - Sequence 407877 from Patent EP1572962.
JD490924 - Sequence 471948 from Patent EP1572962.
JD236552 - Sequence 217576 from Patent EP1572962.
JD297075 - Sequence 278099 from Patent EP1572962.
JD252825 - Sequence 233849 from Patent EP1572962.
JD528497 - Sequence 509521 from Patent EP1572962.
JD506671 - Sequence 487695 from Patent EP1572962.
JD343706 - Sequence 324730 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8IW45 (Reactome details) participates in the following event(s):

R-HSA-6806967 CARKD dehydrates S-NAD(P)HX to NADPH
R-HSA-197264 Nicotinamide salvaging
R-HSA-196807 Nicotinate metabolism
R-HSA-196849 Metabolism of water-soluble vitamins and cofactors
R-HSA-196854 Metabolism of vitamins and cofactors
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: CARKD, NM_018210, NP_060680, Q8IW45-2
UCSC ID: uc001vrc.3
RefSeq Accession: NM_018210
Protein: Q8IW45-2, splice isoform of Q8IW45 CCDS: CCDS9513.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_018210.3
exon count: 10CDS single in 3' UTR: no RNA size: 2756
ORF size: 1173CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2430.00frame shift in genome: no % Coverage: 99.35
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.