Human Gene AK6 (uc003jwb.3)
  Description: Homo sapiens AK6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa (AK6), transcript variant 3, mRNA.
RefSeq Summary (NM_001015891): This gene encodes a protein that belongs to the adenylate kinase family of enzymes. The protein has a nuclear localization and contains Walker A (P-loop) and Walker B motifs and a metal-coordinating residue. The protein may be involved in regulation of Cajal body formation. In human, AK6 and TAF9 (GeneID: 6880) are two distinct genes that share 5' exons. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2013].
Transcript (Including UTRs)
   Position: hg19 chr5:68,647,553-68,665,840 Size: 18,288 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr5:68,647,888-68,665,502 Size: 17,615 Coding Exon Count: 5 

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 (chr5:68,647,553-68,665,840)mRNA (may differ from genome)Protein (169 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVLynxMGIPubMedReactomeTreefam
UniProtKBWikipediaBioGrid 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: 51.19 RPKM in Testis
Total median expression: 824.80 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 -129.00338-0.382 Picture PostScript Text
3' UTR -63.23335-0.189 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:
PF13207 - AAA domain
PF13238 - AAA domain

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases
53795 - PEP carboxykinase-like

ModBase Predicted Comparative 3D Structure on Q9Y3D8-2
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BC007349 - Homo sapiens TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, mRNA (cDNA clone MGC:1603 IMAGE:2966411), complete cds.
BC007426 - Homo sapiens TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, mRNA (cDNA clone MGC:3647 IMAGE:2966411), complete cds.
AF151895 - Homo sapiens CGI-137 protein mRNA, complete cds.
AF110777 - Homo sapiens adrenal gland protein AD-004 mRNA, complete cds.
JD088053 - Sequence 69077 from Patent EP1572962.
JD047355 - Sequence 28379 from Patent EP1572962.
AJ878880 - Homo sapiens mRNA for coilin-interacting nulcear ATPase protein (CINAP gene), from placenta.
AJ878881 - Homo sapiens mRNA for coilin-interacting nuclear ATPase protein (CINAP gene), clone library HeLa.
KJ905933 - Synthetic construct Homo sapiens clone ccsbBroadEn_15603 TAF9 gene, encodes complete protein.
EU831966 - Synthetic construct Homo sapiens clone HAIB:100066995; DKFZo008F0723 TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa protein (TAF9) gene, encodes complete protein.
EU832059 - Synthetic construct Homo sapiens clone HAIB:100067088; DKFZo004F0724 TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa protein (TAF9) gene, encodes complete protein.
JD026439 - Sequence 7463 from Patent EP1572962.
JD033734 - Sequence 14758 from Patent EP1572962.
U21858 - Human transcriptional activation factor TAFII32 mRNA, complete cds.
U25112 - Human TBP-associated factor TAFII31 mRNA, complete cds.
BC033320 - Homo sapiens TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, mRNA (cDNA clone MGC:42960 IMAGE:4837792), complete cds.
BC003400 - Homo sapiens TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa, mRNA (cDNA clone MGC:5067 IMAGE:3448836), complete cds.
U30504 - Human transcription initiation factor TFIID subunit TAFII31 mRNA, complete cds.
JD514808 - Sequence 495832 from Patent EP1572962.
JD431771 - Sequence 412795 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03022 - Basal transcription factors

Reactome (by CSHL, EBI, and GO)

Protein Q9Y3D8 (Reactome details) participates in the following event(s):

R-HSA-6788810 AK6 phosphorylates (d)NMPs to (d)NDPs
R-HSA-499943 Interconversion of nucleotide di- and triphosphates
R-HSA-15869 Metabolism of nucleotides
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: AD-004, CGI-137, CINAP, NM_001015891, NP_001015891, Q9Y3D8-2, TAF9
UCSC ID: uc003jwb.3
RefSeq Accession: NM_001015891
Protein: Q9Y3D8-2, splice isoform of Q9Y3D8 CCDS: CCDS43324.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001015891.1
exon count: 5CDS single in 3' UTR: no RNA size: 1199
ORF size: 510CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1192.00frame shift in genome: no % Coverage: 98.67
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.