Human Gene PARP9 (uc003efi.3)
  Description: Homo sapiens poly (ADP-ribose) polymerase family, member 9 (PARP9), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr3:122,246,760-122,283,523 Size: 36,764 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr3:122,247,211-122,278,467 Size: 31,257 Coding Exon Count: 10 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:122,246,760-122,283,523)mRNA (may differ from genome)Protein (819 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMalacardsMGIOMIM
PubMedReactomeTreefamUniProtKBBioGrid 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


-  MalaCards Disease Associations
  MalaCards Gene Search: PARP9
Diseases sorted by gene-association score: b-cell lymphomas (8), lymphoma (8), diffuse large b-cell lymphoma (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 17.70 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 274.78 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 -133.40327-0.408 Picture PostScript Text
3' UTR -101.50451-0.225 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:
PF01661 - Macro domain

SCOP Domains:
52949 - Macro domain-like
56399 - ADP-ribosylation

ModBase Predicted Comparative 3D Structure on Q8IXQ6-2
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  LF210603 - JP 2014500723-A/18106: Polycomb-Associated Non-Coding RNAs.
MA446180 - JP 2018138019-A/18106: Polycomb-Associated Non-Coding RNAs.
LF385124 - JP 2014500723-A/192627: Polycomb-Associated Non-Coding RNAs.
BC039580 - Homo sapiens poly (ADP-ribose) polymerase family, member 9, mRNA (cDNA clone MGC:48722 IMAGE:5416494), complete cds.
AF307338 - Homo sapiens B aggressive lymphoma long isoform (BAL) mRNA, complete cds.
AF307339 - Homo sapiens B aggressive lymphoma short isoform (BAL) mRNA, complete cds.
AK130147 - Homo sapiens cDNA FLJ26637 fis, clone MPE00348, highly similar to Homo sapiens B aggressive lymphoma gene (BAL).
AL713679 - Homo sapiens mRNA; cDNA DKFZp761I1617 (from clone DKFZp761I1617).
AK123412 - Homo sapiens cDNA FLJ41418 fis, clone BRHIP2002122, highly similar to Homo sapiens B aggressive lymphoma long isoform (BAL) mRNA.
AL832929 - Homo sapiens mRNA; cDNA DKFZp666B0810 (from clone DKFZp666B0810).
BX648869 - Homo sapiens mRNA; cDNA DKFZp686M15238 (from clone DKFZp686M15238).
JD502898 - Sequence 483922 from Patent EP1572962.
AK299107 - Homo sapiens cDNA FLJ54723 complete cds, highly similar to Poly (ADP-ribose) polymerase 9 (EC 2.4.2.30).
AK292959 - Homo sapiens cDNA FLJ75114 complete cds, highly similar to Homo sapiens poly (ADP-ribose) polymerase family, member 9, mRNA.
JD327507 - Sequence 308531 from Patent EP1572962.
JD303457 - Sequence 284481 from Patent EP1572962.
JD510549 - Sequence 491573 from Patent EP1572962.
AK313494 - Homo sapiens cDNA, FLJ94047, highly similar to Homo sapiens poly (ADP-ribose) polymerase family, member 9 (PARP9), mRNA.
AB209742 - Homo sapiens mRNA for B aggressive lymphoma gene variant protein.
BC017463 - Homo sapiens poly (ADP-ribose) polymerase family, member 9, mRNA (cDNA clone IMAGE:4862464).
LF339153 - JP 2014500723-A/146656: Polycomb-Associated Non-Coding RNAs.
LF339152 - JP 2014500723-A/146655: Polycomb-Associated Non-Coding RNAs.
LF339150 - JP 2014500723-A/146653: Polycomb-Associated Non-Coding RNAs.
LF339145 - JP 2014500723-A/146648: Polycomb-Associated Non-Coding RNAs.
MA620701 - JP 2018138019-A/192627: Polycomb-Associated Non-Coding RNAs.
MA574730 - JP 2018138019-A/146656: Polycomb-Associated Non-Coding RNAs.
MA574729 - JP 2018138019-A/146655: Polycomb-Associated Non-Coding RNAs.
MA574727 - JP 2018138019-A/146653: Polycomb-Associated Non-Coding RNAs.
MA574722 - JP 2018138019-A/146648: Polycomb-Associated Non-Coding RNAs.

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

Protein Q8IXQ6 (Reactome details) participates in the following event(s):

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: BAL, NM_001146103, NP_001139577, Q8IXQ6-2
UCSC ID: uc003efi.3
RefSeq Accession: NM_001146103
Protein: Q8IXQ6-2, splice isoform of Q8IXQ6 CCDS: CCDS3014.1, CCDS54634.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001146103.1
exon count: 11CDS single in 3' UTR: no RNA size: 3254
ORF size: 2460CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5112.50frame shift in genome: no % Coverage: 99.51
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.