Human Gene PWP1 (ENST00000412830.8_4) from GENCODE V47lift37
  Description: PWP1 homolog, endonuclein, transcript variant 1 (from RefSeq NM_007062.3)
Gencode Transcript: ENST00000412830.8_4
Gencode Gene: ENSG00000136045.12_9
Transcript (Including UTRs)
   Position: hg19 chr12:108,079,576-108,106,939 Size: 27,364 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr12:108,079,677-108,105,997 Size: 26,321 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:108,079,576-108,106,939)mRNA (may differ from genome)Protein (501 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PWP1_HUMAN
DESCRIPTION: RecName: Full=Periodic tryptophan protein 1 homolog; AltName: Full=Keratinocyte protein IEF SSP 9502;
FUNCTION: May play an important role in cell growth and/or transcription.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: High levels seen in the placenta, skeletal muscle, kidney and pancreas while lower levels were seen in the heart, brain and lung.
SIMILARITY: Belongs to the WD repeat PWP1 family.
SIMILARITY: Contains 5 WD repeats.

-  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: 27.98 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 746.05 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 -24.70101-0.245 Picture PostScript Text
3' UTR -223.20942-0.237 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
IPR020472 - G-protein_beta_WD-40_rep
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on Q13610
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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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:1990889 H4K20me3 modified histone binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0033140 negative regulation of peptidyl-serine phosphorylation of STAT protein
GO:0034773 histone H4-K20 trimethylation
GO:1901838 positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter
GO:2000738 positive regulation of stem cell differentiation

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005794 Golgi apparatus


-  Descriptions from all associated GenBank mRNAs
  LF208841 - JP 2014500723-A/16344: Polycomb-Associated Non-Coding RNAs.
AK297961 - Homo sapiens cDNA FLJ51512 complete cds, highly similar to Periodic tryptophan protein 1 homolog.
BC010921 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4246434), complete cds.
AK223162 - Homo sapiens mRNA for nuclear phosphoprotein similar to S. cerevisiae PWP1 variant, clone: LNG10937.
BC032127 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:5016789), partial cds.
JD447943 - Sequence 428967 from Patent EP1572962.
BC001652 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:2763 IMAGE:2924215), complete cds.
L07758 - Human IEF SSP 9502 mRNA, complete cds.
BC046144 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4442558), partial cds.
JD474617 - Sequence 455641 from Patent EP1572962.
BC040135 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:6017666), partial cds.
BC000067 - Homo sapiens PWP1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3505077), partial cds.
LF323294 - JP 2014500723-A/130797: Polycomb-Associated Non-Coding RNAs.
AK290681 - Homo sapiens cDNA FLJ75662 complete cds, highly similar to Homo sapiens PWP1 homolog (S. cerevisiae) (PWP1), mRNA.
DQ892735 - Synthetic construct clone IMAGE:100005365; FLH189225.01X; RZPDo839C1174D PWP1 homolog (S. cerevisiae) (PWP1) gene, encodes complete protein.
DQ895982 - Synthetic construct Homo sapiens clone IMAGE:100010442; FLH189221.01L; RZPDo839C1164D PWP1 homolog (S. cerevisiae) (PWP1) gene, encodes complete protein.
DQ896014 - Synthetic construct Homo sapiens clone IMAGE:100010474; FLH263699.01L; RZPDo839F1164D PWP1 homolog (S. cerevisiae) (PWP1) gene, encodes complete protein.
CU679850 - Synthetic construct Homo sapiens gateway clone IMAGE:100022963 5' read PWP1 mRNA.
KJ902207 - Synthetic construct Homo sapiens clone ccsbBroadEn_11601 PWP1 gene, encodes complete protein.
CU674810 - Synthetic construct Homo sapiens gateway clone IMAGE:100017680 5' read PWP1 mRNA.
KJ898365 - Synthetic construct Homo sapiens clone ccsbBroadEn_07759 PWP1 gene, encodes complete protein.
LF323295 - JP 2014500723-A/130798: Polycomb-Associated Non-Coding RNAs.
AK296252 - Homo sapiens cDNA FLJ51513 complete cds, highly similar to Periodic tryptophan protein 1 homolog.
LF323297 - JP 2014500723-A/130800: Polycomb-Associated Non-Coding RNAs.
Z36804 - H.sapiens (xs152) mRNA, 250bp.
Z36805 - H.sapiens (xs153) mRNA, 400bp.
LF323298 - JP 2014500723-A/130801: Polycomb-Associated Non-Coding RNAs.
LF323301 - JP 2014500723-A/130804: Polycomb-Associated Non-Coding RNAs.
LF323303 - JP 2014500723-A/130806: Polycomb-Associated Non-Coding RNAs.
LF323304 - JP 2014500723-A/130807: Polycomb-Associated Non-Coding RNAs.
LF323306 - JP 2014500723-A/130809: Polycomb-Associated Non-Coding RNAs.
LF323307 - JP 2014500723-A/130810: Polycomb-Associated Non-Coding RNAs.
JD377865 - Sequence 358889 from Patent EP1572962.
JD265345 - Sequence 246369 from Patent EP1572962.
JD312932 - Sequence 293956 from Patent EP1572962.
MA558871 - JP 2018138019-A/130797: Polycomb-Associated Non-Coding RNAs.
MA558872 - JP 2018138019-A/130798: Polycomb-Associated Non-Coding RNAs.
MA558874 - JP 2018138019-A/130800: Polycomb-Associated Non-Coding RNAs.
MA558875 - JP 2018138019-A/130801: Polycomb-Associated Non-Coding RNAs.
MA558878 - JP 2018138019-A/130804: Polycomb-Associated Non-Coding RNAs.
MA558880 - JP 2018138019-A/130806: Polycomb-Associated Non-Coding RNAs.
MA558881 - JP 2018138019-A/130807: Polycomb-Associated Non-Coding RNAs.
MA558883 - JP 2018138019-A/130809: Polycomb-Associated Non-Coding RNAs.
MA558884 - JP 2018138019-A/130810: Polycomb-Associated Non-Coding RNAs.
MA444418 - JP 2018138019-A/16344: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A8K3R6, ENST00000412830.1, ENST00000412830.2, ENST00000412830.3, ENST00000412830.4, ENST00000412830.5, ENST00000412830.6, ENST00000412830.7, NM_007062, PWP1_HUMAN, Q13610, Q7Z3X9, uc319iuq.1, uc319iuq.2
UCSC ID: ENST00000412830.8_4
RefSeq Accession: NM_007062.3
Protein: Q13610 (aka PWP1_HUMAN)

-  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.