Human Gene WDR6 (ENST00000608424.6_10) from GENCODE V47lift37
  Description: WD repeat domain 6, transcript variant 1 (from RefSeq NM_018031.6)
Gencode Transcript: ENST00000608424.6_10
Gencode Gene: ENSG00000178252.19_15
Transcript (Including UTRs)
   Position: hg19 chr3:49,044,824-49,053,384 Size: 8,561 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr3:49,044,865-49,052,721 Size: 7,857 Coding Exon Count: 6 

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 (chr3:49,044,824-49,053,384)mRNA (may differ from genome)Protein (1121 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: WDR6_HUMAN
DESCRIPTION: RecName: Full=WD repeat-containing protein 6;
FUNCTION: Enhances the STK11/LKB1-induced cell growth suppression activity. Negative regulator of amino acid starvation-induced autophagy.
SUBUNIT: Interacts with IRS4 (By similarity). Interacts with STK11/LKB1.
INTERACTION: Q15831:STK11; NbExp=3; IntAct=EBI-1568315, EBI-306838;
SUBCELLULAR LOCATION: Cytoplasm. Note=Colocalizes in the cytoplasm with STK11/LKB1.
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the WD repeat WDR6 family.
SIMILARITY: Contains 16 WD repeats.
SEQUENCE CAUTION: Sequence=BAG58164.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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           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: 96.01 RPKM in Ovary
Total median expression: 1832.99 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 -7.2041-0.176 Picture PostScript Text
3' UTR -237.30663-0.358 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
IPR011042 - 6-blade_b-propeller_TolB-like
IPR011044 - Quino_amine_DH_bsu
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
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 Q9NNW5
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0007049 cell cycle
GO:0007050 cell cycle arrest
GO:0008285 negative regulation of cell proliferation
GO:0010507 negative regulation of autophagy

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0008180 COP9 signalosome


-  Descriptions from all associated GenBank mRNAs
  KJ902215 - Synthetic construct Homo sapiens clone ccsbBroadEn_11609 WDR6 gene, encodes complete protein.
AK295145 - Homo sapiens cDNA FLJ56382 complete cds, highly similar to WD repeat protein 6.
AK296387 - Homo sapiens cDNA FLJ52552 complete cds, highly similar to WD repeat protein 6.
AF099100 - Homo sapiens WD-repeat protein 6 (WDR6) mRNA, complete cds.
AK001080 - Homo sapiens cDNA FLJ10218 fis, clone HEMBA1006936.
AK092079 - Homo sapiens cDNA FLJ34760 fis, clone NT2NE2001889, highly similar to WD repeat protein 6.
AX747346 - Sequence 871 from Patent EP1308459.
AK297090 - Homo sapiens cDNA FLJ56107 complete cds, highly similar to WD repeat protein 6.
AK309913 - Homo sapiens cDNA, FLJ99954.
AK225653 - Homo sapiens mRNA for WD repeat domain 6 protein variant, clone: STM02014.
BC143488 - Homo sapiens cDNA clone IMAGE:9051996, with apparent retained intron.
BC143486 - Homo sapiens cDNA clone IMAGE:9051994.
BC113467 - Homo sapiens WD repeat domain 6, mRNA (cDNA clone MGC:142027 IMAGE:8322519), complete cds.
BC101707 - Homo sapiens WD repeat domain 6, mRNA (cDNA clone MGC:126756 IMAGE:8069213), complete cds.
BC002826 - Homo sapiens WD repeat domain 6, mRNA (cDNA clone IMAGE:3636990), complete cds.
JD252671 - Sequence 233695 from Patent EP1572962.
AK304117 - Homo sapiens cDNA FLJ55348 complete cds, highly similar to WD repeat protein 6.
JD073115 - Sequence 54139 from Patent EP1572962.
JD549306 - Sequence 530330 from Patent EP1572962.
JD215342 - Sequence 196366 from Patent EP1572962.
AL833910 - Homo sapiens mRNA; cDNA DKFZp434F1720 (from clone DKFZp434F1720).
DQ600986 - Homo sapiens piRNA piR-39052, complete sequence.
AK022719 - Homo sapiens cDNA FLJ12657 fis, clone NT2RM4002140.
AL133589 - Homo sapiens mRNA; cDNA DKFZp434J039 (from clone DKFZp434J039).
BC078176 - Homo sapiens WD repeat domain 6, mRNA (cDNA clone IMAGE:6528453), partial cds.
CU678228 - Synthetic construct Homo sapiens gateway clone IMAGE:100016974 5' read WDR6 mRNA.
JD222971 - Sequence 203995 from Patent EP1572962.
JD477368 - Sequence 458392 from Patent EP1572962.
JD445867 - Sequence 426891 from Patent EP1572962.
JD484082 - Sequence 465106 from Patent EP1572962.
JD257330 - Sequence 238354 from Patent EP1572962.
LF208637 - JP 2014500723-A/16140: Polycomb-Associated Non-Coding RNAs.
CU691093 - Synthetic construct Homo sapiens gateway clone IMAGE:100021427 3' read DALRD3 mRNA.
LF378602 - JP 2014500723-A/186105: Polycomb-Associated Non-Coding RNAs.
JD376916 - Sequence 357940 from Patent EP1572962.
JD223784 - Sequence 204808 from Patent EP1572962.
LF378600 - JP 2014500723-A/186103: Polycomb-Associated Non-Coding RNAs.
JD545999 - Sequence 527023 from Patent EP1572962.
JD241616 - Sequence 222640 from Patent EP1572962.
JD372481 - Sequence 353505 from Patent EP1572962.
JD292824 - Sequence 273848 from Patent EP1572962.
JD282097 - Sequence 263121 from Patent EP1572962.
MA444214 - JP 2018138019-A/16140: Polycomb-Associated Non-Coding RNAs.
MA614179 - JP 2018138019-A/186105: Polycomb-Associated Non-Coding RNAs.
MA614177 - JP 2018138019-A/186103: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DHK2, ENST00000608424.1, ENST00000608424.2, ENST00000608424.3, ENST00000608424.4, ENST00000608424.5, NM_018031, Q3MIT1, Q9NNW5, Q9UF63, uc327lew.1, uc327lew.2, WDR6_HUMAN
UCSC ID: ENST00000608424.6_10
RefSeq Accession: NM_018031.6
Protein: Q9NNW5 (aka WDR6_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.