Human Gene WDTC1 (ENST00000319394.8_12) from GENCODE V47lift37
  Description: May function as a substrate receptor for CUL4-DDB1 E3 ubiquitin-protein ligase complex. (from UniProt Q8N5D0)
Gencode Transcript: ENST00000319394.8_12
Gencode Gene: ENSG00000142784.16_16
Transcript (Including UTRs)
   Position: hg19 chr1:27,561,123-27,635,127 Size: 74,005 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr1:27,587,546-27,632,874 Size: 45,329 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:27,561,123-27,635,127)mRNA (may differ from genome)Protein (677 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsHGNC
MalacardsMGIPubMedReactomeUniProtKB

-  Comments and Description Text from UniProtKB
  ID: WDTC1_HUMAN
DESCRIPTION: RecName: Full=WD and tetratricopeptide repeats protein 1;
SIMILARITY: Contains 2 TPR repeats.
SIMILARITY: Contains 7 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


-  MalaCards Disease Associations
  MalaCards Gene Search: WDTC1
Diseases sorted by gene-association score: ectrodactyly, ectodermal dysplasia, and cleft lip-palate syndrome 1 (4), hermansky-pudlak syndrome 2 (2), alzheimer disease 8 (2), commensal bacterial infectious disease (2), blood coagulation disease (2), primary bacterial infectious disease (2), hemorrhagic disease (2), blood platelet disease (2), leber congenital amaurosis 16 (1), hyperornithinemia-hyperammonemia-homocitrullinemia syndrome (1), alveolar periostitis (1), glycogen storage disease vii (1), retinitis pigmentosa, y-linked (1), d-2-hydroxyglutaric aciduria (1), branch retinal artery occlusion (1), avoidant personality disorder (1)

-  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: 49.74 RPKM in Testis
Total median expression: 1057.94 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 -189.30419-0.452 Picture PostScript Text
3' UTR -863.802253-0.383 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
IPR013026 - TPR-contain_dom
IPR011990 - TPR-like_helical
IPR013105 - TPR_2
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR017986 - WD40_repeat_dom

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

SCOP Domains:
81901 - HCP-like
48439 - Protein prenylyltransferase
48452 - TPR-like
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
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

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3I7N - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8N5D0
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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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004857 enzyme inhibitor activity
GO:0005515 protein binding
GO:0042393 histone binding
GO:0042826 histone deacetylase binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001701 in utero embryonic development
GO:0006006 glucose metabolic process
GO:0008361 regulation of cell size
GO:0016567 protein ubiquitination
GO:0032869 cellular response to insulin stimulus
GO:0035264 multicellular organism growth
GO:0043086 negative regulation of catalytic activity
GO:0043687 post-translational protein modification
GO:0045717 negative regulation of fatty acid biosynthetic process
GO:0055082 cellular chemical homeostasis

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK315564 - Homo sapiens cDNA, FLJ96636.
JD127423 - Sequence 108447 from Patent EP1572962.
JD404296 - Sequence 385320 from Patent EP1572962.
JD303492 - Sequence 284516 from Patent EP1572962.
BC032523 - Homo sapiens WD and tetratricopeptide repeats 1, mRNA (cDNA clone MGC:44910 IMAGE:5500384), complete cds.
JD538491 - Sequence 519515 from Patent EP1572962.
AK001734 - Homo sapiens cDNA FLJ10872 fis, clone NT2RP4001725, weakly similar to GUANINE NUCLEOTIDE-BINDING PROTEIN BETA SUBUNIT.
AB527722 - Synthetic construct DNA, clone: pF1KB6234, Homo sapiens WDTC1 gene for WD and tetratricopeptide repeats 1, without stop codon, in Flexi system.
JF432742 - Synthetic construct Homo sapiens clone IMAGE:100073986 WD and tetratricopeptide repeats 1 (WDTC1) gene, encodes complete protein.
KJ893321 - Synthetic construct Homo sapiens clone ccsbBroadEn_02715 WDTC1 gene, encodes complete protein.
AB028960 - Homo sapiens mRNA for KIAA1037 protein, partial cds.
DQ572213 - Homo sapiens piRNA piR-40325, complete sequence.
AK023778 - Homo sapiens cDNA FLJ13716 fis, clone PLACE2000411, highly similar to Homo sapiens epsin 2b mRNA.
AK023101 - Homo sapiens cDNA FLJ13039 fis, clone NT2RP3001274, highly similar to Homo sapiens mRNA for KIAA1037 protein.
DQ588903 - Homo sapiens piRNA piR-56015, complete sequence.
JD220241 - Sequence 201265 from Patent EP1572962.
JD221834 - Sequence 202858 from Patent EP1572962.
JD536100 - Sequence 517124 from Patent EP1572962.
JD394904 - Sequence 375928 from Patent EP1572962.
JD410517 - Sequence 391541 from Patent EP1572962.
JD055498 - Sequence 36522 from Patent EP1572962.
JD427013 - Sequence 408037 from Patent EP1572962.
JD241258 - Sequence 222282 from Patent EP1572962.
JD060583 - Sequence 41607 from Patent EP1572962.
JD393334 - Sequence 374358 from Patent EP1572962.
JD193917 - Sequence 174941 from Patent EP1572962.
JD162007 - Sequence 143031 from Patent EP1572962.
JD559240 - Sequence 540264 from Patent EP1572962.
JD338029 - Sequence 319053 from Patent EP1572962.
JD450026 - Sequence 431050 from Patent EP1572962.
JD365938 - Sequence 346962 from Patent EP1572962.
JD065179 - Sequence 46203 from Patent EP1572962.
JD341334 - Sequence 322358 from Patent EP1572962.
JD443312 - Sequence 424336 from Patent EP1572962.
JD151907 - Sequence 132931 from Patent EP1572962.
JD323797 - Sequence 304821 from Patent EP1572962.
JD367969 - Sequence 348993 from Patent EP1572962.
JD115761 - Sequence 96785 from Patent EP1572962.
JD155751 - Sequence 136775 from Patent EP1572962.
JD385931 - Sequence 366955 from Patent EP1572962.
JD449886 - Sequence 430910 from Patent EP1572962.
JD547216 - Sequence 528240 from Patent EP1572962.
JD424070 - Sequence 405094 from Patent EP1572962.
JD190528 - Sequence 171552 from Patent EP1572962.
JD076027 - Sequence 57051 from Patent EP1572962.
JD279537 - Sequence 260561 from Patent EP1572962.
JD429344 - Sequence 410368 from Patent EP1572962.
JD335958 - Sequence 316982 from Patent EP1572962.
JD302180 - Sequence 283204 from Patent EP1572962.
JD038366 - Sequence 19390 from Patent EP1572962.
JD068369 - Sequence 49393 from Patent EP1572962.
JD191694 - Sequence 172718 from Patent EP1572962.
JD162880 - Sequence 143904 from Patent EP1572962.
JD222723 - Sequence 203747 from Patent EP1572962.
JD072989 - Sequence 54013 from Patent EP1572962.
JD124019 - Sequence 105043 from Patent EP1572962.
JD226702 - Sequence 207726 from Patent EP1572962.
JD040099 - Sequence 21123 from Patent EP1572962.
JD276990 - Sequence 258014 from Patent EP1572962.
JD290124 - Sequence 271148 from Patent EP1572962.
JD384043 - Sequence 365067 from Patent EP1572962.
JD380843 - Sequence 361867 from Patent EP1572962.
JD361733 - Sequence 342757 from Patent EP1572962.
JD099757 - Sequence 80781 from Patent EP1572962.
JD399729 - Sequence 380753 from Patent EP1572962.
JD255370 - Sequence 236394 from Patent EP1572962.
JD554537 - Sequence 535561 from Patent EP1572962.
JD115869 - Sequence 96893 from Patent EP1572962.
JD365687 - Sequence 346711 from Patent EP1572962.
JD537020 - Sequence 518044 from Patent EP1572962.
JD157157 - Sequence 138181 from Patent EP1572962.
JD210939 - Sequence 191963 from Patent EP1572962.
JD129739 - Sequence 110763 from Patent EP1572962.

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

Protein Q8N5D0 (Reactome details) participates in the following event(s):

R-HSA-8955245 CAND1 binds CRL4 E3 ubiquitin ligase in the nucleus
R-HSA-8955285 COMMDs displace CAND1 from CRL4 E3 ubiquitin ligase complex
R-HSA-8952639 NEDD8:AcM-UBE2M binds CRL4 E3 ubiquitin ligase complex
R-HSA-8956045 COP9 signalosome deneddylates nuclear CRL4 E3 ubiquitin ligase complex
R-HSA-8952638 AcM-UBE2M transfers NEDD8 to CRL4 E3 ubiquitin ligase complex
R-HSA-8951664 Neddylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: D3DPL5, ENST00000319394.1, ENST00000319394.2, ENST00000319394.3, ENST00000319394.4, ENST00000319394.5, ENST00000319394.6, ENST00000319394.7, KIAA1037, NM_001410767, Q5SSC5, Q8N5D0, Q9NV87, Q9UPW4, uc317qqt.1, uc317qqt.2, WDTC1_HUMAN
UCSC ID: ENST00000319394.8_12
RefSeq Accession: NM_001276252.2
Protein: Q8N5D0 (aka WDTC1_HUMAN or WDT1_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.