Human Gene DCAF7 (uc010wpn.3)
  Description: Homo sapiens DDB1 and CUL4 associated factor 7 (DCAF7), transcript variant 1, mRNA.
RefSeq Summary (NM_005828): This gene encodes a protein with multiple WD40 repeats which facilitate protein-protein interactions and thereby enable the assembly of multiprotein complexes. This protein has been shown to function as a scaffold protein for protein complexes involved in kinase signaling. This highly conserved gene is present in eukaryotic plants, fungi, and animals. The ortholog of this gene was first identified in plants as a key regulator of anthocyanin biosynthesis and flower pigmentation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2014].
Transcript (Including UTRs)
   Position: hg19 chr17:61,627,796-61,671,642 Size: 43,847 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr17:61,628,039-61,666,534 Size: 38,496 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:61,627,796-61,671,642)mRNA (may differ from genome)Protein (142 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIPubMedUniProtKB
Wikipedia

-  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: 32.38 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 636.74 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 -95.40243-0.393 Picture PostScript Text
3' UTR -1734.075108-0.339 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
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:
50978 - WD40 repeat-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase

ModBase Predicted Comparative 3D Structure on B4E039
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
  LF209391 - JP 2014500723-A/16894: Polycomb-Associated Non-Coding RNAs.
AK294925 - Homo sapiens cDNA FLJ60519 complete cds, highly similar to WD repeat protein 68.
BC001264 - Homo sapiens WD repeat domain 68, mRNA (cDNA clone MGC:5032 IMAGE:3458293), complete cds.
AK303212 - Homo sapiens cDNA FLJ54214 complete cds, highly similar to WD repeat protein 68.
U94747 - Human WD repeat protein HAN11 mRNA, complete cds.
JD187099 - Sequence 168123 from Patent EP1572962.
LF328209 - JP 2014500723-A/135712: Polycomb-Associated Non-Coding RNAs.
JD462510 - Sequence 443534 from Patent EP1572962.
DQ894417 - Synthetic construct Homo sapiens clone IMAGE:100008877; FLH170379.01L; RZPDo839E1097D WD repeat domain 68 (WDR68) gene, encodes complete protein.
DQ891233 - Synthetic construct clone IMAGE:100003863; FLH170383.01X; RZPDo839E1098D WD repeat domain 68 (WDR68) gene, encodes complete protein.
AB590131 - Synthetic construct DNA, clone: pFN21AE2278, Homo sapiens DCAF7 gene for DDB1 and CUL4 associated factor 7, without stop codon, in Flexi system.
KJ892972 - Synthetic construct Homo sapiens clone ccsbBroadEn_02366 DCAF7 gene, encodes complete protein.
AK022145 - Homo sapiens cDNA FLJ12083 fis, clone HEMBB1002495.
LF328220 - JP 2014500723-A/135723: Polycomb-Associated Non-Coding RNAs.
LF328221 - JP 2014500723-A/135724: Polycomb-Associated Non-Coding RNAs.
LF328222 - JP 2014500723-A/135725: Polycomb-Associated Non-Coding RNAs.
JD102715 - Sequence 83739 from Patent EP1572962.
JD271853 - Sequence 252877 from Patent EP1572962.
JD151546 - Sequence 132570 from Patent EP1572962.
BX648608 - Homo sapiens mRNA; cDNA DKFZp686K18216 (from clone DKFZp686K18216).
LF328223 - JP 2014500723-A/135726: Polycomb-Associated Non-Coding RNAs.
LF328224 - JP 2014500723-A/135727: Polycomb-Associated Non-Coding RNAs.
BC027489 - Homo sapiens WD repeat domain 68, mRNA (cDNA clone IMAGE:5122333).
DQ590636 - Homo sapiens piRNA piR-57748, complete sequence.
AK026008 - Homo sapiens cDNA: FLJ22355 fis, clone HRC06344.
LF328225 - JP 2014500723-A/135728: Polycomb-Associated Non-Coding RNAs.
LF328226 - JP 2014500723-A/135729: Polycomb-Associated Non-Coding RNAs.
DQ577731 - Homo sapiens piRNA piR-45843, complete sequence.
AK025925 - Homo sapiens cDNA: FLJ22272 fis, clone HRC03192.
AL832440 - Homo sapiens mRNA; cDNA DKFZp762G124 (from clone DKFZp762G124).
BC024682 - Homo sapiens cDNA clone IMAGE:4704910.
LF328227 - JP 2014500723-A/135730: Polycomb-Associated Non-Coding RNAs.
MA563786 - JP 2018138019-A/135712: Polycomb-Associated Non-Coding RNAs.
MA563797 - JP 2018138019-A/135723: Polycomb-Associated Non-Coding RNAs.
MA563798 - JP 2018138019-A/135724: Polycomb-Associated Non-Coding RNAs.
MA563799 - JP 2018138019-A/135725: Polycomb-Associated Non-Coding RNAs.
MA563800 - JP 2018138019-A/135726: Polycomb-Associated Non-Coding RNAs.
MA563801 - JP 2018138019-A/135727: Polycomb-Associated Non-Coding RNAs.
MA563802 - JP 2018138019-A/135728: Polycomb-Associated Non-Coding RNAs.
MA563803 - JP 2018138019-A/135729: Polycomb-Associated Non-Coding RNAs.
MA563804 - JP 2018138019-A/135730: Polycomb-Associated Non-Coding RNAs.
MA444968 - JP 2018138019-A/16894: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: AK303212, B4E039, B4E039_HUMAN, uc010wpn.2
UCSC ID: uc010wpn.3
RefSeq Accession: NM_005828
Protein: B4E039

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK303212.1
exon count: 3CDS single in 3' UTR: no RNA size: 1220
ORF size: 429CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1058.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 5043# 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.