Human Gene WDR55 (ENST00000358337.10_3) from GENCODE V47lift37
  Description: WD repeat domain 55 (from RefSeq NM_017706.5)
Gencode Transcript: ENST00000358337.10_3
Gencode Gene: ENSG00000120314.19_6
Transcript (Including UTRs)
   Position: hg19 chr5:140,044,489-140,051,930 Size: 7,442 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr5:140,044,498-140,049,239 Size: 4,742 Coding Exon Count: 7 

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 (chr5:140,044,489-140,051,930)mRNA (may differ from genome)Protein (383 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: WDR55_HUMAN
DESCRIPTION: RecName: Full=WD repeat-containing protein 55;
FUNCTION: Nucleolar protein that acts as a modulator of rRNA synthesis. Plays a central role during organogenesis (By similarity).
SUBCELLULAR LOCATION: Nucleus, nucleolus (By similarity). Cytoplasm (By similarity).
SIMILARITY: Belongs to the WD repeat WDR55 family.
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


-  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: 12.93 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 338.31 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -975.902691-0.363 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
IPR017422 - WD_repeat_p55

Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF12894 - Anaphase-promoting complex subunit 4 WD40 domain

SCOP Domains:
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

ModBase Predicted Comparative 3D Structure on Q9H6Y2
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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 BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0006364 rRNA processing
GO:0008150 biological_process
GO:0042273 ribosomal large subunit biogenesis

Cellular Component:
GO:0005575 cellular_component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK025355 - Homo sapiens cDNA: FLJ21702 fis, clone COL09874.
BC068485 - Homo sapiens WD repeat domain 55, mRNA (cDNA clone MGC:87143 IMAGE:30334628), complete cds.
AK056861 - Homo sapiens cDNA FLJ32299 fis, clone PROST2002162.
KJ899026 - Synthetic construct Homo sapiens clone ccsbBroadEn_08420 WDR55 gene, encodes complete protein.
BC041687 - Homo sapiens WD repeat domain 55, mRNA (cDNA clone IMAGE:5227708).
AK122862 - Homo sapiens cDNA FLJ16487 fis, clone BRTHA3007685.
BC002482 - Homo sapiens WD repeat domain 55, mRNA (cDNA clone IMAGE:3347441).
JD362003 - Sequence 343027 from Patent EP1572962.
JD282610 - Sequence 263634 from Patent EP1572962.
AK293417 - Homo sapiens cDNA FLJ53712 complete cds, highly similar to WD repeat protein 55.
JD090873 - Sequence 71897 from Patent EP1572962.
LF211019 - JP 2014500723-A/18522: Polycomb-Associated Non-Coding RNAs.
AK000202 - Homo sapiens cDNA FLJ20195 fis, clone COLF0930.
JD532720 - Sequence 513744 from Patent EP1572962.
JD278696 - Sequence 259720 from Patent EP1572962.
FJ423749 - Homo sapiens WDR55/DND1 fusion mRNA, partial sequence.
JD311902 - Sequence 292926 from Patent EP1572962.
JD311914 - Sequence 292938 from Patent EP1572962.
JD071444 - Sequence 52468 from Patent EP1572962.
JD119543 - Sequence 100567 from Patent EP1572962.
LF343265 - JP 2014500723-A/150768: Polycomb-Associated Non-Coding RNAs.
JD396388 - Sequence 377412 from Patent EP1572962.
JD560518 - Sequence 541542 from Patent EP1572962.
JD519027 - Sequence 500051 from Patent EP1572962.
DQ580930 - Homo sapiens piRNA piR-49042, complete sequence.
MA578842 - JP 2018138019-A/150768: Polycomb-Associated Non-Coding RNAs.
MA446596 - JP 2018138019-A/18522: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000358337.1, ENST00000358337.2, ENST00000358337.3, ENST00000358337.4, ENST00000358337.5, ENST00000358337.6, ENST00000358337.7, ENST00000358337.8, ENST00000358337.9, NM_017706, Q9H6Y2, Q9NXK4, uc318amo.1, uc318amo.2, WDR55_HUMAN
UCSC ID: ENST00000358337.10_3
RefSeq Accession: NM_017706.5
Protein: Q9H6Y2 (aka WDR55_HUMAN)

-  Gene Model Information
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-  Methods, Credits, and Use Restrictions
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