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WDR16 Gene

protein-coding GIFtS: 50

GC17P009422

WD repeat domain 16
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc , and/or ⁷Ensembl, ⁸miRBase)
About This Section

Aliases
FLJ37528 ^¹, ²
WDRPUH ^¹, ², ³, ⁵

Descriptions
WD repeat domain 16 ^²
WD40-repeat protein up-regulated in HCC ^³
WD40-repeat protein upregulated in HCC ^²

External Ids
HGNC: 16053¹
Entrez Gene: 146845²
UniProtKB: Q8N1V2³
Ensembl: ENSG00000166596⁷

Search outside databases for aliases for WDR16 gene

Previous GC identifer: GC00U991035

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for WDR16:

WD repeat-containing proteins, such as WDR16, play crucial roles in a wide range of physiologic

functions, including signal transduction, RNA processing, remodeling the cytoskeleton, regulation

of vesicular traffic, and cell division (Silva et al., 2005 [PubMed 15967112]).[supplied by OMIM]

UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2

Function: May play an essential role in the growth or survival of hepatocellular carcinoma (HCC)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the WDR16 gene

Entrez Gene cytogenetic band: 17p13.1 Ensembl cytogenetic band: 17p13.1 HGNC cytogenetic band: 17p13.1

WDR16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 17 GeneLoc Exon Structure

GeneLoc location for GC17P009422: (about GC identifiers)

Start:	9,420,669 bp from pter
End:	9,487,501 bp from pter
Size:	66,833 bases
Orientation:	plus strand

RefSeq DNA sequence:

NC_000017.9 NT_010718.15

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2 (See protein sequence)

Recommended Name: WD repeat-containing protein 16

Size: 620 amino acids; 68298 Da

Subcellular location: Cytoplasm

Miscellaneous: May be a good candidate as a diagnostic marker for HCC as well as a potential

molecular target for development of novel therapeutic drugs

Sequence caution: Sequence=BAB85083.1; Type=Frameshift; Positions=183;

Secondary accessions: B2RDU7 Q5DX23 Q8TC73 Q8TCI3

Alternative splicing: 3 isoforms: Q8N1V2-1 Q8N1V2-2 Q8N1V2-3

REFSEQ proteins (2 alternative transcripts):

NP_001074025.1 NP_659491.4

ENSEMBL proteins:

ENSP00000339449 ENSP00000299764 ENSP00000379521

Human Recombinant Proteins

	Browse Drug Discovery Central at Invitrogen for human recombinant proteins
	Browse Purified and Recombinant Proteins at Millipore
	Browse Human Recombinant Proteins at Sigma-Aldrich
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (WDR16)
	Human Recombinant Proteins from Abnova (WDR16)

Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

1 Gene Ontology (GO) cellular component term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005737	cytoplasm	IEA	--

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Antibodies for WDR16:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Sigma-Aldrich Antibodies for WDR16
	Browse R&D Systems for Antibodies
	Antibodies from Abcam (WDR16), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (WDR16)
	Novus Biologicals Antibodies for WDR16

Assays for WDR16:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

Graphical View of Domain Structure for InterPro Entry Q8N1V2

ProtoNet protein and cluster: Q8N1V2

1 Blocks protein family: IPB000408 Regulator of chromosome condensation

UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2

Similarity: Contains 11 WD repeats

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (WDR16)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_145054

Applied Biosystems Silencer® siRNAs for WDR16

Sigma-Aldrich siRNA for WDR16

Sigma-Aldrich shRNA for WDR16

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Invitrogen Clones for WDR16
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001080556
Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001080556
untagged cDNA clones in CMV expression vector (see all 3): NM_001037306

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_145054

UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2

Function: May play an essential role in the growth or survival of hepatocellular carcinoma (HCC)

1 Gene Ontology (GO) molecular function term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005515	protein binding	IPI	15967112

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

3 Interacting proteins for WDR16 (ENSP00000299764³) via UniProtKB, MINT, and/or STRING

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
BRCA2	ENSP00000369497³	STRING (score=.879)
CCT4	ENSP00000233836³	STRING (score=.857)
TCP1	ENSP00000317334³	STRING (score=.826)

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(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for WDR16

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (WDR16)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_145054

Sigma-Aldrich siRNA for WDR16

Sigma-Aldrich shRNA for WDR16

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_001080556 NM_145054

REFSEQ mRNAs for WDR16 gene (2 alternative transcripts):

NM_001080556.1 NM_145054.4

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_001080556 NM_145054

               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001080556
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001080556
                                 untagged cDNA clones in CMV expression vector (see all 3): NM_001037306

Additional cDNA sequence:

AB065281.1 AK074435.1 AK094847.1 AK315679.1 BC025392.2

6 DOTS entries:

DT.100018101 DT.97814285 DT.100010615 DT.407611 DT.75100830 DT.91642768

24/65 AceView cDNA sequences (see all 65 ):

AJ583817 BE348232 BU683791 BQ186259 BU684845 BU608435 AI460076 BM664887

AW665127 CA406696 BM702192 BC039653 AI032899 BX095772 AA677708 AX746633

BU753109 BX648526 NM_145054 AI217738 AK055188 AW750672 AW673231 BG831111

highest scoring ESTs for WDR16:

AI989955 AK074435 AK094847 BC025392 DA828056 DB306665 DB308356 AA677708 AA776448 AB065281

Unigene Cluster for WDR16:

WD repeat domain 16

Hs.232270 [show with all ESTs]

Unigene Representative Sequence: AK094847

GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for WDR16

ExUns:	1a	·	1b	^	2	^	3	^	4	^	5	^	6	^	7	^	8	^	9	^	10	^	11	^	12	^	13	^	14	^	15a	·	15b
SP1:
SP2:					-
SP3:					-		-

About this scheme

ECgene alternative splicing isoforms for WDR16

3 Ensembl transcripts including schematic representations:

ENST00000352665 ENST00000299764 ENST00000396219

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

WDR16 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for WDR16

¹ / ² / ³

3 probe-sets matching WDR16 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
76311_at²^{, 3}	U95-E	1	1.00	1.00	1.00	1.00	AI989955	0.80	0.88	0.84	1
239916_at²^{, 3}	U133-B	1	1.00	1.00	--	--	AI381496	0.60	0.83	0.73	1
239916_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

GeneDecks WDR16 for binary patterns associated with the probe-sets selected above

About GeneDecksing

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: GATATCACAC

SOURCE GeneReport for Unigene cluster: Hs.232270
UniProtKB/Swiss-Prot: WDR16_HUMAN, Q8N1V2
Tissue specificity: Highly expressed in testis. Up-regulated in hepatocellular carcinoma (HCC)

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for WDR16 gene from 5/10 species (see all 10 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	WDR16¹	--	WD repeat domain 16	88.28(n) 92.74(a)	479500 XM_536639.2 XP_536639.2
cow (Bos taurus)	WDR16¹	--	WD repeat domain 16	87.37(n) 91.29(a)	505885 XM_582249.3 XP_582249.3
mouse (Mus musculus)	Wdr16^{1, 5}	11⁵	WD repeat domain 16^{1, 5}	86.18(n)¹ 90.81(a)¹	71860¹ NM_027963.2¹ NP_082239.2¹ AI616320⁵ AK006118⁵ (see all 11)
chicken (Gallus gallus)	WDR16¹	--	WD repeat domain 16	71.96(n) 71.19(a)	417322 XM_415591.2 XP_415591.2
zebrafish (Danio rerio)	wufj15f10²	--	Transcribed sequence with weak similarity to protein more	78.37(n)	BQ481255.1

About this table Species with no ortholog for WDR16

ENSEMBL Gene Tree for WDR16

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

Paralogs for WDR16 gene

MAPKBP1² WDR62²

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/384 NCBI SNPs in WDR16 are shown (see all 384 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 80)

AB	SNP ID	Valid	Chr 17 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs274899^1,2	A,C,F,H	9487276(-)	`GACTGT/CGTGCA`	2	--	ut3¹ ese³		5	MN EU EA WA	596
	rs6503235^1,2	A,C,F,H	9456502(+)	`CTGTCA/GAGGAT`	2	E/K	mis¹ ese³		20	EA NS NA EU WA	1404
	rs418706^1,2	C,F,H,O	9479374(-)	`AAGAGC/ATTTTT`	2	--	int¹ trp³		6	MN EU EA WA	2088
--	rs9911158^1,2	A,C,F,H	9447551(+)	`cggccT/CTAAGT`	2	--	int¹		4	EU EA WA	388
--	rs12453336^1,2	A,C,F,H	9422472(+)	`tgaacG/Agggct`	2	--	int¹		3	EU EA	300
	rs9902732^1,2	A,C,F,H	9445945(+)	`TCCACG/ATAGCA`	2	--	int¹		8	EU EA WA	838
	rs4791854^1,2	A,C,F,H	9427224(+)	`GAAAAA/CTATAA`	2	--	int¹		3	EU EA	294
	rs1979287^1,2	A,C,F,H	9439535(+)	`GCGACG/ACTCTT`	2	--	int¹		7	MN EU EA WA NA	780
	rs4791353^1,2	A,C,F,H	9445667(+)	`CGTGAG/ACAAGA`	2	--	int¹		8	EU EA WA	836
	rs7225814^1,2	A,C,F,H	9452487(+)	`AGAGGA/GACACT`	2	--	int¹		2	EA	180

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HapMap Linkage Disequilibrium images for WDR16 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 609804

(Possibly Related Articles in Doctor's Guide)
About This Section

(in PubMed. Associations of this gene to articles via ¹Novoseek, ²HGNC, ³Entrez Gene, ⁴UniProtKB/Swiss-Prot, ⁵UniProtKB/TrEMBL, ⁶GAD, and/or ⁷PharmGKB)
About This Section

6 PubMed articles for WDR16 gene:

WDRPUH, a novel WD-repeat-containing protein, is highly expressed in human hepatocellular carcinoma and involved in cell proliferation. (PubMed id 15967112)^{2, 3, 4} Silva F.P.... Furukawa Y. (2005)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{3, 4} Gerhard D.S....Malek J. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{3, 4} Ota T....Sugano S. (2004)
Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)³ Kimura K.... Sugano S. (2006)
DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)⁴ Zody M.C.... Nusbaum C. (2006)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)³ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 146845	HGNC: 16053	AceView: LOC146845	Ensembl:ENSG00000166596	euGenes: HUgn146845
ECgene: WDR16	H-InvDB: WDR16

(According to HUGE)
About This Section

(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Licensable Technologies for WDR16
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section

Products for WDR16:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for WDR16-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for WDR16		Antibodies for WDR16
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for WDR16		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

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	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
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WDR16 Gene

protein-coding GIFtS: 50

Aliases &
Descriptions
for WDR16

Summaries
for WDR16

Genomic Location
for WDR16

Proteins
for WDR16

Protein Domains/
Families
for WDR16

Gene Function
for WDR16

Pathways & Interactions
for WDR16

Drugs & Compounds
for WDR16

Transcripts
for WDR16

Expression
for WDR16

Orthologs
for WDR16

Paralogs
for WDR16

SNPs/Variants
for WDR16

Disorders & Mutations
for WDR16

Medical News
for WDR16

Publications
for WDR16

Search for WDR16

Genome Databases showing WDR16

Other Databases showing WDR16

Specialized Databases showing WDR16

Licensable Technologies
for WDR16

Services
for WDR16

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

WDR16 Gene

protein-coding GIFtS: 50

Aliases & Descriptionsfor WDR16

Summariesfor WDR16

Genomic Locationfor WDR16

Proteinsfor WDR16

Protein Domains/Familiesfor WDR16

Gene Functionfor WDR16

Pathways & Interactionsfor WDR16

Drugs & Compoundsfor WDR16

Transcriptsfor WDR16

Expression for WDR16

Orthologsfor WDR16

Paralogsfor WDR16

SNPs/Variantsfor WDR16

Disorders & Mutationsfor WDR16

Medical Newsfor WDR16

Publicationsfor WDR16

Search for WDR16

Genome Databases showing WDR16

Other Databases showing WDR16

Specialized Databases showing WDR16

Licensable Technologiesfor WDR16

Servicesfor WDR16

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for WDR16

Summaries
for WDR16

Genomic Location
for WDR16

Proteins
for WDR16

Protein Domains/
Families
for WDR16

Gene Function
for WDR16

Pathways & Interactions
for WDR16

Drugs & Compounds
for WDR16

Transcripts
for WDR16

Expression
for WDR16

Orthologs
for WDR16

Paralogs
for WDR16

SNPs/Variants
for WDR16

Disorders & Mutations
for WDR16

Medical News
for WDR16

Publications
for WDR16

Licensable Technologies
for WDR16

Services
for WDR16