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ZBED3 Gene

protein-coding GIFtS: 43

GC05M076408

zinc finger, BED-type containing 3
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)
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Aliases
2610005H11Rik ^²
MGC15435 ^¹, ²

Descriptions
zinc finger, BED domain containing 3 ^²
zinc finger, BED-type containing 3 ^²

External Ids
HGNC: 20711¹
Entrez Gene: 84327²
UniProtKB: Q96IU2³
Ensembl: ENSG00000132846⁷

Search outside databases for aliases for ZBED3 gene

Previous GC identifers: GC05M076606 GC05M076411 GC05M076456

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

(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 ZBED3 gene

Entrez Gene cytogenetic band: 5q14.1 Ensembl cytogenetic band: 5q14.1 HGNC cytogenetic band: 5q13.2

ZBED3 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 5 GeneLoc Exon Structure

GeneLoc location for GC05M076408: (about GC identifiers)

Start:	76,408,288 bp from pter
End:	76,418,786 bp from pter
Size:	10,499 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000005.8 NT_006713.14

(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: ZBED3_HUMAN, Q96IU2 (See protein sequence)

Recommended Name: Zinc finger BED domain-containing protein 3

Size: 234 amino acids; 25132 Da

Post-translational modifications:

View phosphorylation sites using PhosphoSite²

REFSEQ proteins: NP_115743.1

ENSEMBL proteins:

ENSP00000255198

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
	Browse Abcam for Recombinant Proteins
	Human Recombinant Proteins from Abnova (ZBED3)

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

Antibodies for ZBED3:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Browse Antibodies at Sigma-Aldrich
	Browse R&D Systems for Antibodies
	Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for ZBED3

Assays for ZBED3:

	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)
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Graphical View of Domain Structure for InterPro Entry Q96IU2

ProtoNet protein and cluster: Q96IU2

UniProtKB/Swiss-Prot: ZBED3_HUMAN, Q96IU2

Similarity: Contains 1 BED-type zinc finger

(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.)
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Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (ZBED3)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (ZBED3)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_032367

Applied Biosystems Silencer® siRNAs for ZBED3

Sigma-Aldrich siRNA for ZBED3

Sigma-Aldrich shRNA for ZBED3

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Invitrogen Clones for ZBED3
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_032367
Myc/DDK tagged cDNA clone in CMV expression vector: NM_032367
untagged cDNA clone in CMV expression vector: NM_032367

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_032367

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003677	DNA binding	IEA	--
GO:0008270	zinc ion binding	IEA	--
GO:0046872	metal ion binding	IEA	--

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.)
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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 ZBED3

(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 (ZBED3)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (ZBED3)

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_032367

Sigma-Aldrich siRNA for ZBED3

Sigma-Aldrich shRNA for ZBED3

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_032367

REFSEQ mRNAs for ZBED3 gene:

NM_032367.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_032367

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_032367
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_032367
                                 untagged cDNA clone in CMV expression vector: NM_032367

Additional cDNA sequence:

AK223624.1 BC007239.1

1 DOTS entry:

DT.454885

24/95 AceView cDNA sequences (see all 95 ):

AI421730 CD674177 AI810967 AI573007 AA568943 AA311214 NM_032367 AI522237

AI399944 BC007239 CA449845 BM750164 BU521064 BM741545 BM727024 BE302693

AW301709 AI355755 CB119841 AI810713 N73390 BQ232489 BM718530 CB122505

highest scoring ESTs for ZBED3:

AI679968 BC007239 BE302693 BG329998 BG469298 AA113749 AA311214 AA325520 AA358598 AA868501

Unigene Cluster for ZBED3:

Zinc finger, BED-type containing 3

Hs.584988 [show with all ESTs]

Unigene Representative Sequence: BU570509

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000255198

(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 )
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ZBED3 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for ZBED3

¹ / ² / ³

3 probe-sets matching ZBED3 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
89157_at²^{, 3}	U95-E	1	1.00	1.00	1.00	1.00	AI679968	0.80	1.00	0.91	1
228402_at²^{, 3}	U133-B	1	1.00	1.00	--	--	AI679968	0.80	1.00	0.91	1
228402_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

About this table

Data from

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

CGAP SAGE TAG: TGCCTATACA

SOURCE GeneReport for Unigene cluster: Hs.584988

(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 ZBED3 gene from 4 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
chimpanzee (Pan troglodytes)	ZBED3¹	--	zinc finger, BED-type containing 3	97.96(n) 96.18(a)	471507 XM_526885.2 XP_526885.2
cow (Bos taurus)	ZBED3¹	--	zinc finger, BED-type containing 3	86.26(n) 83.89(a)	615651 XM_867513.1 XP_872606.1
rat (Rattus norvegicus)	Zbed3¹	--	zinc finger, BED-type containing 3	68.62(n) 58.56(a)	361881 NM_001025729.1 NP_001020900.1
mouse (Mus musculus)	Zbed3^{1, 5}	13⁵	zinc finger, BED domain containing 3^{1, 5}	68.93(n)¹ 55.66(a)¹	72114¹ NM_028106.2¹ NP_082382.1¹ AK011319⁵ AK135692⁵ (see all 16)

About this table Species with no ortholog for ZBED3

ENSEMBL Gene Tree for ZBED3

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

Paralogs for ZBED3 gene

ZBED2²

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

10/65 NCBI SNPs in ZBED3 are shown (see all 65 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 25)

AB	SNP ID	Valid	Chr 5 pos	Sequence	Recs	AA Chg	Type	More	Recs	Allele freq	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--				--
--	rs2914146^1,2	A,C	76419689(+)	`cccacA/Cgccct`	1	--	ng3¹		0	--	--	--	--
--	rs2972337^1,2	A,C	76420058(+)	`ggtgaA/Gtgccg`	1	--	ng3¹		0	--	--	--	--
	rs1056586^1,2	F	76408606(-)	`CACACC/TCTAAG`	1	--	ut3¹ ese³		1		MN	184
	rs1056587^1,2	F	76408465(-)	`GAGCTC/TCAGGA`	1	--	ut3¹ ese³		1		MN	184
	rs2914143^1,2	A,C,F,H	76415756(+)	`GAAGCG/ATACGG`	1	--	int¹		4		EU EA WA	420
--	rs2914139^1,2	A,C,F,H	76412393(+)	`atagcA/Gttagg`	1	--	int¹		4		EU EA WA	418
--	rs7712137^1,2	A,C	76417043(+)	`CCTTCC/TATACT`	1	--	int¹		0	--	--	--	--
--	rs7713907^1,2	A,C	76414645(+)	`cctggA/Gaggcg`	1	--	int¹		0	--	--	--	--
	rs6897542^1,2	A,C	76409621(+)	`CTTTCC/TAATTA`	1	--	int¹		0	--	--	--	--
--	rs7713931^1,2	A,C	76414698(+)	`gggtaA/Gtaaga`	1	--	int¹		0	--	--	--	--

About this table

HapMap Linkage Disequilibrium images for ZBED3 (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

(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 ZBED3 gene:

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)
Identification of zinc-finger BED domain-containing 3 (Zbed3) as a novel Axin-interacting protein that activates Wnt/beta-catenin signaling. (PubMed id 19141611)³ Chen T....Li L. (2009)
Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)⁴ Daub H.... Mann M. (2008)
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)
Construction and characterization of a full length-enriched and a 5'- end-enriched cDNA library. (PubMed id 9373149)³ Suzuki Y.... Sugano S. (1997)
Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. (PubMed id 8125298)³ Maruyama K. and Sugano S. (1994)

(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: 84327	HGNC: 20711	AceView: ZBED3	Ensembl:ENSG00000132846	euGenes: HUgn84327
ECgene: ZBED3	H-InvDB: ZBED3

(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 ZBED3
(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 ZBED3:

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 ZBED3-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 ZBED3		Browse antibodies at Sigma-Aldrich
	Explore super-pooled esiRNAs		Browse proteins at Sigma-Aldrich
	Lentivirus-delivered shRNAs for ZBED3		Browse small molecules at Sigma-Aldrich
	"Your Favorite Gene" Pathways		feedback

	Antibodies		Primer Pairs
	Cell Culture Products		ELISAs
	Flow Cytometry Kits		Protease Activity Assays & Reagents
	Cell Selection/Detection Kits & Reagents		ELISA/Assay Development Kits & Reagents
	Multiplex/Array Assay Kits & Reagents		ELISpot Kits & Development Modules
	Recombinant & Natural Proteins

	Recombinant Proteins (ZBED3)
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	Chimera RNAi (ZBED3)
	Custom Service for Mouse Mab
	Custom Service for Rabbit Pab from Full-length Protein

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Search OriGene for ZBED3

Search Tocris compounds for ZBED3

Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies

Search Novus for antibodies for ZBED3

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ZBED3 Gene

protein-coding GIFtS: 43

Aliases &
Descriptions
for ZBED3

Summaries
for ZBED3

Genomic Location
for ZBED3

Proteins
for ZBED3

Protein Domains/
Families
for ZBED3

Gene Function
for ZBED3

Pathways & Interactions
for ZBED3

Drugs & Compounds
for ZBED3

Transcripts
for ZBED3

Expression
for ZBED3

Orthologs
for ZBED3

Paralogs
for ZBED3

SNPs/Variants
for ZBED3

Disorders & Mutations
for ZBED3

Medical News
for ZBED3

Publications
for ZBED3

Search for ZBED3

Genome Databases showing ZBED3

Other Databases showing ZBED3

Specialized Databases showing ZBED3

Licensable Technologies
for ZBED3

Services
for ZBED3

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

ZBED3 Gene

protein-coding GIFtS: 43

Aliases & Descriptionsfor ZBED3

Summariesfor ZBED3

Genomic Locationfor ZBED3

Proteinsfor ZBED3

Protein Domains/Familiesfor ZBED3

Gene Functionfor ZBED3

Pathways & Interactionsfor ZBED3

Drugs & Compoundsfor ZBED3

Transcriptsfor ZBED3

Expression for ZBED3

Orthologsfor ZBED3

Paralogsfor ZBED3

SNPs/Variantsfor ZBED3

Disorders & Mutationsfor ZBED3

Medical Newsfor ZBED3

Publicationsfor ZBED3

Search for ZBED3

Genome Databases showing ZBED3

Other Databases showing ZBED3

Specialized Databases showing ZBED3

Licensable Technologiesfor ZBED3

Servicesfor ZBED3

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 ZBED3

Summaries
for ZBED3

Genomic Location
for ZBED3

Proteins
for ZBED3

Protein Domains/
Families
for ZBED3

Gene Function
for ZBED3

Pathways & Interactions
for ZBED3

Drugs & Compounds
for ZBED3

Transcripts
for ZBED3

Expression
for ZBED3

Orthologs
for ZBED3

Paralogs
for ZBED3

SNPs/Variants
for ZBED3

Disorders & Mutations
for ZBED3

Medical News
for ZBED3

Publications
for ZBED3

Licensable Technologies
for ZBED3

Services
for ZBED3