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EBF3 Gene

protein-coding   GIFtS: 51

GC10M131524
early B-cell factor 3
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
COE3 1, 2, 3, 5
DKFZp667B0210 1
EBF-3 3
O/E-2 2, 3
OE-2 3
OTTHUMP00000020743 2
Descriptions
Olf-1/EBF-like 2 3
early B-cell factor 3 2, 3
External Ids
HGNC: 190871
Entrez Gene: 2537382
UniProtKB: Q9H4W63
Ensembl: ENSG000001080017
Search outside databases for aliases for EBF3 gene

Previous GC identifers: GC00U908396 GC10M131109 GC20P002669

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: COE3_HUMAN, Q9H4W6
Function: Transcriptional activator which recognizes variations of the palindromic sequence
5'-ATTCCCNNGGGAATT-3' (By similarity)

(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 EBF3 gene  

Entrez Gene cytogenetic band: 10q26.3   Ensembl cytogenetic band:  10q26.3   HGNC cytogenetic band: 10q26.3

EBF3 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 10         GeneLoc Exon Structure

GeneLoc location for GC10M131524:     (about GC identifiers)

Start:
131,522,429 bp from pter
End:
131,652,081 bp from pter
Size:
129,653 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000010.9  NT_008818.15  
(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)
About This Section

UniProtKB/Swiss-Prot: COE3_HUMAN, Q9H4W6 (See protein sequence)
Recommended Name: Transcription factor COE3  
Size: 596 amino acids; 64864 Da
Subunit: Forms either a homodimer or a heterodimer with a related family member (By similarity)
Subcellular location: Nucleus (Potential)
Secondary accessions: Q5T6H9 Q9H4W5
Alternative splicing: 2 isoforms:  Q9H4W6-1   Q9H4W6-2   

REFSEQ proteins: NP_001005463.1  

ENSEMBL proteins: 
ENSP00000321355 ENSP00000347463 ENSP00000357637 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Sigma-Aldrich AQUA Peptides for EBF3  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (EBF3)
Human Recombinant Proteins from Abnova (EBF3)
              OriGene Purified Recombinant Human Protein: EBF3 

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

GO IDQualified GO termEvidencePubMed IDs
GO:0005634 nucleus IEA--
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Antibodies for EBF3: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for EBF3
R&D Systems Antibodies for EBF3 (EBF-3)
Antibodies from Abcam (EBF3), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (EBF3)
Novus Biologicals Antibodies for EBF3

Assays for EBF3: 
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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4 InterPro domains/families:
 IPR001092 HLH_basic
 IPR002909 IPT_TIG_rcpt
 IPR018350 Transcription_factor_COE_CS
 IPR003523 Transcription_factor_COE


   GeneDecks  EBF3 for the domains selected above  
About GeneDecksing

Graphical View of Domain Structure for InterPro Entry Q9H4W6

ProtoNet protein and cluster: Q9H4W6

3 Blocks protein families:
IPB001092 Basic helix-loop-helix dimerization domain bHLH
IPB002909 Cell surface receptor IPT/TIG
IPB003523 Transcription factor COE


UniProtKB/Swiss-Prot: COE3_HUMAN, Q9H4W6
Similarity: Belongs to the COE family
Similarity: Contains 1 IPT/TIG domain

(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 (EBF3)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (EBF3)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): XM_171410

              Applied Biosystems Silencer® siRNAs for EBF3

              Sigma-Aldrich siRNA for EBF3  
                     Sigma-Aldrich shRNA for EBF3  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Browse Clone Ranger at Invitrogen for clones
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001005463
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001005463
                                 untagged cDNA clone in CMV expression vector: NM_001005463 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001005463

UniProtKB/Swiss-Prot: COE3_HUMAN, Q9H4W6
Function: Transcriptional activator which recognizes variations of the palindromic sequence
5'-ATTCCCNNGGGAATT-3' (By similarity)

2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Ebf3):

lethality-prenatal/perinatalnervous system

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

GO IDQualified GO termEvidencePubMed IDs
GO:0003677 DNA binding IEA--
GO:0005515 protein binding IPI17353931
GO:0008270 zinc ion binding IEA--
GO:0030528 transcription regulator activity 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.)
About This Section



1 Interacting protein for EBF3 (Q9H4W61) via UniProtKB, MINT, and/or STRING
InteractantInteraction Details
GeneCardExternal ID(s)
MEN1O002551EBI-2111898, EBI-592789
About this table

2 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0006355 regulation of transcription, DNA-dependent IEA--
GO:0007275 multicellular organismal development IEA--
About this table
(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 EBF3

(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 (EBF3)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (EBF3)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): XM_171410

              Sigma-Aldrich siRNA for EBF3  
                     Sigma-Aldrich shRNA for EBF3  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001005463  

REFSEQ mRNAs for EBF3 gene: 

NM_001005463.1   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001005463  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001005463
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001005463
                                 untagged cDNA clone in CMV expression vector: NM_001005463 

Additional cDNA sequence: 

AK055710.1 AK097335.1 AK098025.1 AL713797.1 AL832828.1 BC126130.1 BC130479.1 

5 DOTS entries:

DT.453113  DT.100009068  DT.97843441  DT.65287643  DT.87046887 

24/72 AceView cDNA sequences (see all 72 ):

CB994928 BQ188129 AA424135 BM713178 AL832828 AK098025 BI916246 BQ009895 
BQ446939 BQ002251 BM681085 BM722813 BX097567 AW118684 BE349587 BM673851 
AI240363 BM727653 W31642 AK097335 AK055710 AI075738 AA256828 AA452279 

highest scoring ESTs for EBF3:

AA452446 AA527166 AL832828 W19285 AA009677 AA032234 AA032286 AA256270 AA256828 AA330620 

Unigene Cluster for EBF3:

Early B-cell factor 3
Hs.591374  [show with all ESTs]
Unigene Representative Sequence: NM_001005463


GeneLoc Exon Structure

3 Ensembl transcripts including schematic representations:
ENST00000318060  ENST00000355311  ENST00000368648  
(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

EBF3 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for EBF3

1 / 2 / 3

8 probe-sets matching EBF3 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

84224_at2, 3 U95-D 1 1.00 1.00 0.69 0.87 AA452446 0.80 1.00 0.91 1
65988_at2, 3 U95-C 1 1.00 1.00 0.96 1.16 W19285 0.80 1.00 0.91 1
52874_at2, 3 U95-B 1 1.00 1.00 0.97 1.00 AA527166 0.80 1.00 0.91 1

227243_s_at2 U133-B 1 1.00 1.00 -- -- -- -- -- -- --

227242_s_at2, 3 U133-B 1 1.00 1.00 -- -- BF592034 0.60 1.00 0.82 1

227243_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

227242_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

1559796_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  EBF3 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: CCCTCACTTG

SOURCE GeneReport for Unigene cluster: Hs.591374

UniProtKB/Swiss-Prot: COE3_HUMAN, Q9H4W6
Tissue specificity: Expressed in brain

(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 EBF3 gene from 5/7 species (see all 7 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
EBF31   -- early B-cell factor 3 94.61(n)
99.1(a)
611743  XM_849453.1  XP_854546.1 
chimpanzee
(Pan troglodytes)
EBF31   -- early B-cell factor 3 99.69(n)
99.82(a)
737690  XM_001142627.1  XP_001142627.1 
rat
(Rattus norvegicus)
Ebf31   -- early B-cell factor 3 93.95(n)
99.64(a)
361668  XM_341951.3  XP_341952.3 
mouse
(Mus musculus)
Ebf31, 5 75
early B-cell factor 31, 5 94.31(n)1
99.64(a)1
135931  NM_010096.21  NP_034226.11 
 AA6199905  AI0430905  (see all 18)
zebrafish
(Danio rerio)
zgc:1588291   -- zgc:158829 81.6(n)
96.89(a)
567751  NM_001080602.1  NP_001074071.1 
About this table        Species with no ortholog for EBF3

ENSEMBL Gene Tree for EBF3
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for EBF3 gene
EBF22  EBF42  EBF12  

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


10/654 NCBI SNPs in EBF3 are shown (see all 654 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 215)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 10 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs82171,2
A,C,F,H,O131523710(+) GGGCAT/CTGACT 1 -- ut31 ese310Minor allele frequency- C:0.25MN EU EA WA NA 1002
rs37637581,2
A,C,F,H131523453(+) CCGGTA/CTGTGC 1 -- ng5113Minor allele frequency- C:0.24EA NA EU WA 2338
rs47511361,2
A131523376(+) AGGACA/GGAGGC 1 -- ng510--------
rs70928281,2
H131528515(+) TTCCCG/ATTGGC 1 N/N syn14Minor allele frequency- A:0.00EU EA WA 420
rs14133721,2
A,C,F,H,O131628534(-) AATGCG/ATGGGG 1 -- int15Minor allele frequency- A:0.36MN EU EA WA 600
rs5733701,2
A,C,F,H,O131650342(-) ACAAAT/CGGATC 1 -- int117Minor allele frequency- C:0.47MN EU EA WA NA 1802
rs9449631,2
A,C,F,H,O131577998(-) CTCCCC/TGCACC 1 -- int1 trp39Minor allele frequency- T:0.43MN EU EA WA 1022
rs19841041,2
A,C,F,H,O131622978(-) CGCCCG/ATGGAG 1 -- int113Minor allele frequency- A:0.13MN EU EA WA NA 1145
rs5563271,2
A,C,F,H,O131637695(-) TTTGAT/GGTAAC 1 -- int113Minor allele frequency- G:0.19MN EU EA WA 1440
rs10288301,2
A,C,F,H,O131541828(+) AAGAAT/CGCGCC 1 -- int18Minor allele frequency- C:0.48MN EU EA WA NA 744
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HapMap Linkage Disequilibrium images for EBF3 (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: 607407

Human Genome Epidemiology Navigator: EBF3 (1 document)

(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

8 PubMed articles for EBF3 gene:
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
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: 253738 HGNC: 19087 AceView: DKFZp667B0210 Ensembl:ENSG00000108001 euGenes: HUgn253738
ECgene: EBF3 H-InvDB: EBF3
(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

  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(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 EBF3:
 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 EBF3-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 EBF3 Antibodies for EBF3
 Explore super-pooled esiRNAs Proteins for EBF3
 Lentivirus-delivered shRNAs for EBF3 Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Recombinant & Natural Proteins  

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 Recombinant Proteins
(EBF3)
 Antibodies (EBF3)
 Tagged/untagged cDNA clones
 Validated SYBR primer pairs
 Purified proteins from HEK293T cells
 Western blot validated antibodies
 shRNA in GFP-retroviral vector
 Search Tocris compounds for EBF3




 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for EBF3

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