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VPREB1 Gene

protein-coding GIFtS: 54

GC22P020923

pre-B lymphocyte 1
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
CD179A ^¹
CD179a ^²
IGI ^², ⁵
IGVPB ^²
VPREB ^², ³, ⁵
VpreB ^¹

Descriptions
CD179 antigen-like family member A ^³
CD179a antigen ^³
V(pre)B protein ^³
VpreB protein ^³
immunoglobulin iota chain ^²
pre-B lymphocyte 1 ^²

External Ids
HGNC: 12709¹
Entrez Gene: 7441²
UniProtKB: P12018³
Ensembl: ENSG00000169575⁷

Search outside databases for aliases for VPREB1 gene

Previous GC identifer: GC22P019297

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

EntrezGene summary for VPREB1:

The protein encoded by this gene belongs to the immunoglobulin superfamily and is expressed

selectively at the early stages of B cell development, namely, in proB and early preB cells. This

gene encodes the iota polypeptide chain that is associated with the Ig-mu chain to form a

molecular complex which is expressed on the surface of pre-B cells. The complex is thought to

regulate Ig gene rearrangements in the early steps of B-cell differentiation. [provided by RefSeq]

UniProtKB/Swiss-Prot: VPREB_HUMAN, P12018

Function: Associates with the Ig-mu chain to form a molecular complex that is expressed on the

surface of pre-B-cells. This complex presumably regulates ig gene rearrangements in the early

steps of B-cell differentiation

Gene Wiki entry for VPREB1

(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 VPREB1 gene

Entrez Gene cytogenetic band: 22q11.2|22q11.22 Ensembl cytogenetic band: 22q11.22 HGNC cytogenetic band: 22q11.2

VPREB1 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 22 GeneLoc Exon Structure

GeneLoc location for GC22P020923: (about GC identifiers)

Start:	20,929,192 bp from pter
End:	20,929,926 bp from pter
Size:	735 bases
Orientation:	plus strand

RefSeq DNA sequence:

NC_000022.9 NT_011520.11

(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: VPREB_HUMAN, P12018 (See protein sequence)

Recommended Name: Immunoglobulin iota chain precursor

Size: 145 amino acids; 16605 Da

Subunit: Associates non-covalently with IGLL1

PDB structures from and Proteopedia :

2H32 (3D)

2H3N (3D)

3BJ9 (3D)

REFSEQ proteins: NP_009059.1

ENSEMBL proteins:

ENSP00000385361 ENSP00000304590

Human Recombinant Proteins

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	Recombinant Proteins from Abcam (VPREB1, B Cell)
	Browse Abnova for Human Recombinant Proteins

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:0005576	extracellular region	NAS	--

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Antibodies for VPREB1:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
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	Browse R&D Systems for Antibodies
	Antibodies from Abcam (VPREB1, B Cell), each with their Abpromise^SM
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for VPREB1

Assays for VPREB1:

	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 P12018

ProtoNet protein and cluster: P12018

2 Blocks protein families:

IPB003596 Immunoglobulin V-type

IPB013106 Immunoglobulin V-set

UniProtKB/Swiss-Prot: VPREB_HUMAN, P12018

Similarity: Belongs to the immunoglobulin superfamily

(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 (VPREB1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_007128

Applied Biosystems Silencer® siRNAs for VPREB1

Sigma-Aldrich siRNA for VPREB1

Sigma-Aldrich shRNA for VPREB1

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_007128
Myc/DDK tagged cDNA clone in CMV expression vector: NM_007128
untagged cDNA clone in CMV expression vector: NM_007128

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_007128

UniProtKB/Swiss-Prot: VPREB_HUMAN, P12018

Function: Associates with the Ig-mu chain to form a molecular complex that is expressed on the

surface of pre-B-cells. This complex presumably regulates ig gene rearrangements in the early

steps of B-cell differentiation

Genatlas biochemistry entry for VPREB1:

immunoglobulin-like V gene,expressed in pre-B cells

2 MGI mutant phenotypes (inferred from 2 alleles) (MGI details for Vpreb1):

hematopoietic system

immune system

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0003823	antigen binding	NAS	--
GO:0005515	protein binding	IPI	17474147

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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Gene Network Central^TM Interacting Genes and Proteins Network for VPREB1

5/23 Interacting proteins for VPREB1 (P12018¹ ENSP00000304590³) via UniProtKB, MINT, and/or STRING (see all 23 )

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
ABL1	P00519¹, ENSP00000361423³	EBI-1753454, EBI-375543 STRING (score=.758)
IGLL1	ENSP00000329312³	STRING (score=.996)
IGHM	ENSP00000375000³	STRING (score=.965)
CD79B	ENSP00000006750³	STRING (score=.885)
PREB	ENSP00000260643³	STRING (score=.88)

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1 Gene Ontology (GO) biological process term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0006955	immune response	NAS	--

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 VPREB1

(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 (VPREB1)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_007128

Sigma-Aldrich siRNA for VPREB1

Sigma-Aldrich shRNA for VPREB1

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_007128

REFSEQ mRNAs for VPREB1 gene:

NM_007128.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_007128

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_007128
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_007128
                                 untagged cDNA clone in CMV expression vector: NM_007128

Additional cDNA sequence:

BC017922.1 CR456609.1

3 DOTS entries:

DT.91716305 DT.120678050 DT.91716303

3 AceView cDNA sequences:

CR456609 NM_007128 BC017922

highest scoring ESTs for VPREB1:

BC017922 CR456609 NM_007128 BU180896 BG502270 BG503545 BG531255 BM454624 BX282513 AV738114

Unigene Cluster for VPREB1:

Pre-B lymphocyte 1

Hs.247979 [show with all ESTs]

Unigene Representative Sequence: BU180896

GeneLoc Exon Structure

2 Alternative Splicing Database (ASD) splice patterns (SP) for VPREB1

ExUns:	1a	·	1b	^	2a	·	2b
SP1:					-
SP2:

About this scheme

ECgene alternative splicing isoforms for VPREB1

2 Ensembl transcripts including schematic representations:

ENST00000403807 ENST00000302273

(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

VPREB1 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for VPREB1

¹ / ² / ³

2 probe-sets matching VPREB1 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
221349_at²^{, 3}	U133-A	1	1.00	1.00	--	--	NM_007128	0.60	1.00	0.82	1
221349_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: GAAGAGGGTG

SOURCE GeneReport for Unigene cluster: Hs.247979
UniProtKB/Swiss-Prot: VPREB_HUMAN, P12018
Tissue specificity: Only expressed by pre-B-cells

(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 VPREB1 gene from 4 species

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	LOC486411¹	--	similar to immunoglobulin iota chain preproprotein	80.34(n) 70.94(a)	486411 XM_852857.1 XP_857950.1
chimpanzee (Pan troglodytes)	VPREB1¹	--	pre-B lymphocyte 1	98.62(n) 97.93(a)	458686 XM_515010.2 XP_515010.2
rat (Rattus norvegicus)	Vpreb2¹	--	pre-B lymphocyte gene 2	82.59(n) 74.63(a)	363830 XM_577195.2 XP_577195.2
mouse (Mus musculus)	Vpreb1^{1, 5}	16 (9.80 cM)⁵	pre-B lymphocyte gene 1^{1, 5}	81.16(n)¹ 74.64(a)¹	22362¹ NM_016982.1¹ NP_058678.1¹ AK010843⁵ AK010879⁵ (see all 12)

About this table Species with no ortholog for VPREB1

ENSEMBL Gene Tree for VPREB1

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

Paralogs for VPREB1 gene

VPREB3²

Pseudogenes

1 related pseudogene

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

10/41 NCBI SNPs in VPREB1 are shown (see all 41 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 51)

AB	SNP ID	Valid	Chr 22 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs10854725^1,2	A,C,F,H	20930201(+)	`TAATAG/TGCCTA`	1	--	ng3¹		4	NA EU EA	318
	rs10212017^1,2	A,C,F,H	20927803(+)	`GACCCA/TGCGGG`	1	--	ng5¹		9	EU EA WA NA	852
	rs5995720^1,2	A,C,F,H	20929705(+)	`AGTGGG/AAGGAA`	1	K/E	mis¹ ese³ trp³		6	EU EA WA NA	496
	rs5757629^1,2	A,C,F,H	20927601(+)	`TAGCAA/GTCACT`	1	--	ng5¹		8	EA WA NA	522
	rs6001563^1,2	A,C,F,H	20929764(+)	`AGCAGA/GGGCAC`	1	--	ut3¹ ese³		7	EU EA WA NA	628
--	rs11089978^1,2	A,C,F,H	20929216(+)	`CTGCAT/CGTCTG`	1	--	ut5¹ ese³		5	NA EU EA WA	448
	rs10854726^1,2	A,C,F,H	20930210(+)	`TAGAGT/Cgggtt`	1	--	ng3¹		8	NA EU EA WA	750
	rs5757643^1,2	A,C,F	20929057(+)	`CCGACG/ACTGTT`	1	--	ng5¹		4	NA EA	396
--	rs10212005^1,2	A,C,F	20927829(+)	`TCTGCG/ACCTCA`	1	--	ng5¹		1	NA	40
	rs10212016^1,2	A,C,F	20927742(+)	`CCTGGG/ACAGTG`	1	--	ng5¹		1	NA	40

About this table

HapMap Linkage Disequilibrium images for VPREB1 (up to first 250kb)

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

OMIM: 605141

3 Novoseek disease relationships for VPREB1 gene

Disease	Score	Articles	PubMed IDs for Articles with Shared Sentences (# sentences)
common variable immunodeficiency	58.54	3	8031574 (2), 7710759 (1)
lymphoblastic leukemia acute	28.52	1	1884024 (1)
leukemia	25.74	2	1884024 (2)

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(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

10/37 PubMed articles for VPREB1 gene (see all 37 ):

The human pre-B cell receptor: structural constraints for a tentative model of the pseudo-light (psi L) chain. (PubMed id 7935499)^{1, 3, 4} Guelpa-Fonlupt V....Schiff C. (1994)
A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)^{3, 4} Collins J.E.... Dunham I. (2004)
One-megabase sequence analysis of the human immunoglobulin lambda gene locus. (PubMed id 9074928)^{3, 4} Kawasaki K....Shimizu N. (1997)
The human Vpre B gene is located on chromosome 22 near a cluster of V lambda gene segments. (PubMed id 3139558)^{2, 3} Bauer S.R....Melchers F. (1988)
Structure and pre-B lymphocyte restricted expression of the VpreB in humans and conservation of its structure in other mammalian species. (PubMed id 3258819)^{3, 4} Bauer S.R.... Melchers F. (1988)
The products of pre-B cell-specific genes (lambda 5 and VpreB) and the immunoglobulin mu chain form a complex that is transported onto the cell surface. (PubMed id 2117639)^{1, 3} Tsubata T. and Reth M. (1990)
Secretion of soluble pre-B cell receptors by pre-B cells. (PubMed id 9058786)^{1, 3} Bornemann K.D....Corley R.B. (1997)
Systematic identification of SH3 domain-mediated human protein-protein interactions by peptide array target screening. (PubMed id 17474147)³ Wu C....Li S.S. (2007)
Clustering of pre-B cell integrins induces galectin-1-dependent pre-B cell receptor relocalization and activation. (PubMed id 16818733)³ Rossi B....Gauthier L. (2006)
The human V-preB promoter is a target for coordinated activation by early B cell factor and E47. (PubMed id 11994467)³ Gisler R. and Sigvardsson M. (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: 7441	HGNC: 12709	AceView: VPREB1	Ensembl:ENSG00000169575	euGenes: HUgn7441
ECgene: VPREB1	H-InvDB: VPREB1

(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

Name	Description
ATLAS Chromosomes in Cancer entry for VPREB1	Genetics and Cytogenetics in Oncology and Haematology
IMGT entry for VPREB	The international ImMunoGeneTics information system® specializing in Immunoglobulins (IG), T cell receptors (TR), Major Histocompatibility Complex (MHC) and related proteins of the immune system (RPI) of human and other vertebrate species.

Licensable Technologies for VPREB1
(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)
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Products for VPREB1:

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 VPREB1-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 VPREB1		Browse antibodies at Sigma-Aldrich
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VPREB1 Gene

protein-coding GIFtS: 54

Aliases &
Descriptions
for VPREB1

Summaries
for VPREB1

Genomic Location
for VPREB1

Proteins
for VPREB1

Protein Domains/
Families
for VPREB1

Gene Function
for VPREB1

Pathways & Interactions
for VPREB1

Drugs & Compounds
for VPREB1

Transcripts
for VPREB1

Expression
for VPREB1

Orthologs
for VPREB1

Paralogs
for VPREB1

SNPs/Variants
for VPREB1

Disorders & Mutations
for VPREB1

Medical News
for VPREB1

Publications
for VPREB1

Search for VPREB1

Genome Databases showing VPREB1

Other Databases showing VPREB1

Specialized Databases showing VPREB1

Licensable Technologies
for VPREB1

Services
for VPREB1

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

VPREB1 Gene

protein-coding GIFtS: 54

Aliases & Descriptionsfor VPREB1

Summariesfor VPREB1

Genomic Locationfor VPREB1

Proteinsfor VPREB1

Protein Domains/Familiesfor VPREB1

Gene Functionfor VPREB1

Pathways & Interactionsfor VPREB1

Drugs & Compoundsfor VPREB1

Transcriptsfor VPREB1

Expression for VPREB1

Orthologsfor VPREB1

Paralogsfor VPREB1

SNPs/Variantsfor VPREB1

Disorders & Mutationsfor VPREB1

Medical Newsfor VPREB1

Publicationsfor VPREB1

Search for VPREB1

Genome Databases showing VPREB1

Other Databases showing VPREB1

Specialized Databases showing VPREB1

Licensable Technologiesfor VPREB1

Servicesfor VPREB1

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 VPREB1

Summaries
for VPREB1

Genomic Location
for VPREB1

Proteins
for VPREB1

Protein Domains/
Families
for VPREB1

Gene Function
for VPREB1

Pathways & Interactions
for VPREB1

Drugs & Compounds
for VPREB1

Transcripts
for VPREB1

Expression
for VPREB1

Orthologs
for VPREB1

Paralogs
for VPREB1

SNPs/Variants
for VPREB1

Disorders & Mutations
for VPREB1

Medical News
for VPREB1

Publications
for VPREB1

Licensable Technologies
for VPREB1

Services
for VPREB1