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RAB39B Gene

protein-coding GIFtS: 50

GC0XM154140

RAB39B, member RAS oncogene family
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
OTTHUMP00000024247 ^²

Descriptions
RAB39B, member RAS oncogene family ^²

External Ids
HGNC: 16499¹
Entrez Gene: 116442²
UniProtKB: Q96DA2³
Ensembl: ENSG00000155961⁷

Search outside databases for aliases for RAB39B gene

Previous GC identifers: GC00U991112 GC0XM150941 GC0XM152004 GC0XM152909 GC0XM152900 GC0XM154051

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

EntrezGene summary for RAB39B:

This gene encodes a member of the Rab family of proteins. Rab proteins are small GTPases that are

involved in vesicular trafficking. [provided by RefSeq]

UniProtKB/Swiss-Prot: RB39B_HUMAN, Q96DA2

Function: May be involved in vesicular trafficking

Gene Wiki entry for RAB39B

(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 RAB39B gene

Entrez Gene cytogenetic band: Xq28 Ensembl cytogenetic band: Xq28 HGNC cytogenetic band: Xq28

RAB39B 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 X GeneLoc Exon Structure

GeneLoc location for GC0XM154140: (about GC identifiers)

Start:	154,140,720 bp from pter
End:	154,147,046 bp from pter
Size:	6,327 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000023.9 NT_011726.13

(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: RB39B_HUMAN, Q96DA2 (See protein sequence)

Recommended Name: Ras-related protein Rab-39B

Size: 213 amino acids; 24622 Da

Subcellular location: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential)

Secondary accessions: Q5JT79 Q8NEX3

REFSEQ proteins: NP_741995.1

ENSEMBL proteins:

ENSP00000358466

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 RAB39B
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	Recombinant Proteins from Abcam (RAB39B)
	Human Recombinant Proteins from Abnova (RAB39B)

OriGene Purified Recombinant Human Protein: RAB39B

3 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005622	intracellular	IDA	11256614
GO:0005737	cytoplasm	IDA	18029348
GO:0005886	plasma membrane	IEA	--

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Antibodies for RAB39B:

	Browse Antibodies Central at Invitrogen
	Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
	Sigma-Aldrich Antibodies for RAB39B
	Browse R&D Systems for Antibodies
	Antibodies from Abcam (RAB39B), each with their Abpromise^SM
	Monoclonal and Polyclonal Antibodies from Abnova (RAB39B)
	Novus Biologicals Antibodies for RAB39B

Assays for RAB39B:

	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 Q96DA2

ProtoNet protein and cluster: Q96DA2

1 Blocks protein family: IPB001806 Transforming protein P21 RAS signature

UniProtKB/Swiss-Prot: RB39B_HUMAN, Q96DA2

Similarity: Belongs to the small GTPase superfamily. Rab family

(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 (RAB39B)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (RAB39B)

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): BC009714

Applied Biosystems Silencer® siRNAs for RAB39B

Sigma-Aldrich siRNA for RAB39B

Sigma-Aldrich shRNA for RAB39B

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Invitrogen Clones for RAB39B
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_171998
Myc/DDK tagged cDNA clone in CMV expression vector: NM_171998
untagged cDNA clones in CMV expression vector (see all 4): AL834460

Primers:

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

OriGene genome-wide validated SYBR primer pairs: NM_171998

UniProtKB/Swiss-Prot: RB39B_HUMAN, Q96DA2

Function: May be involved in vesicular trafficking

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000166	nucleotide binding	IEA	--
GO:0005525	GTP 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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2 Gene Ontology (GO) biological process terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007264	small GTPase mediated signal transduction	IEA	--
GO:0015031	protein transport	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

Enzo Life Sciences drugs & compounds for RAB39B

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for RAB39B

(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 (RAB39B)
		Browse for Gene Knock-down Tools from Millipore
		Abnova Chimera RNAi Products for Gene knock-down (RAB39B)

OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): BC009714

Sigma-Aldrich siRNA for RAB39B

Sigma-Aldrich shRNA for RAB39B

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_171998

REFSEQ mRNAs for RAB39B gene:

NM_171998.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_171998

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_171998
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_171998
                                 untagged cDNA clones in CMV expression vector (see all 4): AL834460

Additional cDNA sequence:

AK056209.1 AL834460.1 AY052478.1 BC009714.1

2 DOTS entries:

DT.308598 DT.121283435

24/67 AceView cDNA sequences (see all 67 ):

BX419147 BU634476 AI929317 BM677208 CK819082 AL834460 AA356937 BC009714

AA804525 AA705288 AI022744 BE503571 BM069528 AK056209 BX108796 NM_171998

BM069764 AA744827 CK819081 BG057699 AW015673 BM068873 AA280648 AW452095

highest scoring ESTs for RAB39B:

AA282024 AA744827 AA807544 AI057628 AI929317 AL834460 AW452095 AY052478 BC009714 BE908946

Unigene Cluster for RAB39B:

RAB39B, member RAS oncogene family

Hs.632832 [show with all ESTs]

Unigene Representative Sequence: NM_171998

GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:

ENST00000369454

(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

RAB39B expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for RAB39B

¹ / ² / ³

7 probe-sets matching RAB39B 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
75526_at²^{, 3}	U95-E	1	1.00	1.00	0.82	1.05	AA744827	0.80	1.00	0.91	1
61352_at²^{, 3}	U95-C	2	1.00	0.97	0.95	1.25	AI057628	0.80	1.00	0.91	1
58091_at²^{, 3}	U95-B	1	0.94	1.00	0.90	0.73	AA807544	0.80	1.00	0.91	1
238695_s_at²^{, 3}	U133-B	1	1.00	1.00	--	--	AW960289	0.60	1.00	0.82	1
230075_at²^{, 3}	U133-B	1	1.00	1.00	--	--	AV724323	0.60	1.00	0.82	1
238695_s_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--
230075_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

GeneDecks RAB39B 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: TTGGATTAGA

SOURCE GeneReport for Unigene cluster: Hs.632832

(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 RAB39B gene from 5/8 species (see all 8 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
cow (Bos taurus)	RAB39B¹	--	RAB39B, member RAS oncogene family	94.52(n) 99.53(a)	537560 NM_001076095.1 NP_001069563.1
mouse (Mus musculus)	Rab39b^{1, 5}	X⁵	RAB39B, member RAS oncogene family^{1, 5}	97.65(n)¹ 99.53(a)¹	67790¹ NM_175122.3¹ NP_780331.1¹ AB232636⁵ AK018257⁵ (see all 14)
zebrafish (Danio rerio)	Dr.29085²	--	Danio rerio RAB39B, member RAS oncogene family, mRNA more	72.86(n)	BC060898.1
fruit fly (Drosophila melanogaster)	Rab39¹	--	Rab39	57.28(n) 53.52(a)	31684 NM_132177.2 NP_572405.2
worm (Caenorhabditis elegans)	rab-39¹	--	RAB family	55.05(n) 55.56(a)	183941 NM_063583.2 NP_495984.2

About this table Species with no ortholog for RAB39B

ENSEMBL Gene Tree for RAB39B

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

Paralogs for RAB39B gene

RAB39²

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

10/27 NCBI SNPs in RAB39B are shown (see all 27 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 23)

AB	SNP ID	Valid	Chr X pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs3105275^1,2	A,C,F,H,O	154141626(+)	`ATCACG/AATGGA`	1	--	ut3¹ ese³		7	NA EU EA WA	560
	rs573572^1,2	A,C,F,H	154147372(+)	`ATAATC/TGCTTT`	1	--	ng3¹		7	NA EA EU WA	670
	rs3105276^1,2	A,C,F,H	154148243(+)	`ttttaG/Atatac`	1	--	ng3¹		4	EU EA WA	418
	rs573639^1,2	A,C,F,H	154147395(+)	`AAGCAT/ACATAA`	1	--	ng3¹		3	EA WA	298
	rs17052027^1,2	C,F,H	154141935(+)	`TGTACG/ATGGTT`	1	--	ut3¹ ese³		15	NA EU EA WA	978
	rs17052030^1,2	F,H	154141469(+)	`AACTTG/TGGGCA`	1	--	ut3¹ ese³		7	NA EU EA WA	560
	rs12848290^1,2	H	154141265(+)	`AGAATC/TTTCTA`	1	--	ut3¹ ese³		4	EU EA WA	418
--	rs12846572^1,2	H	154141296(+)	`TTGATG/AAAATT`	1	--	ut3¹ ese³		4	EU EA WA	420
--	rs12856202^1,2	H	154141295(+)	`GTTGAT/AGAAAT`	1	--	ut3¹ ese³		4	EU EA WA	418
	rs3747326^1,2	H	154140666(+)	`TGCTAC/TGCTGT`	1	--	ng5¹		4	EU EA WA	418

About this table

HapMap Linkage Disequilibrium images for RAB39B (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)
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10/12 PubMed articles for RAB39B gene (see all 12 ):

Isolation and characterization of a human novel RAB (RAB39B) gene. (PubMed id 12438742)^{2, 3, 4} Cheng H.... Mao Y. (2002)
The DNA sequence of the human X chromosome. (PubMed id 15772651)^{3, 4} Ross M.T.... Bentley D.R. (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)
Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)³ Barbe L....Andersson-Svahn H. (2008)
The full-ORF clone resource of the German cDNA Consortium. (PubMed id 17974005)⁴ Bechtel S....Schupp I. (2007)
The LIFEdb database in 2006. (PubMed id 16381901)³ Mehrle A....Wiemann S. (2006)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)³ Ota T....Sugano S. (2004)
From ORFeome to biology: a functional genomics pipeline. (PubMed id 15489336)³ Wiemann S....Poustka A. (2004)
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)
Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)³ Wiemann S.... Poustka A. (2001)

(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: 116442	HGNC: 16499	AceView: RAB39B	Ensembl:ENSG00000155961	euGenes: HUgn116442
ECgene: RAB39B	H-InvDB: RAB39B

(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)
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Name	Description
ATLAS Chromosomes in Cancer entry for RAB39B	Genetics and Cytogenetics in Oncology and Haematology

Licensable Technologies for RAB39B
(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 RAB39B:

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 RAB39B-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 RAB39B		Antibodies for RAB39B
	Explore super-pooled esiRNAs		Proteins for RAB39B
	Lentivirus-delivered shRNAs for RAB39B		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 (RAB39B)
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	Chimera RNAi (RAB39B)
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	Custom Service for Rabbit Pab from Full-length Protein

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	Antibodies (RAB39B)

	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 RAB39B

	Drugs for RAB39B
	Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies

Antibodies for RAB39B

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RAB39B Gene

protein-coding GIFtS: 50

Aliases &
Descriptions
for RAB39B

Summaries
for RAB39B

Genomic Location
for RAB39B

Proteins
for RAB39B

Protein Domains/
Families
for RAB39B

Gene Function
for RAB39B

Pathways & Interactions
for RAB39B

Drugs & Compounds
for RAB39B

Transcripts
for RAB39B

Expression
for RAB39B

Orthologs
for RAB39B

Paralogs
for RAB39B

SNPs/Variants
for RAB39B

Disorders & Mutations
for RAB39B

Medical News
for RAB39B

Publications
for RAB39B

Search for RAB39B

Genome Databases showing RAB39B

Other Databases showing RAB39B

Specialized Databases showing RAB39B

Licensable Technologies
for RAB39B

Services
for RAB39B

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

RAB39B Gene

protein-coding GIFtS: 50

Aliases & Descriptionsfor RAB39B

Summariesfor RAB39B

Genomic Locationfor RAB39B

Proteinsfor RAB39B

Protein Domains/Familiesfor RAB39B

Gene Functionfor RAB39B

Pathways & Interactionsfor RAB39B

Drugs & Compoundsfor RAB39B

Transcriptsfor RAB39B

Expression for RAB39B

Orthologsfor RAB39B

Paralogsfor RAB39B

SNPs/Variantsfor RAB39B

Disorders & Mutationsfor RAB39B

Medical Newsfor RAB39B

Publicationsfor RAB39B

Search for RAB39B

Genome Databases showing RAB39B

Other Databases showing RAB39B

Specialized Databases showing RAB39B

Licensable Technologiesfor RAB39B

Servicesfor RAB39B

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 RAB39B

Summaries
for RAB39B

Genomic Location
for RAB39B

Proteins
for RAB39B

Protein Domains/
Families
for RAB39B

Gene Function
for RAB39B

Pathways & Interactions
for RAB39B

Drugs & Compounds
for RAB39B

Transcripts
for RAB39B

Expression
for RAB39B

Orthologs
for RAB39B

Paralogs
for RAB39B

SNPs/Variants
for RAB39B

Disorders & Mutations
for RAB39B

Medical News
for RAB39B

Publications
for RAB39B

Licensable Technologies
for RAB39B

Services
for RAB39B