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RAB40C Gene

protein-coding   GIFtS: 54

GC16P000580
RAB40C, member RAS oncogene family
(Previous names: RAS-like, family 8, member C )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: RASL8C)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
OTTHUMP00000045523 2
RARL 1, 2, 3
RASL8C 2, 3
Descriptions
RAB40C, member RAS oncogene family 2
RAR (RAS like GTPASE) like 2
RAR like 2
RAS-like GTPase 2
RAS-like, family 8, member C 1, 2
Rar-like protein 3
Ras-like protein family member 8C 3
SOCS box-containing protein RAR3 3
External Ids
HGNC: 182851
Entrez Gene: 577992
UniProtKB: Q96S213
Ensembl: ENSG000001975627
Search outside databases for aliases for RAB40C gene

Previous GC identifer: GC16P000659

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: RB40C_HUMAN, Q96S21
Function: Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box
protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal
degradation of target proteins

(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 RAB40C gene  

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

RAB40C 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 16         GeneLoc Exon Structure

GeneLoc location for GC16P000580:     (about GC identifiers)

Start:
580,177 bp from pter
End:
619,273 bp from pter
Size:
39,097 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000016.8  NT_037887.4  
(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: RB40C_HUMAN, Q96S21 (See protein sequence)
Recommended Name: Ras-related protein Rab-40C  
Size: 281 amino acids; 31304 Da
Subunit: Component of the probable SCF-like ECS(RAB40C) E3 ubiquitin-protein ligase complex which
contains CUL5, RNF7/RBX2, Elongin BC complex and RAB40C. Interacts with CUL5, RNF7, TCEB1 and
TCEB2
Subcellular location: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential)
Secondary accessions: O60795 Q4TT41

REFSEQ proteins: NP_066991.2  

ENSEMBL proteins: 
ENSP00000248139 


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 (RAB40C)
Human Recombinant Proteins from Abnova (RAB40C)
                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 IDQualified GO termEvidencePubMed IDs
GO:0005886 plasma membrane IEA--
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Antibodies for RAB40C: 
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
Antibodies from Abcam (RAB40C), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (RAB40C)
Novus Biologicals Antibodies for RAB40C

Assays for RAB40C: 
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

5 InterPro domains/families:
 IPR001806 Ras_GTPase
 IPR005225 Small_GTP_bd
 IPR003579 GTPase_Rab
 IPR013753 Ras
 IPR001496 SOCS_C


   GeneDecks  RAB40C for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry Q96S21

ProtoNet protein and cluster: Q96S21

2 Blocks protein families:
IPB001496 SOCS protein
IPB001806 Transforming protein P21 RAS signature


UniProtKB/Swiss-Prot: RB40C_HUMAN, Q96S21
Domain: The SOCS box domain mediates the interaction with the Elongin BC complex, an adapter module
in different E3 ubiquitin ligase complexes (By similarity)
Similarity: Belongs to the small GTPase superfamily. Rab family
Similarity: Contains 1 SOCS box 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 (RAB40C)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (RAB40C)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_021168

              Applied Biosystems Silencer® siRNAs for RAB40C

              Sigma-Aldrich siRNA and siRNA Panels for RAB40C  
                     Sigma-Aldrich shRNA for RAB40C  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for RAB40C
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_021168
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_021168
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_021168 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_021168

UniProtKB/Swiss-Prot: RB40C_HUMAN, Q96S21
Function: Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box
protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal
degradation of target proteins

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

GO IDQualified GO termEvidencePubMed 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.)
About This Section


UniProtKB/Swiss-Prot: RB40C_HUMAN, Q96S21
Pathway: Protein modification; protein ubiquitination


2 Interacting proteins for RAB40C (Q96S212) via UniProtKB, MINT, and/or STRING

InteractantInteraction Details
GeneCardExternal ID(s)
--Q156732MINT-64261
--Q6IA352MINT-64604
About this table

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

GO IDQualified GO termEvidencePubMed IDs
GO:0007264 small GTPase mediated signal transduction IEA--
GO:0015031 protein transport IEA--
GO:0019941 modification-dependent protein catabolic process 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 RAB40C
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for RAB40C

(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 (RAB40C)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (RAB40C)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_021168

              Sigma-Aldrich siRNA and siRNA Panels for RAB40C  
                     Sigma-Aldrich shRNA for RAB40C  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_021168  

REFSEQ mRNAs for RAB40C gene: 

NM_021168.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_021168  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_021168
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_021168
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_021168 

Additional cDNA sequence: 

AK000584.1 AY823398.1 BC001581.1 BC014531.2 BC028696.1 

17 DOTS entries:

DT.95083922  DT.453980  DT.97840659  DT.100802005  DT.100802002  DT.92033462  DT.100682161  DT.86844847 
DT.91765872  DT.91765870  DT.95155374  DT.40308091  DT.120687829  DT.91988367  DT.92019726  DT.95155363 
DT.97765902 

24/243 AceView cDNA sequences (see all 243 ):

BM052895 AW166046 BQ061135 BQ233405 BX282685 AI819096 AI307130 BF116146 
BF593711 AA514649 BQ287791 BF813406 BM997982 BX383974 BE621282 NM_053284 
CD674470 AW516749 AW005486 BU619004 BU527649 BM664879 AI160282 BM702333 

highest scoring ESTs for RAB40C:

AI935153 AW007215 AA027001 AA057882 AA079092 AA292788 AA341497 AA394175 AA431384 AA432378 

Unigene Cluster for RAB40C:

RAB40C, member RAS oncogene family
Hs.459630  [show with all ESTs]
Unigene Representative Sequence: BC028696


GeneLoc Exon Structure

5/7 Alternative Splicing Database (ASD) splice patterns (SP) for RAB40C (see all 7 )

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c · 7d
SP1:        -           -                       -                                             
SP2:        -           -           -           -                                             
SP3:        -           -           -           -     -                                       
SP4:        -     -     -     -     -           -                                             
SP5:                                -           -                                             

About this scheme

ECgene alternative splicing isoforms for RAB40C

1 Ensembl transcript including schematic representation:
ENST00000248139  
(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

RAB40C expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for RAB40C

1 / 2 / 3

6 probe-sets matching RAB40C gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
39316_at2, 3 U95-A 2 1.00 0.97 0.73 1.05 AI935153 1.00 0.90 0.95 1
58378_at2, 3 U95-B 2 0.81 0.96 0.86 0.96 AW007215 1.00 0.90 0.95 1

213466_at2, 3 U133-A 1 1.00 1.00 -- -- BE965869 0.80 0.88 0.84 1

227698_s_at2, 3 U133-B 1 1.00 1.00 -- -- AW007215 1.00 0.90 0.95 1

213466_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

227698_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  RAB40C for binary patterns associated with the probe-sets selected above  
About GeneDecksing
About this table    
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: AACTACCAGA

SOURCE GeneReport for Unigene cluster: Hs.459630

Expression variation in blood from EXPOLDB for RAB40C

(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 RAB40C gene from 5/9 species (see all 9 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
RAB40C1   -- RAB40C, member RAS oncogene family 91.56(n)
98.28(a)
611450  XM_849117.1  XP_854210.1 
chimpanzee
(Pan troglodytes)
RAB40C1   -- RAB40C, member RAS oncogene family 99.53(n)
99.64(a)
467857  XM_001171880.1  XP_001171880.1 
cow
(Bos taurus)
RAB40C1   -- RAB40C, member RAS oncogene family 92.76(n)
99.29(a)
618031  XM_870360.2  XP_875453.2 
rat
(Rattus norvegicus)
Rab40c1   -- Rab40c, member RAS oncogene family 89.92(n)
98.93(a)
359728  NM_182675.1  NP_872616.1 
mouse
(Mus musculus)
Rab40c1, 5 175
Rab40c, member RAS oncogene family1, 5 90.39(n)1
98.93(a)1
2246241  NM_139154.11  NP_631893.11 
 AA0034545  AA6569245  (see all 18)
About this table        Species with no ortholog for RAB40C

ENSEMBL Gene Tree for RAB40C
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for RAB40C gene
RAB40A2  RAB40B2  RAB40AL2  

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


10/298 NCBI SNPs in RAB40C are shown (see all 298 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 104)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 16 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs155641,2
A,C,F,H617855(-) GTTTCA/CGACCA 1 -- ut31 ese39Minor allele frequency- C:0.49MN NA EU EA WA 926
rs22695571,2
A,C,F,H617630(+) GGGGAC/TGGGCG 1 -- ut316Minor allele frequency- T:0.44EA MN EU WA 1888
rs121492001,2
A,C,F,H618431(+) GGCAGC/TGGTGC 1 -- ut31 ese37Minor allele frequency- T:0.01EU EA WA NA 520
rs115481881,2
C,F,H618021(+) GCCACG/ACCAGC 1 -- ut317Minor allele frequency- A:0.14NA EU EA WA 502
rs19843951,2
A,C,F618844(+) CAGCAC/TGCAGA 1 -- ut31 ese33Minor allele frequency- T:0.36NA 140
rs101531071,2
F,H618878(+) CCCCCC/TGTGGT 1 -- ut31 ese34Minor allele frequency- T:0.02EU EA WA 412
rs101532251,2
H618981(+) GGGCCG/ATGGCC 1 -- ut31 ese34Minor allele frequency- A:0.00EU EA WA 406
--
rs116399781,2
C579043(+) CGGCGA/GCGCCC 1 -- ng510--------
rs23849721,2
A,C,F,H,O614425(-) CCTCTC/TGCTGA 1 -- int18Minor allele frequency- N:0.00EU EA WA NA 632
rs7630141,2
A,C,F,H,O615681(+) GACAGC/TCGGGC 1 -- int112Minor allele frequency- T:0.29NA PA EA EU 2372
About this table

HapMap Linkage Disequilibrium images for RAB40C (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

8 PubMed articles for RAB40C 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)
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Entrez Gene: 57799 HGNC: 18285 AceView: RAB40CandWFIKKN1 Ensembl:ENSG00000197562 euGenes: HUgn57799
ECgene: RAB40C H-InvDB: RAB40C
(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

NameDescription
ATLAS Chromosomes in Cancer entry for RAB40C Genetics and Cytogenetics in Oncology and Haematology
(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 RAB40C:
 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
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  Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for RAB40C-related products

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 Millipore Preclinical / Clinical Development Services
 Millipore Immunoassay Services
 Millipore Target Screening & Profiling Services


 Predesigned and custom siRNAs for RAB40C Browse antibodies at Sigma-Aldrich
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for RAB40C Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Drugs for RAB40C
 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for RAB40C

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