Aliases for RAB6C Gene

Aliases for RAB6C Gene

  • RAB6C, Member RAS Oncogene Family 2 3 5
  • WTH3 2 3 4
  • Ras-Related Protein Rab-6C 3 4
  • Rab6-Like Protein WTH3 3 4
  • RAB6C 5

External Ids for RAB6C Gene

Previous GeneCards Identifiers for RAB6C Gene

  • GC02P128038
  • GC02M130298
  • GC02P130643
  • GC02M132331
  • GC02P130831
  • GC02M131954
  • GC02P130454
  • GC02U900801
  • GC11M073065
  • GC02P130737
  • GC02P123046

Summaries for RAB6C Gene

GeneCards Summary for RAB6C Gene

RAB6C (RAB6C, Member RAS Oncogene Family) is a Protein Coding gene. Diseases associated with RAB6C include Progesterone-Receptor Negative Breast Cancer and Clear Cell Chondrosarcoma. Among its related pathways are Sertoli-Sertoli Cell Junction Dynamics and Autophagy Pathway. Gene Ontology (GO) annotations related to this gene include GTP binding and GTPase activity. An important paralog of this gene is RAB6D.

UniProtKB/Swiss-Prot Summary for RAB6C Gene

  • May be involved in the regulation of centrosome duplication and cell cycle progression.

Gene Wiki entry for RAB6C Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RAB6C Gene

Genomics for RAB6C Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RAB6C Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J129979 Promoter 1.3 Ensembl CraniofacialAtlas 250.7 +0.3 349 1.2 ZNF600 ATF2 ZNF341 ZNF217 ELF1 SP2 SIN3A ZNF2 SPI1 ZNF189 RAB6C-AS1 RAB6C PTPN18 POTEF
GH02J129876 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 0.2 -101.9 -101866 2.4 ATF2 ZBTB10 REST TRIM22 BHLHE40 ZNF341 MNT RAD51 ELF1 SP2 LINC02572 ENSG00000286957 LOC105373616 RAB6C
GH02J129933 Promoter/Enhancer 0.9 Ensembl ENCODE 0.3 -45.0 -44962 2.4 ZNF366 KDM1A EZH2 PLAC9P1 lnc-POTEF-1 piR-61945-285 RAB6C-AS1 LINC01856 RAB6C
GH02J129957 Enhancer 0.7 ENCODE 0.4 -21.6 -21573 0.2 ZNF217 MBD2 CTBP1 CUX1 SIN3A GATA3 SMARCE1 PKNOX1 DPF2 CREB1 RF00017-2988 HSALNG0018757 RAB6C
GH02J129929 Enhancer 0.8 Ensembl ENCODE CraniofacialAtlas 0.3 -49.8 -49766 2.2 JUND CTCF ATF2 GLIS1 CREB1 CHD2 RAB6C-AS1 CCDC115 PTPN18 PLAC9P1 lnc-POTEF-1 LINC01856 RAB6C
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RAB6C on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RAB6C

Top Transcription factor binding sites by QIAGEN in the RAB6C gene promoter:
  • AP-4
  • FOXO4
  • IRF-7A
  • LUN-1
  • Nkx2-5
  • Nkx3-1
  • Nkx3-1 v2
  • Nkx3-1 v3
  • Nkx6-1

Genomic Locations for RAB6C Gene

Latest Assembly
chr2:129,979,666-129,982,738
(GRCh38/hg38)
Size:
3,073 bases
Orientation:
Plus strand

Previous Assembly
chr2:130,737,239-130,740,311
(GRCh37/hg19 by Entrez Gene)
Size:
3,073 bases
Orientation:
Plus strand

chr2:130,737,235-130,740,311
(GRCh37/hg19 by Ensembl)
Size:
3,077 bases
Orientation:
Plus strand

Genomic View for RAB6C Gene

Genes around RAB6C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RAB6C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RAB6C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RAB6C Gene

Proteins for RAB6C Gene

  • Protein details for RAB6C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H0N0-RAB6C_HUMAN
    Recommended name:
    Ras-related protein Rab-6C
    Protein Accession:
    Q9H0N0
    Secondary Accessions:
    • Q53RU3
    • Q6FIF7
    • Q9P128

    Protein attributes for RAB6C Gene

    Size:
    254 amino acids
    Molecular mass:
    28355 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Primate-specific retrogene derived from isoform 2 of RAB6A transcript.
    • Previously reported to exhibit GTP-binding affinity comparable to that of RAB6A (PubMed:16103095). In contrast (PubMed:20064528) concludes that RAB6C is an inefficient GTP-binding.

neXtProt entry for RAB6C Gene

Post-translational modifications for RAB6C Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RAB6C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RAB6C Gene

Domains & Families for RAB6C Gene

Gene Families for RAB6C Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RAB6C Gene

InterPro:
Blocks:
  • Transforming protein P21 RAS signature

Suggested Antigen Peptide Sequences for RAB6C Gene

GenScript: Design optimal peptide antigens:
  • WTH3DI (Q53S08_HUMAN)
  • Rab6-like protein WTH3 (RAB6C_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9H0N0

UniProtKB/Swiss-Prot:

RAB6C_HUMAN :
  • Belongs to the small GTPase superfamily. Rab family.
Family:
  • Belongs to the small GTPase superfamily. Rab family.
genes like me logo Genes that share domains with RAB6C: view

Function for RAB6C Gene

Molecular function for RAB6C Gene

UniProtKB/Swiss-Prot Function:
May be involved in the regulation of centrosome duplication and cell cycle progression.

Phenotypes From GWAS Catalog for RAB6C Gene

Gene Ontology (GO) - Molecular Function for RAB6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003924 GTPase activity IBA,IDA 10455022
GO:0005515 protein binding IPI 32814053
GO:0005525 GTP binding IEA --
genes like me logo Genes that share ontologies with RAB6C: view
genes like me logo Genes that share phenotypes with RAB6C: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RAB6C

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RAB6C Gene

Localization for RAB6C Gene

Subcellular locations from UniProtKB/Swiss-Prot for RAB6C Gene

Nucleus. Cytoplasm. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RAB6C gene
Compartment Confidence
cytoskeleton 5
nucleus 4
cytosol 4
golgi apparatus 4
plasma membrane 1
extracellular 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RAB6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005794 Golgi apparatus IBA,IDA --
GO:0005813 centrosome IDA 20064528
GO:0005815 microtubule organizing center IEA --
genes like me logo Genes that share ontologies with RAB6C: view

Pathways & Interactions for RAB6C Gene

PathCards logo

SuperPathways for RAB6C Gene

SuperPathway Contained pathways
1 Autophagy Pathway
2 Sertoli-Sertoli Cell Junction Dynamics
.36
genes like me logo Genes that share pathways with RAB6C: view

Pathways by source for RAB6C Gene

1 Sino Biological pathway for RAB6C Gene
1 Qiagen pathway for RAB6C Gene
  • Epithelial Tight Junctions

Gene Ontology (GO) - Biological Process for RAB6C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle IMP 20064528
GO:0006886 intracellular protein transport IBA 21873635
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER IBA 21873635
GO:0006891 intra-Golgi vesicle-mediated transport IBA 21873635
GO:0007264 small GTPase mediated signal transduction TAS 10455022
genes like me logo Genes that share ontologies with RAB6C: view

No data available for SIGNOR curated interactions for RAB6C Gene

Drugs & Compounds for RAB6C Gene

No Compound Related Data Available

Transcripts for RAB6C Gene

mRNA/cDNA for RAB6C Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RAB6C

Alternative Splicing Database (ASD) splice patterns (SP) for RAB6C Gene

No ASD Table

Relevant External Links for RAB6C Gene

GeneLoc Exon Structure for
RAB6C

Expression for RAB6C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RAB6C Gene

Protein differential expression in normal tissues from HIPED for RAB6C Gene

This gene is overexpressed in Bone (19.2), Adipocyte (18.8), and Pancreas (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RAB6C Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RAB6C

mRNA Expression by UniProt/SwissProt for RAB6C Gene:

Q9H0N0-RAB6C_HUMAN
Tissue specificity: Highest levels are found in fetal and adult brain, prostate, testis and spinal cord. Undetectable expression in adrenal gland, skeletal muscle, bone marrow, fetal, and adult liver, heart, salivary gland, and trachea. Detected in the HEK293, HEK293T, LNCaP, MCF-7, T-47D and EVSA-T cell lines (at protein level).

Evidence on tissue expression from TISSUES for RAB6C Gene

  • Kidney(4.3)
  • Nervous system(3.7)
genes like me logo Genes that share expression patterns with RAB6C: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for RAB6C Gene

Orthologs for RAB6C Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for RAB6C Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RAB6C 30
  • 97 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia RAB6C 30
  • 92 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia RAB6C 30
  • 91 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Rab6a 30
  • 90 (a)
OneToMany
Oppossum
(Monodelphis domestica)
Mammalia -- 30
  • 89 (a)
OneToMany
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 30
  • 87 (a)
OneToMany
Chicken
(Gallus gallus)
Aves RAB6A 30
  • 92 (a)
OneToMany
Lizard
(Anolis carolinensis)
Reptilia -- 30
  • 90 (a)
ManyToMany
-- 30
  • 85 (a)
ManyToMany
Zebrafish
(Danio rerio)
Actinopterygii rab6a 30
  • 89 (a)
ManyToMany
CU694807.1 30
  • 88 (a)
ManyToMany
Fruit Fly
(Drosophila melanogaster)
Insecta Rab6 30 31
  • 80 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea rab-6.2 30
  • 74 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YPT6 30
  • 56 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.10389 30
  • 78 (a)
OneToMany
Species where no ortholog for RAB6C was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)

Evolution for RAB6C Gene

ENSEMBL:
Gene Tree for RAB6C (if available)
TreeFam:
Gene Tree for RAB6C (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RAB6C: view image
Alliance of Genome Resources:
Additional Orthologs for RAB6C

Paralogs for RAB6C Gene

genes like me logo Genes that share paralogs with RAB6C: view

Variants for RAB6C Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RAB6C Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
rs4662674 -- p.Ala159Thr

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RAB6C Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RAB6C Gene

Variant ID Type Subtype PubMed ID
dgv4071n100 CNV loss 25217958
esv2751826 CNV gain 17911159
esv2759092 CNV gain+loss 17122850
esv29254 CNV loss 19812545
nsv1003941 CNV gain 25217958
nsv10157 CNV loss 18304495
nsv428403 CNV loss 18775914
nsv459274 CNV loss 19166990
nsv471419 CNV gain 19718026
nsv583046 CNV loss 21841781
nsv821629 CNV loss 15273396
nsv834374 CNV gain 17160897
nsv961879 CNV duplication 23825009

Variation tolerance for RAB6C Gene

Residual Variation Intolerance Score: 77% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.76; 66.57% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RAB6C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RAB6C
Leiden Open Variation Database (LOVD)
RAB6C

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RAB6C Gene

Disorders for RAB6C Gene

MalaCards: The human disease database

(5) MalaCards diseases for RAB6C Gene - From: COP

- elite association - COSMIC cancer census association via MalaCards
Search RAB6C in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RAB6C

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with RAB6C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RAB6C Gene

Publications for RAB6C Gene

  1. WTH3 is a direct target of the p53 protein. (PMID: 17426708) Tian K … Xu H (British journal of cancer 2007) 2 3 4
  2. WTH3, a new member of the Rab6 gene family, and multidrug resistance. (PMID: 12007787) Shan J … Xu HP (Biochimica et biophysica acta 2002) 3 4 22
  3. Rab6c, a new member of the rab gene family, is involved in drug resistance in MCF7/AdrR cells. (PMID: 11054569) Shan J … Xu H (Gene 2000) 2 3 4
  4. RAB6C is a retrogene that encodes a centrosomal protein involved in cell cycle progression. (PMID: 20064528) Young J … Goud B (Journal of molecular biology 2010) 3 4
  5. Association of genetic variants with hemorrhagic stroke in Japanese individuals. (PMID: 20198315) Yoshida T … Yamada Y (International journal of molecular medicine 2010) 3 40

Products for RAB6C Gene

Sources for RAB6C Gene