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Aliases for RGP1 Gene

Aliases for RGP1 Gene

  • RGP1 Homolog, RAB6A GEF Complex Partner 1 2 3 5
  • KIAA0258 2 3 4
  • Retrograde Golgi Transport Protein RGP1 Homolog 3 4
  • RGP1 Retrograde Golgi Transport Homolog (S. Cerevisiae) 2
  • RGP1 Retrograde Golgi Transport Homolog 3
  • RAB6A-GEF Complex Partner Protein 2 3

External Ids for RGP1 Gene

Previous HGNC Symbols for RGP1 Gene

  • KIAA0258

Summaries for RGP1 Gene

GeneCards Summary for RGP1 Gene

RGP1 (RGP1 Homolog, RAB6A GEF Complex Partner 1) is a Protein Coding gene. Among its related pathways are Vesicle-mediated transport and Intra-Golgi traffic. GO annotations related to this gene include Rab GTPase binding and Rab guanyl-nucleotide exchange factor activity.

UniProtKB/Swiss-Prot for RGP1 Gene

  • The RIC1-RGP1 complex acts as a guanine nucleotide exchange factor (GEF), which activates RAB6A by exchanging bound GDP for free GTP and may thereby required for efficient fusion of endosome-derived vesicles with the Golgi compartment. The RIC1-RGP1 complex participates in the recycling of mannose-6-phosphate receptors.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RGP1 Gene

Genomics for RGP1 Gene

Regulatory Elements for RGP1 Gene

Enhancers for RGP1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09F035656 1 ENCODE 19.1 -88.3 -88315 9.9 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 C9orf131 RGP1 PIGO ARHGEF39 RN7SL22P YBX1P10 CCDC107 CA9 TPM2 CD72
GH09F035726 0.9 FANTOM5 ENCODE 11.8 -18.9 -18866 8.6 MLX CREB3L1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TMEM8B GBA2 TPM2 RGP1 TLN1 ARHGEF39 RN7SL22P CCDC107 ENSG00000228843 MSMP
GH09F035718 0.2 ENCODE 11.3 -29.9 -29889 1.1 MAX ARHGEF39 RN7SL22P CCDC107 CA9 GBA2 RGP1 ENSG00000228843 MSMP SPAG8 TMEM8B
GH09F035679 0.6 Ensembl ENCODE 10.9 -63.2 -63163 12.8 PKNOX1 ARID4B SIN3A GLIS2 ELK1 FOS ZNF263 SP3 SMARCB1 MBD2 TPM2 GBA2 TMEM8B TLN1 NPR2 CCDC107 SIT1 CREB3 MIR6852 RGP1
GH09F035694 0.2 ENCODE 10.9 -53.2 -53194 2.6 CTCF ARID4B RAD21 ZBTB48 POLR2A ZNF143 SMC3 FOS THAP11 TRIM22 TPM2 RN7SL22P ARHGEF39 CCDC107 SIT1 CA9 TLN1 MIR6852 CREB3 GBA2
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around RGP1 on UCSC Golden Path with GeneCards custom track

Promoters for RGP1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001302870 -1180 4201 ATF1 CREB3L1 ARID4B SIN3A DMAP1 ZNF48 ETS1 YY1 SLC30A9 GLIS2

Genomic Location for RGP1 Gene

Chromosome:
9
Start:
35,749,280 bp from pter
End:
35,758,575 bp from pter
Size:
9,296 bases
Orientation:
Plus strand

Genomic View for RGP1 Gene

Genes around RGP1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RGP1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RGP1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RGP1 Gene

Proteins for RGP1 Gene

  • Protein details for RGP1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92546-RGP1_HUMAN
    Recommended name:
    RAB6A-GEF complex partner protein 2
    Protein Accession:
    Q92546
    Secondary Accessions:
    • Q5TCV5

    Protein attributes for RGP1 Gene

    Size:
    391 amino acids
    Molecular mass:
    42455 Da
    Quaternary structure:
    • Forms a complex with RIC1; the interaction enhances RAB6A GTPase activity. Interacts with RIC1. Interacts with RAB6A; the interaction is direct with a preference for RAB6A-GDP. Interacts with RAB33B.
    SequenceCaution:
    • Sequence=BAA13388.2; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for RGP1 Gene

Post-translational modifications for RGP1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RGP1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RGP1 Gene

Domains & Families for RGP1 Gene

Protein Domains for RGP1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for RGP1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q92546

UniProtKB/Swiss-Prot:

RGP1_HUMAN :
  • Belongs to the RGP1 family.
Family:
  • Belongs to the RGP1 family.
genes like me logo Genes that share domains with RGP1: view

No data available for Gene Families for RGP1 Gene

Function for RGP1 Gene

Molecular function for RGP1 Gene

UniProtKB/Swiss-Prot Function:
The RIC1-RGP1 complex acts as a guanine nucleotide exchange factor (GEF), which activates RAB6A by exchanging bound GDP for free GTP and may thereby required for efficient fusion of endosome-derived vesicles with the Golgi compartment. The RIC1-RGP1 complex participates in the recycling of mannose-6-phosphate receptors.

Gene Ontology (GO) - Molecular Function for RGP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005085 guanyl-nucleotide exchange factor activity IEA --
GO:0005515 protein binding IPI 22458338
GO:0017112 Rab guanyl-nucleotide exchange factor activity IDA 23091056
GO:0017137 Rab GTPase binding IDA 23091056
genes like me logo Genes that share ontologies with RGP1: view
genes like me logo Genes that share phenotypes with RGP1: view

Animal Models for RGP1 Gene

MGI Knock Outs for RGP1:
  • Rgp1 tm1.1(KOMP)Vlcg

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RGP1 Gene

Localization for RGP1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RGP1 Gene

Cytoplasm, cytosol. Membrane.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RGP1 Gene COMPARTMENTS Subcellular localization image for RGP1 gene
Compartment Confidence
cytosol 5
golgi apparatus 5
mitochondrion 2
nucleus 2
plasma membrane 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for RGP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IBA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0016020 membrane IEA,IDA 23091056
GO:0032588 trans-Golgi network membrane TAS --
genes like me logo Genes that share ontologies with RGP1: view

Pathways & Interactions for RGP1 Gene

genes like me logo Genes that share pathways with RGP1: view

Interacting Proteins for RGP1 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000367318%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: Q92546-RGP1_HUMAN ENSP00000367318 for RGP1 Gene via IID UniProtKB STRING

Gene Ontology (GO) - Biological Process for RGP1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0042147 retrograde transport, endosome to Golgi IMP 23091056
GO:0043547 positive regulation of GTPase activity IDA 23091056
GO:1903363 negative regulation of cellular protein catabolic process IMP 23091056
genes like me logo Genes that share ontologies with RGP1: view

No data available for SIGNOR curated interactions for RGP1 Gene

Transcripts for RGP1 Gene

mRNA/cDNA for RGP1 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(133) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RGP1 Gene

RGP1 retrograde golgi transport homolog (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RGP1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10
SP1:
SP2:
SP3:

Relevant External Links for RGP1 Gene

GeneLoc Exon Structure for
RGP1
ECgene alternative splicing isoforms for
RGP1

Expression for RGP1 Gene

mRNA expression in normal human tissues for RGP1 Gene

Protein differential expression in normal tissues from HIPED for RGP1 Gene

This gene is overexpressed in Heart (34.1), Placenta (21.3), and Liver (13.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RGP1 Gene



Protein tissue co-expression partners for RGP1 Gene

NURSA nuclear receptor signaling pathways regulating expression of RGP1 Gene:

RGP1

SOURCE GeneReport for Unigene cluster for RGP1 Gene:

Hs.493804
genes like me logo Genes that share expression patterns with RGP1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RGP1 Gene

Orthologs for RGP1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RGP1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RGP1 34 35
  • 99.49 (n)
oppossum
(Monodelphis domestica)
Mammalia RGP1 35
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RGP1 34 35
  • 91.99 (n)
cow
(Bos Taurus)
Mammalia RGP1 34 35
  • 90.94 (n)
rat
(Rattus norvegicus)
Mammalia Rgp1 34
  • 89.86 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RGP1 35
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rgp1 34 16 35
  • 88.83 (n)
chicken
(Gallus gallus)
Aves RGP1 34 35
  • 70.89 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.17737 34
zebrafish
(Danio rerio)
Actinopterygii rgp1 34 35
  • 65.11 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10152 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003042 34
  • 49.14 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG1116 34 35
  • 48.5 (n)
worm
(Caenorhabditis elegans)
Secernentea M01F1.9 34 35
  • 41.17 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2444 35
  • 43 (a)
OneToOne
Species where no ortholog for RGP1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 RGP1 Gene

ENSEMBL:
Gene Tree for RGP1 (if available)
TreeFam:
Gene Tree for RGP1 (if available)

Paralogs for RGP1 Gene

No data available for Paralogs for RGP1 Gene

Variants for RGP1 Gene

Sequence variations from dbSNP and Humsavar for RGP1 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs34312177 Likely benign 35,748,672(-) GGAAC(C/T)GGCGT upstream-variant-2KB, reference, synonymous-codon, utr-variant-5-prime
rs776346547 Uncertain significance 35,748,571(+) TCTTA(A/C/G)AGTCT upstream-variant-2KB, reference, missense, utr-variant-5-prime
rs10972571 -- 35,749,406(+) TATGC(C/G)AGGTG upstream-variant-2KB, utr-variant-5-prime
rs111927223 -- 35,752,043(+) CACAT(C/G)TGACT upstream-variant-2KB, reference, missense
rs112104817 -- 35,749,421(+) GCGGC(A/C/G)GTGAT intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RGP1 Gene

Variant ID Type Subtype PubMed ID
nsv1125318 OTHER inversion 24896259

Variation tolerance for RGP1 Gene

Residual Variation Intolerance Score: 36.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.40; 54.30% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RGP1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RGP1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RGP1 Gene

Disorders for RGP1 Gene

Relevant External Links for RGP1

Genetic Association Database (GAD)
RGP1
Human Genome Epidemiology (HuGE) Navigator
RGP1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RGP1

No disorders were found for RGP1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RGP1 Gene

Publications for RGP1 Gene

  1. Ric1-Rgp1 complex is a guanine nucleotide exchange factor for the late Golgi Rab6A GTPase and an effector of the medial Golgi Rab33B GTPase. (PMID: 23091056) Pusapati G.V. … Pfeffer S.R. (J. Biol. Chem. 2012) 2 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. (PMID: 9039502) Nagase T. … Nomura N. (DNA Res. 1996) 3 4 64
  4. Genome-wide association study identifies multiple loci associated with both mammographic density and breast cancer risk. (PMID: 25342443) LindstrAPm S. … Tamimi R.M. (Nat Commun 2014) 3 64
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64

Products for RGP1 Gene

Sources for RGP1 Gene

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