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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 Golgi-to-ER retrograde transport and Retrograde transport at the Trans-Golgi-Network. 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.

Additional gene information for RGP1 Gene

No data available for Entrez Gene Summary , CIViC 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
GH09H035656 1.7 Ensembl ENCODE dbSUPER 19.1 -88.3 -88315 9 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC SSRP1 ARHGEF39 VCP RGP1 C9orf131 PIGO RN7SL22P NPR2 YBX1P10 RECK ENSG00000230074
GH09H035913 1.5 Ensembl ENCODE dbSUPER 20.5 +168.0 167962 7 HDGF ATF1 ARNT ARID4B YBX1 ZBTB7B YY1 TCF12 ZNF766 ELK1 PIGO ARHGEF39 RGP1 TLN1 GBA2 SPAAR CLTA RECK NDUFA5P4 OR13J1
GH09H035904 1.8 FANTOM5 Ensembl ENCODE dbSUPER 9.4 +158.9 158888 7 FOXA2 YY1 ZNF121 ZNF143 FOS DEK SP3 REST PPARG ZNF518A HRCT1 SPAAR TMEM8B PIGO OR13J1 FAM221B NDUFA5P4 ENSG00000227388 NPR2 FANCG
GH09H034987 1.6 FANTOM5 ENCODE dbSUPER 9.9 -756.0 -756001 10 HDGF PKNOX1 ARID4B SIN3A YY1 ZNF207 ZNF143 FOS DEK SP3 VCP UBAP2 ARHGEF39 TPM2 FANCG CCDC107 TLN1 YBX1P10 PIGO FAM205A
GH09H035679 1.4 Ensembl ENCODE dbSUPER 10.9 -63.2 -63163 12 TBP PKNOX1 ZSCAN4 INSM2 ARID4B SIN3A GLIS2 ELK1 EGR1 ZNF366 TPM2 GBA2 TMEM8B TLN1 NPR2 CCDC107 SIT1 CREB3 RGP1 MSMP
- Elite enhancer and/or Elite enhancer-gene association 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
ENSR00000234679 -480 2401 ATF1 ARNT ARID4B SIN3A DMAP1 ETS1 GLIS2 ELK1 ZNF143 ATF7

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

Gene Families for RGP1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

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

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.

Phenotypes From GWAS Catalog for RGP1 Gene

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

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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
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 RGP1 gene
Compartment Confidence
plasma membrane 5
cytosol 5
golgi apparatus 5
mitochondrion 2
nucleus 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (4)
  • Plasma membrane (3)
See all subcellular structures

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:0005886 plasma membrane IDA --
GO:0016020 membrane IDA,IEA 23091056
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

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:0061024 membrane organization TAS --
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

Drugs & Compounds for RGP1 Gene

No Compound Related Data Available

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:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGP1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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, PaxDb, 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

Evidence on tissue expression from TISSUES for RGP1 Gene

  • Lung(4.2)
  • Bone marrow(4.1)
  • Nervous system(2.4)
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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 99.49 (n)
oppossum
(Monodelphis domestica)
Mammalia RGP1 34
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RGP1 33 34
  • 91.99 (n)
cow
(Bos Taurus)
Mammalia RGP1 34 33
  • 90.94 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rgp1 33
  • 89.86 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia RGP1 34
  • 89 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rgp1 33 16 34
  • 88.83 (n)
chicken
(Gallus gallus)
Aves RGP1 33 34
  • 70.89 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.17737 33
zebrafish
(Danio rerio)
Actinopterygii rgp1 34 33
  • 65.11 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10152 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003042 33
  • 49.14 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG1116 33 34
  • 48.5 (n)
worm
(Caenorhabditis elegans)
Secernentea M01F1.9 33 34
  • 41.17 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2444 34
  • 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
rs1000690639 -- 35,747,607(+) TGTAG(A/C)CTGAG intron-variant, upstream-variant-2KB
rs1000699518 -- 35,753,765(+) GACAG(A/G)GGGCT downstream-variant-500B, reference, missense, utr-variant-5-prime
rs1000751991 -- 35,753,433(+) TGTGG(A/G)CCTTT intron-variant, downstream-variant-500B, utr-variant-5-prime

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 GV … Pfeffer SR (The Journal of biological chemistry 2012) 2 3 4 60
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  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 research : an international journal for rapid publication of reports on genes and genomes 1996) 3 4 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. Genome-wide association study identifies multiple loci associated with both mammographic density and breast cancer risk. (PMID: 25342443) Lindström S … Tamimi RM (Nature communications 2014) 3 60

Products for RGP1 Gene

Sources for RGP1 Gene

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