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Aliases for RGPD1 Gene

Aliases for RGPD1 Gene

  • RANBP2-Like And GRIP Domain Containing 1 2 3
  • RGP1 3 4 6
  • Ran-Binding Protein 2-Like 6 3 4
  • RanBP2-Like 6 3 4
  • RanBP2L6 3 4
  • RANBP2-Like And GRIP Domain-Containing Protein 1/2 3
  • RANBP2-Like And GRIP Domain-Containing Protein 1 3
  • Ran-Binding Protein 2-Like 2/6 3
  • RanBP2-Like 2/6 3
  • RanBP2L2 3
  • RGPD2 3

External Ids for RGPD1 Gene

Previous GeneCards Identifiers for RGPD1 Gene

  • GC02P087013
  • GC02U900966
  • GC02P086994
  • GC02P087135

Summaries for RGPD1 Gene

GeneCards Summary for RGPD1 Gene

RGPD1 (RANBP2-Like And GRIP Domain Containing 1) is a Protein Coding gene. Diseases associated with RGPD1 include pseudosarcomatous fibromatosis. An important paralog of this gene is PPIE.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RGPD1 Gene

Genomics for RGPD1 Gene

Regulatory Elements for RGPD1 Gene

Genomic Location for RGPD1 Gene

Start:
86,907,953 bp from pter
End:
87,013,981 bp from pter
Size:
106,029 bases
Orientation:
Plus strand

Genomic View for RGPD1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RGPD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RGPD1 Gene

Proteins for RGPD1 Gene

  • Protein details for RGPD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0DJD0-RGPD1_HUMAN
    Recommended name:
    RANBP2-like and GRIP domain-containing protein 1
    Protein Accession:
    P0DJD0
    Secondary Accessions:
    • P0C839
    • Q68DN6
    • Q6V1X0

    Protein attributes for RGPD1 Gene

    Size:
    1748 amino acids
    Molecular mass:
    196662 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • One of the 8 copies of RANBP2 clustered close to the chromosome 2 centromere

neXtProt entry for RGPD1 Gene

Proteomics data for RGPD1 Gene at MOPED

Post-translational modifications for RGPD1 Gene

  • Ubiquitination at Lys97, Lys789, Lys1070, Lys1165, Lys1190, Lys1367, Lys1405, and Lys1433
  • Modification sites at PhosphoSitePlus

Other Protein References for RGPD1 Gene

No data available for DME Specific Peptides for RGPD1 Gene

Domains for RGPD1 Gene

Gene Families for RGPD1 Gene

HGNC:
  • TTC :Tetratricopeptide (TTC) repeat domain containing

Protein Domains for RGPD1 Gene

Graphical View of Domain Structure for InterPro Entry

P0DJD0

UniProtKB/Swiss-Prot:

RGPD1_HUMAN :
  • P0DJD0
Domain:
  • Contains 1 GRIP domain.
  • Contains 2 RanBD1 domains.
Similarity:
  • Contains 3 TPR repeats.
genes like me logo Genes that share domains with RGPD1: view

No data available for Suggested Antigen Peptide Sequences for RGPD1 Gene

Function for RGPD1 Gene

Gene Ontology (GO) - Molecular Function for RGPD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with RGPD1: view

miRNA for RGPD1 Gene

miRTarBase miRNAs that target RGPD1

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for RGPD1 Gene

Localization for RGPD1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RGPD1 Gene COMPARTMENTS Subcellular localization image for RGPD1 gene
Compartment Confidence
cytosol 3
nucleus 2
mitochondrion 1
plasma membrane 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RGPD1 Gene

Pathways for RGPD1 Gene

SuperPathways for RGPD1 Gene

No Data Available

Interacting Proteins for RGPD1 Gene

Gene Ontology (GO) - Biological Process for RGPD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000042 protein targeting to Golgi IEA --
GO:0046907 intracellular transport --
genes like me logo Genes that share ontologies with RGPD1: view

No data available for Pathways by source for RGPD1 Gene

Transcripts for RGPD1 Gene

mRNA/cDNA for RGPD1 Gene

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

Unigene Clusters for RGPD1 Gene

RANBP2-like and GRIP domain containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RGPD1 Gene

No ASD Table

Relevant External Links for RGPD1 Gene

GeneLoc Exon Structure for
RGPD1
ECgene alternative splicing isoforms for
RGPD1

Expression for RGPD1 Gene

mRNA expression in normal human tissues for RGPD1 Gene

mRNA differential expression in normal tissues according to GTEx for RGPD1 Gene

This gene is overexpressed in Testis (16.4), Cervix - Endocervix (13.6), and Pituitary (5.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RGPD1 Gene

SOURCE GeneReport for Unigene cluster for RGPD1 Gene Hs.728970

genes like me logo Genes that share expressions with RGPD1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for RGPD1 Gene

Orthologs for RGPD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RGPD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 95 (a)
OneToMany
cow
(Bos Taurus)
Mammalia RANBP2 35
  • 85.06 (n)
  • 83.97 (a)
mouse
(Mus musculus)
Mammalia Ranbp2 35
  • 87.81 (n)
  • 88.06 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 75 (a)
ManyToMany
-- 36
  • 79 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 36
  • 43 (a)
ManyToMany
-- 36
  • 58 (a)
ManyToMany
-- 36
  • 48 (a)
ManyToMany
RANBP2 35
  • 71.13 (n)
  • 68.91 (a)
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 41 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ranbp2 35
  • 66.51 (n)
  • 62.43 (a)
zebrafish
(Danio rerio)
Actinopterygii si:ch1073-55a19.2 35
  • 56.6 (n)
  • 55.08 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG5071 36
  • 14 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea T22F3.12 36
  • 7 (a)
ManyToMany
Y17G9B.4 36
  • 13 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 4 (a)
OneToMany
Species with no ortholog for RGPD1:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • dog (Canis familiaris)
  • 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)
  • oppossum (Monodelphis domestica)
  • 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 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)
  • wheat (Triticum aestivum)

Evolution for RGPD1 Gene

ENSEMBL:
Gene Tree for RGPD1 (if available)
TreeFam:
Gene Tree for RGPD1 (if available)

Paralogs for RGPD1 Gene

Paralogs for RGPD1 Gene

Selected SIMAP similar genes for RGPD1 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with RGPD1: view

Variants for RGPD1 Gene

Sequence variations from dbSNP and Humsavar for RGPD1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs1127573 -- 86,929,717(-) CCAGC(A/T)aaaaa intron-variant
rs2674112 -- 87,006,067(-) CAGGA(A/G)AAATA intron-variant
rs2674150 -- 86,978,038(-) ACTAT(G/T)TGGAT intron-variant
rs2943623 -- 86,965,778(-) cgcag(C/T)agctc intron-variant
rs3876807 -- 86,980,685(-) cgccc(A/G)gACCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RGPD1 Gene

Variant ID Type Subtype PubMed ID
esv25494 CNV Gain 19812545
nsv7316 OTHER Inversion 18451855
nsv874473 CNV Gain 21882294
dgv1214e1 CNV Complex 17122850
nsv874474 CNV Loss 21882294
nsv519198 CNV Loss 19592680
nsv874475 CNV Loss 21882294
esv33176 CNV Loss 17666407
dgv1215e1 CNV Complex 17122850
nsv2815 CNV Loss 18451855
nsv10064 CNV Gain 18304495
nsv498927 CNV Loss 21111241
nsv508849 CNV Insertion 20534489
nsv516958 CNV Gain+Loss 19592680
dgv61n16 CNV Deletion 17901297
nsv834287 CNV Gain 17160897
nsv834288 CNV Gain 17160897
nsv874574 CNV Gain 21882294
dgv4227n71 CNV Loss 21882294
nsv874577 CNV Gain 21882294
nsv10070 CNV Gain 18304495
nsv820913 CNV Deletion 20802225
esv27348 CNV Gain 19812545
nsv874578 CNV Gain 21882294
nsv829493 CNV Gain 20364138
nsv829494 CNV Gain 20364138
nsv874580 CNV Loss 21882294
esv1743470 CNV Deletion 17803354
nsv10071 CNV Gain 18304495

Relevant External Links for RGPD1 Gene

HapMap Linkage Disequilibrium report
RGPD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RGPD1 Gene

Disorders for RGPD1 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for RGPD1 Gene including...

Search for RGPD1 Gene in MalaCards »

(1) University of Copenhagen DISEASES for RGPD1 Gene

Relevant External Links for RGPD1

Genetic Association Database (GAD)
RGPD1
Human Genome Epidemiology (HuGE) Navigator
RGPD1
genes like me logo Genes that share disorders with RGPD1: view

No data available for UniProtKB/Swiss-Prot for RGPD1 Gene

Publications for RGPD1 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier L.W. … Wilson R.K. (Nature 2005) 2 3 4
  2. Complex genomic rearrangements lead to novel primate gene function. (PMID: 15710750) Ciccarelli F.D. … Bork P. (Genome Res. 2005) 2 3
  3. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 48
  4. Systematic analysis of human protein complexes identifies chromosome segregation proteins. (PMID: 20360068) Hutchins J.R. … Peters J.M. (Science 2010) 3
  5. Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip. (PMID: 19913121) Talmud P.J. … . (Am. J. Hum. Genet. 2009) 3

Products for RGPD1 Gene

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat
  • QIAGEN qRT-PCR Assays for microRNAs that regulate RGPD1
    • QuantiTect SYBR Green Assays in human,mouse,rat
    • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
    • QuantiFast Probe-based Assays in human,mouse,rat
    • Predesigned siRNA for gene silencing in human,mouse,rat for RGPD1
    • Block miRNA regulation of RGPD1 using miScript Target Protectors

    Sources for RGPD1 Gene

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