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Aliases for RGPD1 Gene

Aliases for RGPD1 Gene

  • RANBP2-Like And GRIP Domain Containing 1 2 3 5
  • Ran-Binding Protein 2-Like 6 3 4
  • RanBP2-Like 6 3 4
  • RanBP2L6 3 4
  • RGP1 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. Among its related pathways are RNA transport. An important paralog of this gene is RGPD2.

No data available for Entrez Gene Summary , CIViC 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

Enhancers for RGPD1 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
GH02G086254 0.6 ENCODE dbSUPER 4.6 -652.6 -652608 1.3 RFX1 MRPL35 REEP1 RGPD1 GC02M086172 GC02M086283
GH02G086053 0.5 dbSUPER 4 -852.5 -852543 4.4 RFX1 PKNOX1 MNT PRDM10 POLR1A MRPL35 LOC284950 RNU1-38P RGPD1 GC02M086068 LOC90784
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RGPD1 on UCSC Golden Path with GeneCards custom track

Promoters for RGPD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000119783 527 601

Genomic Location for RGPD1 Gene

Chromosome:
2
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

Genes around RGPD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RGPD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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

Post-translational modifications for RGPD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RGPD1 Gene

Domains & Families for RGPD1 Gene

Gene Families for RGPD1 Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for RGPD1 Gene

Function for RGPD1 Gene

Phenotypes for RGPD1 Gene

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

Animal Model Products

CRISPR Products

miRNA for RGPD1 Gene

miRTarBase miRNAs that target RGPD1

Inhibitory RNA Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RGPD1 Gene

Localization for RGPD1 Gene

Gene Ontology (GO) - Cellular Components for RGPD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with RGPD1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for RGPD1 Gene

Pathways & Interactions for RGPD1 Gene

SuperPathways for RGPD1 Gene

SuperPathway Contained pathways
1 RNA transport
genes like me logo Genes that share pathways with RGPD1: view

Pathways by source for RGPD1 Gene

1 KEGG pathway 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 IEA --
genes like me logo Genes that share ontologies with RGPD1: view

No data available for SIGNOR curated interactions for RGPD1 Gene

Drugs & Compounds for RGPD1 Gene

No Compound Related Data Available

Transcripts for RGPD1 Gene

Unigene Clusters for RGPD1 Gene

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

CRISPR Products

Inhibitory RNA Products

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 from GTEx, Illumina, BioGPS, and CGAP SAGE for RGPD1 Gene

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

This gene is overexpressed in Testis (x16.4), Cervix - Endocervix (x13.6), and Pituitary (x5.5).

Protein differential expression in normal tissues from HIPED for RGPD1 Gene

This gene is overexpressed in Nasal epithelium (57.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for RGPD1 Gene



Protein tissue co-expression partners for RGPD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of RGPD1 Gene:

RGPD1

SOURCE GeneReport for Unigene cluster for RGPD1 Gene:

Hs.728970
genes like me logo Genes that share expression patterns with RGPD1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 -- 35
  • 95 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Ranbp2 34
  • 87.81 (n)
cow
(Bos Taurus)
Mammalia RANBP2 34
  • 85.06 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 79 (a)
ManyToMany
-- 35
  • 75 (a)
ManyToMany
chicken
(Gallus gallus)
Aves RANBP2 34
  • 71.13 (n)
-- 35
  • 58 (a)
ManyToMany
-- 35
  • 48 (a)
ManyToMany
-- 35
  • 43 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 41 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ranbp2 34
  • 66.51 (n)
zebrafish
(Danio rerio)
Actinopterygii si:ch1073-55a19.2 34
  • 56.6 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5071 35
  • 14 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y17G9B.4 35
  • 13 (a)
ManyToMany
T22F3.12 35
  • 7 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 4 (a)
OneToMany
Species where no ortholog for RGPD1 was found in the sources mined by GeneCards:
  • 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

(8) 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
rs1000031346 -- 86,929,788(+) ACAGT(A/C)CCCCA intron-variant
rs1000092262 -- 86,940,166(+) AAGTA(C/T)TTGTT intron-variant, upstream-variant-2KB
rs1000145615 -- 86,918,781(+) AACTT(C/G)TTTTT intron-variant
rs1000146035 -- 86,940,640(+) CCAGA(A/G)GCTGG intron-variant, upstream-variant-2KB
rs1000228908 -- 86,944,183(+) TGAAA(C/T)AGGTA intron-variant

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

Variant ID Type Subtype PubMed ID
dgv1141e212 CNV loss 25503493
dgv3886n100 CNV gain 25217958
dgv3887n100 CNV gain 25217958
dgv3889n100 CNV loss 25217958
dgv3893n100 CNV gain 25217958
dgv3901n100 CNV gain+loss 25217958
dgv3908n100 CNV gain 25217958
dgv61n16 CNV deletion 17901297
dgv6947n54 CNV gain 21841781
dgv714e214 CNV gain 21293372
esv1743470 CNV deletion 17803354
esv25494 CNV gain 19812545
esv27348 CNV gain 19812545
esv2759073 CNV gain+loss 17122850
esv2763649 CNV gain+loss 21179565
esv33176 CNV loss 17666407
esv3559780 CNV deletion 23714750
esv3892915 CNV gain 25118596
nsv10064 CNV gain 18304495
nsv10070 CNV gain 18304495
nsv10071 CNV gain 18304495
nsv1072005 CNV deletion 25765185
nsv1130752 CNV deletion 24896259
nsv1141341 CNV duplication 24896259
nsv1148611 CNV deletion 26484159
nsv2815 CNV deletion 18451855
nsv498927 CNV loss 21111241
nsv508849 CNV insertion 20534489
nsv516958 CNV gain+loss 19592680
nsv519198 CNV loss 19592680
nsv582382 CNV gain 21841781
nsv582383 CNV gain 21841781
nsv7316 OTHER inversion 18451855
nsv820913 CNV deletion 20802225
nsv829493 CNV gain 20364138
nsv829494 CNV gain 20364138
nsv834287 CNV gain 17160897
nsv834288 CNV gain 17160897
nsv955219 CNV duplication 24416366
nsv955226 CNV duplication 24416366
nsv956666 CNV deletion 24416366
nsv961581 CNV duplication 23825009
nsv961808 CNV duplication 23825009
nsv961809 CNV duplication 23825009
nsv961810 CNV duplication 23825009
nsv963632 CNV duplication 23825009
nsv963633 CNV duplication 23825009
nsv979033 CNV duplication 23825009
nsv979034 CNV duplication 23825009
nsv979040 CNV duplication 23825009

Variation tolerance for RGPD1 Gene

Gene Damage Index Score: 1.84; 34.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RGPD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RGPD1

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

Disorders for RGPD1 Gene

Relevant External Links for RGPD1

Genetic Association Database (GAD)
RGPD1
Human Genome Epidemiology (HuGE) Navigator
RGPD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RGPD1

No disorders were found for RGPD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 64
  2. 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 46 64
  3. Complex genomic rearrangements lead to novel primate gene function. (PMID: 15710750) Ciccarelli F.D. … Bork P. (Genome Res. 2005) 2 3 64
  4. Quantitative Proteomics Reveals Dynamic Interactions of the Minichromosome Maintenance Complex (MCM) in the Cellular Response to Etoposide Induced DNA Damage. (PMID: 25963833) Drissi R. … Boisvert F.M. (Mol. Cell Proteomics 2015) 3 64
  5. A Dynamic Protein Interaction Landscape of the Human Centrosome-Cilium Interface. (PMID: 26638075) Gupta G.D. … Pelletier L. (Cell 2015) 3 64

Products for RGPD1 Gene

Sources for RGPD1 Gene

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