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Aliases for RGPD2 Gene

Aliases for RGPD2 Gene

  • RANBP2-Like And GRIP Domain Containing 2 2 3 5
  • Ran-Binding Protein 2-Like 2 3 4
  • RanBP2-Like 2 3 4
  • RanBP2L2 3 4
  • RGP2 3 4
  • RANBP2-Like And GRIP Domain-Containing Protein 2 3
  • Ran Binding Protein 2-Like 2 3
  • Nucleoporin 3
  • NUP358 3

External Ids for RGPD2 Gene

Previous GeneCards Identifiers for RGPD2 Gene

  • GC02M087917
  • GC02P086988
  • GC02M088055

Summaries for RGPD2 Gene

GeneCards Summary for RGPD2 Gene

RGPD2 (RANBP2-Like And GRIP Domain Containing 2) is a Protein Coding gene. Among its related pathways are RNA transport. An important paralog of this gene is RGPD1.

Additional gene information for RGPD2 Gene

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 RGPD2 Gene

Genomics for RGPD2 Gene

Regulatory Elements for RGPD2 Gene

Enhancers for RGPD2 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
GH02H088239 1 FANTOM5 ENCODE 1.5 -254.1 -254109 0 TFAP4 ZNF687 RNF2 NR2F1 BHLHE40 BMI1 IKZF1 NBN ATF7 MLLT1 THNSL2 RGPD2 EIF2AK3 RNY4P15 GC02M088230 GC02P088321
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RGPD2 on UCSC Golden Path with GeneCards custom track

Genomic Location for RGPD2 Gene

Chromosome:
2
Start:
87,755,955 bp from pter
End:
87,985,814 bp from pter
Size:
229,860 bases
Orientation:
Minus strand

Genomic View for RGPD2 Gene

Genes around RGPD2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RGPD2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RGPD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RGPD2 Gene

Proteins for RGPD2 Gene

  • Protein details for RGPD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0DJD1-RGPD2_HUMAN
    Recommended name:
    RANBP2-like and GRIP domain-containing protein 2
    Protein Accession:
    P0DJD1
    Secondary Accessions:
    • P0C839
    • Q68DN6
    • Q6V1X0

    Protein attributes for RGPD2 Gene

    Size:
    1756 amino acids
    Molecular mass:
    197308 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • One of the 8 copies of RANBP2 clustered close to the chromosome 2 centromere.
    SequenceCaution:
    • Sequence=AAQ63888.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};

neXtProt entry for RGPD2 Gene

Post-translational modifications for RGPD2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RGPD2 Gene

Domains & Families for RGPD2 Gene

Gene Families for RGPD2 Gene

Suggested Antigen Peptide Sequences for RGPD2 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RGPD2: view

No data available for UniProtKB/Swiss-Prot for RGPD2 Gene

Function for RGPD2 Gene

Phenotypes From GWAS Catalog for RGPD2 Gene

Phenotypes for RGPD2 Gene

GenomeRNAi human phenotypes for RGPD2:
genes like me logo Genes that share phenotypes with RGPD2: view

Animal Model Products

CRISPR Products

miRNA for RGPD2 Gene

miRTarBase miRNAs that target RGPD2

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGPD2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 RGPD2 Gene

Localization for RGPD2 Gene

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 RGPD2 gene
Compartment Confidence
nucleus 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear membrane (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RGPD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
genes like me logo Genes that share ontologies with RGPD2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RGPD2 Gene

Pathways & Interactions for RGPD2 Gene

SuperPathways for RGPD2 Gene

SuperPathway Contained pathways
1 RNA transport
genes like me logo Genes that share pathways with RGPD2: view

Pathways by source for RGPD2 Gene

1 KEGG pathway for RGPD2 Gene

Gene Ontology (GO) - Biological Process for RGPD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046907 intracellular transport IEA --
genes like me logo Genes that share ontologies with RGPD2: view

No data available for SIGNOR curated interactions for RGPD2 Gene

Drugs & Compounds for RGPD2 Gene

No Compound Related Data Available

Transcripts for RGPD2 Gene

mRNA/cDNA for RGPD2 Gene

(7) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RGPD2 Gene

RANBP2-like and GRIP domain containing 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RGPD2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for RGPD2 Gene

No ASD Table

Relevant External Links for RGPD2 Gene

GeneLoc Exon Structure for
RGPD2
ECgene alternative splicing isoforms for
RGPD2

Expression for RGPD2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RGPD2 Gene

mRNA differential expression in normal tissues according to GTEx for RGPD2 Gene

This gene is overexpressed in Cervix - Endocervix (x10.0) and Testis (x8.5).

Protein differential expression in normal tissues from HIPED for RGPD2 Gene

This gene is overexpressed in Serum (38.7) and Heart (30.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for RGPD2 Gene



Protein tissue co-expression partners for RGPD2 Gene

NURSA nuclear receptor signaling pathways regulating expression of RGPD2 Gene:

RGPD2

SOURCE GeneReport for Unigene cluster for RGPD2 Gene:

Hs.652430
genes like me logo Genes that share expression patterns with RGPD2: 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 RGPD2 Gene

Orthologs for RGPD2 Gene

This gene was present in the common ancestor of animals.

Orthologs for RGPD2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 34
  • 94 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Ranbp2 33
  • 87.81 (n)
cow
(Bos Taurus)
Mammalia RANBP2 33
  • 84.97 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 79 (a)
ManyToMany
-- 34
  • 75 (a)
ManyToMany
chicken
(Gallus gallus)
Aves RANBP2 33
  • 71.08 (n)
-- 34
  • 60 (a)
ManyToMany
-- 34
  • 48 (a)
ManyToMany
-- 34
  • 44 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 42 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ranbp2 33
  • 66.37 (n)
zebrafish
(Danio rerio)
Actinopterygii si:ch1073-55a19.2 33
  • 56.72 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5071 34
  • 14 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea Y17G9B.4 34
  • 13 (a)
ManyToMany
T22F3.12 34
  • 7 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 4 (a)
OneToMany
Species where no ortholog for RGPD2 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 RGPD2 Gene

ENSEMBL:
Gene Tree for RGPD2 (if available)
TreeFam:
Gene Tree for RGPD2 (if available)

Paralogs for RGPD2 Gene

(8) SIMAP similar genes for RGPD2 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RGPD2: view

Variants for RGPD2 Gene

Sequence variations from dbSNP and Humsavar for RGPD2 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000062645 -- 87,923,865(+) GTTTG(G/T)CACAG intron-variant
rs1000116964 -- 87,841,319(+) AAGCT(C/G)AGCAG intron-variant
rs1000150387 -- 87,858,627(+) TTTTT(A/T)AAATT intron-variant
rs1000197961 -- 87,853,885(+) TAGAG(A/C)AGATT intron-variant
rs1000215405 -- 87,936,351(+) AAGAG(G/T)TAATC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RGPD2 Gene

Variant ID Type Subtype PubMed ID
dgv1141e212 CNV loss 25503493
dgv1946n106 CNV deletion 24896259
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
esv25494 CNV gain 19812545
esv27348 CNV gain 19812545
esv2759073 CNV gain+loss 17122850
esv2763649 CNV gain+loss 21179565
esv33176 CNV loss 17666407
nsv10064 CNV gain 18304495
nsv10070 CNV gain 18304495
nsv1072005 CNV deletion 25765185
nsv1072420 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
nsv7316 OTHER inversion 18451855
nsv820913 CNV deletion 20802225
nsv834287 CNV gain 17160897
nsv834288 CNV gain 17160897
nsv955218 CNV deletion 24416366
nsv955219 CNV duplication 24416366
nsv955226 CNV duplication 24416366
nsv961430 CNV duplication 23825009
nsv961580 CNV duplication 23825009
nsv961581 CNV duplication 23825009
nsv961808 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 RGPD2 Gene

Gene Damage Index Score: 2.81; 47.65% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RGPD2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RGPD2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RGPD2 Gene

Disorders for RGPD2 Gene

Relevant External Links for RGPD2

Genetic Association Database (GAD)
RGPD2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RGPD2

No disorders were found for RGPD2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RGPD2 Gene

Publications for RGPD2 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 2 3 4 60
  2. Complex genomic rearrangements lead to novel primate gene function. (PMID: 15710750) Ciccarelli FD … Bork P (Genome research 2005) 2 3 60
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C … Emili A (Nature 2015) 3 60
  5. 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 FM (Molecular & cellular proteomics : MCP 2015) 3 60

Products for RGPD2 Gene

Sources for RGPD2 Gene

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