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PRAF2 Gene(Protein Coding)

PRA1 Domain Family Member 2

GCID:
GC0XM049072
GIFtS:
49
Genes Participants
UDN Logo

Aliases for PRAF2 Gene

Aliases for PRAF2 Gene

  • PRA1 Domain Family Member 2 2 3 5
  • PRA1 Domain Family, Member 2 2
  • PRA1 Family Protein 2 3
  • PRA1 Domain Family 2 2
  • Jena-Muenchen 4 3
  • Yip6a 3
  • JM4 3

External Ids for PRAF2 Gene

Previous GeneCards Identifiers for PRAF2 Gene

  • GC0XM048685
  • GC0XM048815
  • GC0XM048928
  • GC0XM046585

Summaries for PRAF2 Gene

GeneCards Summary for PRAF2 Gene

PRAF2 (PRA1 Domain Family Member 2) is a Protein Coding gene. Diseases associated with PRAF2 include Neuroblastoma. An important paralog of this gene is ARL6IP5.

UniProtKB/Swiss-Prot for PRAF2 Gene

  • May be involved in ER/Golgi transport and vesicular traffic. Plays a proapoptic role in cerulenin-induced neuroblastoma apoptosis.

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRAF2 Gene

Genomics for PRAF2 Gene

Products:

  1. Regulatory Element

Regulatory Elements for PRAF2 Gene

Enhancers for PRAF2 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
GH0XG049037 1.4 ENCODE dbSUPER 13.8 +32.9 32940 7.0 HDGF FOXA2 PKNOX1 ARNT ARID4B SIN3A DMAP1 FEZF1 ZNF2 ZBTB7B PRAF2 OTUD5 RNU6-722P SLC38A5 TFE3 PLP2 GC0XM049007
GH0XG048710 1.5 FANTOM5 ENCODE 10.1 +360.5 360538 6.0 HDGF FOXA2 PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 FEZF1 ZNF2 ENSG00000204620 ZNF182 ZNF630 ZNF81 ENSG00000270012 PRAF2 SYP PQBP1 OTUD5 PIM2
GH0XG049099 1.1 ENCODE 12.4 -27.2 -27229 3.1 PKNOX1 CREB3L1 AGO1 ZFP64 ARID4B SIN3A DMAP1 FEZF1 YY1 ZNF143 PRAF2 ENSG00000204620 ENSG00000228343 WDR45 GPKOW
GH0XG048736 1.1 ENCODE 10.2 +336.7 336718 2.4 HDGF PKNOX1 CREB3L1 ARID4B DMAP1 ZNF2 YY1 FOS SP3 NFYC ENSG00000204620 PRICKLE3 ENSG00000270012 ZNF81 PLP2 PRAF2 CCDC120 PQBP1 ENSG00000232828 PIR45163
GH0XG049976 1.1 Ensembl ENCODE 10.1 -904.3 -904287 3.0 ZFP64 ZNF140 ZNF266 FEZF1 ZNF697 POLR2A ZNF354C PRDM10 ZNF433 TCF7L2 USP27X-AS1 MIR532 MIR188 MIR362 MIR500A MIR500B MIR501 PRAF2 CLCN5 GC0XP049999
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PRAF2 on UCSC Golden Path with GeneCards custom track

Promoters for PRAF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000246547 745 2201 PKNOX1 AGO1 SIN3A YY1 ETS1 GLIS2 ZNF143 KLF7 SP3 YY2

Transcription factor binding sites by QIAGEN in the PRAF2 gene promoter:

Genomic Location for PRAF2 Gene

Chromosome:
X
Start:
49,071,156 bp from pter
End:
49,074,071 bp from pter
Size:
2,916 bases
Orientation:
Minus strand

Genomic View for PRAF2 Gene

Genes around PRAF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRAF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRAF2 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for PRAF2 Gene

Proteins for PRAF2 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for PRAF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60831-PRAF2_HUMAN
    Recommended name:
    PRA1 family protein 2
    Protein Accession:
    O60831
    Secondary Accessions:
    • B2RD20

    Protein attributes for PRAF2 Gene

    Size:
    178 amino acids
    Molecular mass:
    19258 Da
    Quaternary structure:
    • Interacts with CCR5 and GDE1.

neXtProt entry for PRAF2 Gene

Protein Expression for PRAF2 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for PRAF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PRAF2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PRAF2 Gene

Domains & Families for PRAF2 Gene

Gene Families for PRAF2 Gene

HGNC:

Protein Domains for PRAF2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PRAF2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O60831

UniProtKB/Swiss-Prot:

PRAF2_HUMAN :
  • Belongs to the PRA1 family.
Family:
  • Belongs to the PRA1 family.
genes like me logo Genes that share domains with PRAF2: view

Function for PRAF2 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for PRAF2 Gene

UniProtKB/Swiss-Prot Function:
May be involved in ER/Golgi transport and vesicular traffic. Plays a proapoptic role in cerulenin-induced neuroblastoma apoptosis.

Phenotypes for PRAF2 Gene

MGI mutant phenotypes for PRAF2:
inferred from 1 alleles
GenomeRNAi human phenotypes for PRAF2:
genes like me logo Genes that share phenotypes with PRAF2: view

Animal Models for PRAF2 Gene

MGI Knock Outs for PRAF2:

Animal Model Products

  • Taconic Biosciences Mouse Models for PRAF2

CRISPR Products

miRNA for PRAF2 Gene

miRTarBase miRNAs that target PRAF2

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PRAF2 Gene

Localization for PRAF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRAF2 Gene

Endosome membrane; Multi-pass membrane protein.

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 PRAF2 gene
Compartment Confidence
endosome 3
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for PRAF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010008 endosome membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PRAF2: view

Pathways & Interactions for PRAF2 Gene

SuperPathways for PRAF2 Gene

PathCards logo More details on SuperPathways for PRAF2
No Data Available

Gene Ontology (GO) - Biological Process for PRAF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
GO:0015031 protein transport IEA --
GO:0015813 L-glutamate transport ISS --
genes like me logo Genes that share ontologies with PRAF2: view

No data available for Pathways by source and SIGNOR curated interactions for PRAF2 Gene

Drugs & Compounds for PRAF2 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for PRAF2 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for PRAF2 Gene

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

Unigene Clusters for PRAF2 Gene

PRA1 domain family, member 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRAF2 Gene

No ASD Table

Relevant External Links for PRAF2 Gene

GeneLoc Exon Structure for
PRAF2
ECgene alternative splicing isoforms for
PRAF2

Expression for PRAF2 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PRAF2 Gene

mRNA expression in normal human tissues for PRAF2 Gene
mRNA expression by BioGPS for PRAF2 GenemRNA expression by GTEx for PRAF2 Gene

Protein differential expression in normal tissues from HIPED for PRAF2 Gene

This gene is overexpressed in Nasal epithelium (8.5) and Fetal testis (8.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PRAF2 Gene



Protein tissue co-expression partners for PRAF2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PRAF2 Gene:

PRAF2

SOURCE GeneReport for Unigene cluster for PRAF2 Gene:

Hs.29595

mRNA Expression by UniProt/SwissProt for PRAF2 Gene:

O60831-PRAF2_HUMAN
Tissue specificity: Strong expression in the brain, small intestine, lung, spleen, and pancreas as well as in tumor tissues of the breast, colon, lung and ovary, with a weaker expression in normal tissues of the same patient. High expression in neuroblastic tumors. Strongly expressed in Purkinje cells and more moderately in cells of the molecular and the granular layers in the cerebellum. Detected in neuronal cells, but not in non-neuronal cells in the cerebral cortex, hippocampus, and lateral ventricles.

Evidence on tissue expression from TISSUES for PRAF2 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with PRAF2: 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 Phenotype-based relationships between genes and organs from Gene ORGANizer for PRAF2 Gene

Orthologs for PRAF2 Gene

This gene was present in the common ancestor of animals.

Orthologs for PRAF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia PRAF2 34
  • 99.44 (n)
cow
(Bos Taurus)
 Mammalia PRAF2 34 35
  • 90.82 (n)
dog
(Canis familiaris)
 Mammalia PRAF2 34 35
  • 89.89 (n)
rat
(Rattus norvegicus)
 Mammalia Praf2 34
  • 87.27 (n)
mouse
(Mus musculus)
 Mammalia Praf2 34 16 35
  • 86.7 (n)
lizard
(Anolis carolinensis)
 Reptilia PRAF2 35
  • 66 (a)
 OneToOne
zebrafish
(Danio rerio)
 Actinopterygii praf2 34 35
  • 58.8 (n)
fruit fly
(Drosophila melanogaster)
 Insecta Jwa 35
  • 29 (a)
 OneToMany
worm
(Caenorhabditis elegans)
 Secernentea praf-3 35
  • 28 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.9659 35
  • 43 (a)
 OneToMany
Species where no ortholog for PRAF2 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)
  • chicken (Gallus gallus)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 PRAF2 Gene

ENSEMBL:
Gene Tree for PRAF2 (if available)
TreeFam:
Gene Tree for PRAF2 (if available)

Paralogs for PRAF2 Gene

Paralogs for PRAF2 Gene

(2) SIMAP similar genes for PRAF2 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with PRAF2: view

Variants for PRAF2 Gene

Sequence variations from dbSNP and Humsavar for PRAF2 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs387907328 Pathogenic 49,074,881(-) CAAAT(-/AT)GTCTT upstream-variant-2KB, reference, frameshift-variant
rs387907329 Pathogenic 49,075,573(-) TGCGC(A/C/T)GAGGC upstream-variant-2KB, reference, synonymous-codon, stop-gained
rs387907330 Pathogenic 49,075,866(-) CTTGT(C/G)GTGAG upstream-variant-2KB, reference, synonymous-codon
rs387907332 Pathogenic 49,075,636(-) CCTCC(C/T)AGAAG upstream-variant-2KB, reference, stop-gained
rs797046102 Pathogenic 49,075,865(-) TTGTG(G/T)TGAGC upstream-variant-2KB, splice-donor-variant

Structural Variations from Database of Genomic Variants (DGV) for PRAF2 Gene

Variant ID Type Subtype PubMed ID
esv32909 CNV gain+loss 17666407
nsv528292 CNV gain 19592680

Variation tolerance for PRAF2 Gene

Residual Variation Intolerance Score: 76.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.49; 10.66% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PRAF2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PRAF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PRAF2 Gene

Disorders for PRAF2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PRAF2 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
neuroblastoma
  • neuroblastoma 1
- elite association - COSMIC cancer census association via MalaCards
Search PRAF2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for PRAF2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PRAF2
genes like me logo Genes that share disorders with PRAF2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PRAF2 Gene

Publications for PRAF2 Gene

  1. Genomic organization, expression profile, and characterization of the new protein PRA1 domain family, member 2 (PRAF2). (PMID: 16481131) Fo C.S. … Bachmann A.S. (Gene 2006) 2 3 4 22 64
  2. Expression profile of PRAF2 in the human brain and enrichment in synaptic vesicles. (PMID: 18395978) Koomoa D.-L. … Bachmann A.S. (Neurosci. Lett. 2008) 3 4 22 64
  3. Expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in neuroblastoma: correlation with clinical features, cellular localization, and cerulenin-mediated apoptosis regulation. (PMID: 17975142) Geerts D. … Bachmann A.S. (Clin. Cancer Res. 2007) 3 4 64
  4. JM4 is a four-transmembrane protein binding to the CCR5 receptor. (PMID: 15757671) Schweneker M. … Moelling K. (FEBS Lett. 2005) 3 4 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for PRAF2 Gene

Sources for PRAF2 Gene

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