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Aliases for RFPL3 Gene

Aliases for RFPL3 Gene

  • Ret Finger Protein Like 3 2 3 5

External Ids for RFPL3 Gene

Previous GeneCards Identifiers for RFPL3 Gene

  • GC22P029449
  • GC22P031075
  • GC22P031078
  • GC22P032750
  • GC22P015708

Summaries for RFPL3 Gene

GeneCards Summary for RFPL3 Gene

RFPL3 (Ret Finger Protein Like 3) is a Protein Coding gene. An important paralog of this gene is RFPL1.

Additional gene information for RFPL3 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 RFPL3 Gene

Genomics for RFPL3 Gene

Regulatory Elements for RFPL3 Gene

Enhancers for RFPL3 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
GH22H032266 0.9 Ensembl ENCODE 10.7 -88.6 -88630 0 CTCF ZNF654 NFIA TRIM22 REST BATF RAD21 YY1 NFIC ZNF692 ENSG00000234626 RFPL3 IGLVIVOR22-2 LOC339666 RFPL3S ENSG00000241954 LOC100422292 SLC5A1 CPSF1P1 RFPL2
GH22H032473 1.7 FANTOM5 ENCODE dbSUPER 3.5 +120.8 120835 4 PKNOX1 FOXA2 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 ZNF207 SP3 FBXO7 BPIFC EIF4ENIF1 SLC5A4 RFPL3 C22orf42 RFPL2 PIR46477
GH22H032042 0.9 FANTOM5 ENCODE dbSUPER 5.1 -310.9 -310850 3 REST RFPL2 RFPL3 SLC5A1 SLC5A4 PIR57309
GH22H032423 0.6 FANTOM5 4.3 +68.8 68824 0 TBP POLR2A SMAD5 LOC100422292 ENSG00000241954 RFPL3S LOC339666 IGLVIVOR22-2 BPIFC FBXO7 RFPL3 TIMP3 PIR41331
GH22H032410 1.2 FANTOM5 ENCODE 2 +56.7 56663 2 ATF1 ARID4B SIN3A FEZF1 DMAP1 YY1 GLIS2 ZNF143 ZNF207 FOS LOC100422292 FBXO7 ENSG00000241954 RFPL3S LOC339666 IGLVIVOR22-2 BPIFC RTCB RFPL2 RFPL3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RFPL3 on UCSC Golden Path with GeneCards custom track

Genomic Location for RFPL3 Gene

Chromosome:
22
Start:
32,354,885 bp from pter
End:
32,361,161 bp from pter
Size:
6,277 bases
Orientation:
Plus strand

Genomic View for RFPL3 Gene

Genes around RFPL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RFPL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RFPL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RFPL3 Gene

Proteins for RFPL3 Gene

  • Protein details for RFPL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75679-RFPL3_HUMAN
    Recommended name:
    Ret finger protein-like 3
    Protein Accession:
    O75679
    Secondary Accessions:
    • A2A279
    • Q6IC03
    • Q6IC04
    • Q6NSX3
    • Q8N5R4

    Protein attributes for RFPL3 Gene

    Size:
    317 amino acids
    Molecular mass:
    35386 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=CAA09046.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for RFPL3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RFPL3 Gene

Post-translational modifications for RFPL3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RFPL3 Gene

No data available for DME Specific Peptides for RFPL3 Gene

Domains & Families for RFPL3 Gene

Gene Families for RFPL3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for RFPL3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RFPL3: view

No data available for UniProtKB/Swiss-Prot for RFPL3 Gene

Function for RFPL3 Gene

Molecular function for RFPL3 Gene

GENATLAS Biochemistry:
ret finger protein-like 3,B box family

Gene Ontology (GO) - Molecular Function for RFPL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with RFPL3: view
genes like me logo Genes that share phenotypes with RFPL3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RFPL3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RFPL3 Gene

Localization for RFPL3 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 RFPL3 gene
Compartment Confidence
extracellular 2
mitochondrion 1
nucleus 1
cytosol 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for RFPL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with RFPL3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for RFPL3 Gene

Pathways & Interactions for RFPL3 Gene

SuperPathways for RFPL3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for RFPL3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RFPL3 Gene

Drugs & Compounds for RFPL3 Gene

No Compound Related Data Available

Transcripts for RFPL3 Gene

mRNA/cDNA for RFPL3 Gene

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

Unigene Clusters for RFPL3 Gene

Ret finger protein-like 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for RFPL3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for RFPL3 Gene

No ASD Table

Relevant External Links for RFPL3 Gene

GeneLoc Exon Structure for
RFPL3
ECgene alternative splicing isoforms for
RFPL3

Expression for RFPL3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RFPL3 Gene

mRNA differential expression in normal tissues according to GTEx for RFPL3 Gene

This gene is overexpressed in Testis (x34.0) and Brain - Cerebellar Hemisphere (x4.3).

NURSA nuclear receptor signaling pathways regulating expression of RFPL3 Gene:

RFPL3

SOURCE GeneReport for Unigene cluster for RFPL3 Gene:

Hs.558455

Evidence on tissue expression from TISSUES for RFPL3 Gene

  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with RFPL3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RFPL3 Gene

Orthologs for RFPL3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RFPL3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RFPL3 33
  • 98.26 (n)
-- 34
  • 87 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 34
  • 57 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 40 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 26 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia -- 34
  • 25 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Mefv 34
  • 5 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 13 (a)
ManyToMany
Species where no ortholog for RFPL3 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for RFPL3 Gene

ENSEMBL:
Gene Tree for RFPL3 (if available)
TreeFam:
Gene Tree for RFPL3 (if available)

Paralogs for RFPL3 Gene

Paralogs for RFPL3 Gene

(14) SIMAP similar genes for RFPL3 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for RFPL3 Gene

genes like me logo Genes that share paralogs with RFPL3: view

Variants for RFPL3 Gene

Sequence variations from dbSNP and Humsavar for RFPL3 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs1000079594 -- 32,358,515(+) GCCCC(G/T)CATTC intron-variant, reference, synonymous-codon
rs1000201332 -- 32,354,326(+) TGTAA(A/T)GAGCC intron-variant, upstream-variant-2KB
rs1000587950 -- 32,355,456(+) TTCCA(C/T)CCGAG intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001199618 -- 32,358,876(+) GAATA(C/T)TGGCA intron-variant, utr-variant-3-prime
rs1001408569 -- 32,355,075(+) CCCCC(-/T)ACTTG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RFPL3 Gene

Variant ID Type Subtype PubMed ID
esv2422247 CNV duplication 17116639
esv3575476 CNV gain 25503493
esv3893474 CNV gain 25118596
nsv459874 CNV gain 19166990
nsv588895 CNV gain 21841781
nsv964624 CNV duplication 23825009
nsv979671 CNV duplication 23825009

Variation tolerance for RFPL3 Gene

Residual Variation Intolerance Score: 92.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.32; 76.67% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RFPL3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RFPL3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RFPL3 Gene

Disorders for RFPL3 Gene

Relevant External Links for RFPL3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RFPL3

No disorders were found for RFPL3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RFPL3 Gene

Publications for RFPL3 Gene

  1. Duplications on human chromosome 22 reveal a novel Ret Finger Protein-like gene family with sense and endogenous antisense transcripts. (PMID: 10508838) Seroussi E … Dumanski JP (Genome research 1999) 2 3 4 22 60
  2. A genome annotation-driven approach to cloning the human ORFeome. (PMID: 15461802) Collins JE … Dunham I (Genome biology 2004) 3 4 60
  3. The DNA sequence of human chromosome 22. (PMID: 10591208) Dunham I … O'Brien KP (Nature 1999) 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. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 60

Products for RFPL3 Gene

Sources for RFPL3 Gene

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