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Aliases for RDM1 Gene

Aliases for RDM1 Gene

  • RAD52 Motif Containing 1 2 3 5
  • RAD52 Homolog B 3 4
  • RAD52 Motif 1 2 3
  • RAD52B 3 4
  • RAD52 Motif-Containing Protein 1 3
  • RAD52 Homolog B (S. Cerevisiae) 2

External Ids for RDM1 Gene

Previous HGNC Symbols for RDM1 Gene

  • RAD52B

Previous GeneCards Identifiers for RDM1 Gene

  • GC17M031270
  • GC17M034246
  • GC17M030430
  • GC17M034248
  • GC17M034274
  • GC17M034305
  • GC17M034332
  • GC17M034383

Summaries for RDM1 Gene

Entrez Gene Summary for RDM1 Gene

  • This gene encodes a protein involved in the cellular response to cisplatin, a drug commonly used in chemotherapy. The protein encoded by this gene contains two motifs: a motif found in RAD52, a protein that functions in DNA double-strand breaks and homologous recombination, and an RNA recognition motif (RRM) that is not found in RAD52. The RAD52 motif region in RAD52 is important for protein function and may be involved in DNA binding or oligomerization. Alternatively spliced transcript variants encoding different isoforms have been reported. [provided by RefSeq, Jul 2008]

GeneCards Summary for RDM1 Gene

RDM1 (RAD52 Motif Containing 1) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and nucleotide binding.

UniProtKB/Swiss-Prot for RDM1 Gene

  • May confer resistance to the antitumor agent cisplatin. Binds to DNA and RNA.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RDM1 Gene

Genomics for RDM1 Gene

Regulatory Elements for RDM1 Gene

Enhancers for RDM1 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
GH17F035941 0.8 ENCODE 8.6 -12.0 -11979 1.8 PKNOX1 TAL1 FEZF1 GATA2 NCOR1 PRDM10 TRIM24 NR2F6 ZNF600 MAFK CCL5 CCL18 RDM1 C17orf50 RASL10B MMP28 GC17M036027 LYZL6
GH17F035783 1.1 Ensembl ENCODE 5.5 +144.3 144327 6.9 TBP ZNF133 KLF17 RAD21 ZEB1 YY1 RCOR1 FOS CEBPB REST C17orf50 GAS2L2 TAF15 RASL10B MMP28 RDM1 HEATR9 GC17P035762
GH17F035807 1.1 ENCODE 5.5 +121.5 121459 3.9 PKNOX1 ARNT CREB3L1 MLX WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ENSG00000267321 C17orf50 GAS2L2 MMP28 HEATR9 RDM1 AP2B1 ENSG00000270829 ENSG00000270894
GH17F036072 1.1 FANTOM5 ENCODE 1.2 -142.0 -142003 0.4 HDGF CTCF TBL1XR1 ZMYM3 RAD21 RELA ZFHX2 EGR1 EED ZNF143 HEATR9 LYZL6 C17orf50 CCL5 MYO19 RDM1 ENSG00000277089 CCL18
GH17F035791 0.2 Ensembl 5.4 +138.9 138911 0.2 RDM1 MMP28 GC17P035762
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around RDM1 on UCSC Golden Path with GeneCards custom track

Promoters for RDM1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001344892 211 1201 HDGF TBP HDAC1 ATF1 SIN3A ZEB1 ETS1 EGR1 ZNF366 SCRT2

Genomic Location for RDM1 Gene

Chromosome:
17
Start:
35,918,066 bp from pter
End:
35,930,811 bp from pter
Size:
12,746 bases
Orientation:
Minus strand

Genomic View for RDM1 Gene

Genes around RDM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RDM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RDM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RDM1 Gene

Proteins for RDM1 Gene

neXtProt entry for RDM1 Gene

Post-translational modifications for RDM1 Gene

  • Ubiquitination at Lys 100 and Lys 197
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RDM1 Gene

Domains & Families for RDM1 Gene

Gene Families for RDM1 Gene

Protein Domains for RDM1 Gene

Suggested Antigen Peptide Sequences for RDM1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8NG50

UniProtKB/Swiss-Prot:

RDM1_HUMAN :
  • C-terminal half (amino acids 134-284) contains cytoplasmic retention domains as well as determinants involved in its stress-induced nucleolar accumulation.
Domain:
  • C-terminal half (amino acids 134-284) contains cytoplasmic retention domains as well as determinants involved in its stress-induced nucleolar accumulation.
  • Contains 1 RRM (RNA recognition motif) domain.
genes like me logo Genes that share domains with RDM1: view

Function for RDM1 Gene

Molecular function for RDM1 Gene

UniProtKB/Swiss-Prot Function:
May confer resistance to the antitumor agent cisplatin. Binds to DNA and RNA.
UniProtKB/Swiss-Prot Induction:
Heat-shock stress up-regulated mRNA expression of isoform 10 and isoform 11. Heat-shock stress down-regulated short N-terminal mRNA expression of isoform 2, isoform 4, isoform 6 and isoform 9.

Gene Ontology (GO) - Molecular Function for RDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with RDM1: view
genes like me logo Genes that share phenotypes with RDM1: view

Animal Model Products

miRNA for RDM1 Gene

miRTarBase miRNAs that target RDM1

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RDM1 Gene

Localization for RDM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RDM1 Gene

Nucleus. Cytoplasm. Nucleus, nucleolus. Note=Isoform 3 and isoform 10 are predominantly nuclear and nucleolar. After treatment with proteasomal inhibitors and mild heat-shock stress, isoform 1, isoform 3, isoform 5, isoform 7, isoform 8 and isoform 10 are relocalized to the nucleolus as dot-like or irregular subnuclear structures. Isoform 1 colocalized with nuclear promyelocytic leukemia (PML) and Cajal bodies (CB); this association with nuclear bodies is enhanced in response to proteotoxic stress. Isoform 3, but not isoform 1 and isoform 5, is relocalized in nucleolar caps during transcriptional arrest.
Isoform 1: Cytoplasm. Nucleus, PML body. Nucleus, Cajal body. Note=Isoform 1 is predominantly cytoplasmic. Isoform 1 colocalized with nuclear promyelocytic leukemia (PML) and Cajal bodies (CB); this association with nuclear bodies is enhanced in response to proteotoxic stress.

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 RDM1 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
extracellular 1
mitochondrion 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for RDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IEA --
GO:0005737 cytoplasm IEA --
GO:0015030 Cajal body IEA --
GO:0016605 PML body IEA --
genes like me logo Genes that share ontologies with RDM1: view

Pathways & Interactions for RDM1 Gene

No Data Available

Interacting Proteins for RDM1 Gene

Gene Ontology (GO) - Biological Process for RDM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006281 DNA repair IEA --
GO:0006310 DNA recombination IEA --
genes like me logo Genes that share ontologies with RDM1: view

No data available for Pathways by source and SIGNOR curated interactions for RDM1 Gene

Transcripts for RDM1 Gene

Unigene Clusters for RDM1 Gene

RAD52 motif 1:
Representative Sequences:

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for RDM1 Gene

No ASD Table

Relevant External Links for RDM1 Gene

GeneLoc Exon Structure for
RDM1
ECgene alternative splicing isoforms for
RDM1

Expression for RDM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RDM1 Gene

mRNA differential expression in normal tissues according to GTEx for RDM1 Gene

This gene is overexpressed in Testis (x24.0).

NURSA nuclear receptor signaling pathways regulating expression of RDM1 Gene:

RDM1

SOURCE GeneReport for Unigene cluster for RDM1 Gene:

Hs.194411

mRNA Expression by UniProt/SwissProt for RDM1 Gene:

Q8NG50-RDM1_HUMAN
Tissue specificity: Expressed in testis.
genes like me logo Genes that share expression patterns with RDM1: 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 and Protein tissue co-expression partners for RDM1 Gene

Orthologs for RDM1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RDM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RDM1 34
  • 99.18 (n)
cow
(Bos Taurus)
Mammalia LOC513486 34
  • 85.45 (n)
dog
(Canis familiaris)
Mammalia LOC100683711 34
  • 82.31 (n)
rat
(Rattus norvegicus)
Mammalia Rdm1 34
  • 77.02 (n)
mouse
(Mus musculus)
Mammalia Rdm1 34 16
  • 76.41 (n)
chicken
(Gallus gallus)
Aves RDM1 34
  • 61.55 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia rdm1 34
  • 59.57 (n)
zebrafish
(Danio rerio)
Actinopterygii zgc:103564 34
  • 50.13 (n)
Species where no ortholog for RDM1 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)
  • 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)
  • lizard (Anolis carolinensis)
  • 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 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for RDM1 Gene

ENSEMBL:
Gene Tree for RDM1 (if available)
TreeFam:
Gene Tree for RDM1 (if available)

Paralogs for RDM1 Gene

No data available for Paralogs for RDM1 Gene

Variants for RDM1 Gene

Sequence variations from dbSNP and Humsavar for RDM1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs11080363 -- 35,932,425(+) cccca(A/C)gctct intron-variant, upstream-variant-2KB
rs111252448 -- 35,932,687(+) ATTTG(C/T)TAGTT intron-variant, upstream-variant-2KB
rs111321080 -- 35,917,609(+) CATTC(A/G)GATCC intron-variant, downstream-variant-500B
rs112024908 -- 35,928,804(+) GGCAC(A/T)GTGGC intron-variant
rs112095324 -- 35,918,049(+) AACCG(C/T)GGCCC intron-variant, downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for RDM1 Gene

Variant ID Type Subtype PubMed ID
nsv960468 CNV duplication 23825009
nsv833424 CNV gain 17160897
nsv2039 CNV insertion 18451855
nsv1079030 OTHER inversion 25765185
nsv1059795 CNV gain 25217958
esv3892999 CNV loss 25118596
esv3582619 CNV loss 25503493

Variation tolerance for RDM1 Gene

Residual Variation Intolerance Score: 83.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.97; 89.93% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for RDM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RDM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RDM1 Gene

Disorders for RDM1 Gene

Relevant External Links for RDM1

Genetic Association Database (GAD)
RDM1
Human Genome Epidemiology (HuGE) Navigator
RDM1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RDM1

No disorders were found for RDM1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RDM1 Gene

Publications for RDM1 Gene

  1. RDM1, a novel RNA recognition motif (RRM)-containing protein involved in the cell response to cisplatin in vertebrates. (PMID: 15611051) Hamimes S. … Van Dyck E. (J. Biol. Chem. 2005) 2 3 4 22 64
  2. Subcellular distribution of human RDM1 protein isoforms and their nucleolar accumulation in response to heat shock and proteotoxic stress. (PMID: 17905820) Messaoudi L. … Van Dyck E. (Nucleic Acids Res. 2007) 3 4 64
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3 64
  5. Single-nucleotide polymorphisms, acute rejection, and severity of tubulitis in kidney transplantation, accounting for center-to-center variation. (PMID: 21085059) Israni A. … Oetting W.S. (Transplantation 2010) 46 64

Products for RDM1 Gene

Sources for RDM1 Gene

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